Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 7 of 410
Found at i:1891700 original size:24 final size:24
Alignment explanation
Indices: 1891680--1891725 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1891670 TAATAAATTT
1891680 ATAAAATTATTAA-ATTTTAAAATA
1 ATAAAA-TATTAATATTTTAAAATA
*
1891704 ATATAATATTAATATTTTAAAA
1 ATAAAATATTAATATTTTAAAA
1891726 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAAATATTAATATTTTAAAATA
Found at i:1902116 original size:37 final size:37
Alignment explanation
Indices: 1902066--1902141 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
1902056 ATCATTTGGT
1902066 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
* * *
1902103 CTTGGAATCAAATTCCAGTTTAATAGGATCAATGTTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1902140 CT
1 CT
1902142 ACACCAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (37 bp):
CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
Found at i:1909403 original size:26 final size:24
Alignment explanation
Indices: 1909372--1909441 Score: 81
Period size: 26 Copynumber: 2.9 Consensus size: 24
1909362 TAAGTTGTAT
1909372 AAGACAATTTTAAATAAATATACGTA
1 AAGACAATTTTAAATAAATATA--TA
*
1909398 AAGACAAGTTTAAGAT-AATATATA
1 AAGACAATTTTAA-ATAAATATATA
*
1909422 AAGA-AATTTAAAATAAATAT
1 AAGACAATTTTAAATAAATAT
1909442 TAAGAGGCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 11 0.28
24 6 0.15
26 18 0.46
27 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAGACAATTTTAAATAAATATATA
Found at i:1909497 original size:28 final size:27
Alignment explanation
Indices: 1909452--1909522 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 27
1909442 TAAGAGGCTC
*
1909452 AAAAT-AATAAAATGTAAAAAGAAATTT
1 AAAATAAATAAAATATAAAAA-AAATTT
*
1909479 AAAATAAAT--AATAT-ATAAAAATTT
1 AAAATAAATAAAATATAAAAAAAATTT
* *
1909503 AAAGTAAATAACATATAAAA
1 AAAATAAATAAAATATAAAA
1909523 CAGTTTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
24 14 0.40
25 3 0.09
26 8 0.23
27 7 0.20
28 3 0.09
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (27 bp):
AAAATAAATAAAATATAAAAAAAATTT
Found at i:1909529 original size:26 final size:24
Alignment explanation
Indices: 1909473--1909560 Score: 95
Period size: 24 Copynumber: 3.5 Consensus size: 24
1909463 ATGTAAAAAG
*
1909473 AAATTTAAAATAAATAATATATAA
1 AAATTTAAAATAAATAACATATAA
*
1909497 AAATTTAAAGTAAATAACATATAA
1 AAATTTAAAATAAATAACATATAA
* * *
1909521 AACAGTTTAAATTAAATATTACACATGA
1 AA-A-TTTAAAATAAATA--ACATATAA
1909549 AAATTTAAAATA
1 AAATTTAAAATA
1909561 GGACATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 24 0.44
25 1 0.02
26 20 0.37
27 1 0.02
28 8 0.15
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (24 bp):
AAATTTAAAATAAATAACATATAA
Found at i:1909600 original size:17 final size:17
Alignment explanation
Indices: 1909580--1909613 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1909570 TAAAATAATC
*
1909580 TAAAGTAAAGAATATAT
1 TAAAATAAAGAATATAT
*
1909597 TAAAATAAATAATATAT
1 TAAAATAAAGAATATAT
1909614 GGGAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
TAAAATAAAGAATATAT
Found at i:1913851 original size:27 final size:27
Alignment explanation
Indices: 1913813--1913866 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1913803 TAGATTCTTC
**
1913813 CTAATATCTTCTACATGGAGTATATTG
1 CTAATATCTTCTACATACAGTATATTG
1913840 CTAATATCTTCTACATACAGTATATTG
1 CTAATATCTTCTACATACAGTATATTG
1913867 TTAAGGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (27 bp):
CTAATATCTTCTACATACAGTATATTG
Found at i:1920664 original size:14 final size:15
Alignment explanation
Indices: 1920648--1920690 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
1920638 GAAAATCTTA
1920648 TTTTATTTTATTTAT
1 TTTTATTTTATTTAT
*
1920663 TTTTATTTATTTTTAT
1 TTTTATTT-TATTTAT
1920679 TTTTGATTTTAT
1 TTTT-ATTTTAT
1920691 ATTAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 8 0.33
16 12 0.50
17 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTATTTTATTTAT
Found at i:1922561 original size:15 final size:15
Alignment explanation
Indices: 1922541--1922574 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1922531 GATACTCTTC
1922541 TAATCAAATTCTAAT
1 TAATCAAATTCTAAT
1922556 TAATCAAATTCTAAT
1 TAATCAAATTCTAAT
1922571 TAAT
1 TAAT
1922575 GATGGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATCAAATTCTAAT
Found at i:1928397 original size:2 final size:2
Alignment explanation
Indices: 1928390--1928414 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1928380 ATGTAATGTG
1928390 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1928415 TTCATATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1935940 original size:15 final size:16
Alignment explanation
Indices: 1935917--1935954 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1935907 TTTAAAAATT
* *
1935917 ATAAAAAAATCACAAA
1 ATAAAAAATTCAAAAA
1935933 ATAAAAAATTCAAAAA
1 ATAAAAAATTCAAAAA
1935949 ATAAAA
1 ATAAAA
1935955 TAAAAATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (16 bp):
ATAAAAAATTCAAAAA
Found at i:1946839 original size:11 final size:10
Alignment explanation
Indices: 1946815--1946876 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
1946805 ATCAAATATT
*
1946815 TATTTTATAA
1 TATTTTAAAA
1946825 TATTTTAGAAA
1 TATTTTA-AAA
*
1946836 TATTATAAAA
1 TATTTTAAAA
1946846 TA-TTTAAAA
1 TATTTTAAAA
1946855 TATACATTTAAAA
1 TAT---TTTAAAA
*
1946868 TATTATAAA
1 TATTTTAAA
1946877 TAAATAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.19
10 17 0.40
11 8 0.19
13 10 0.23
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:1946843 original size:19 final size:19
Alignment explanation
Indices: 1946819--1946857 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1946809 AATATTTATT
*
1946819 TTATAATAT-TTTAGAAATA
1 TTATAAAATATTTA-AAATA
1946838 TTATAAAATATTTAAAATA
1 TTATAAAATATTTAAAATA
1946857 T
1 T
1946858 ACATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTATAAAATATTTAAAATA
Found at i:1946896 original size:31 final size:33
Alignment explanation
Indices: 1946826--1946898 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 33
1946816 ATTTTATAAT
**
1946826 ATTTTAGAAATATTATAAAATATTTAAAATATAC
1 ATTTTA-AAATATTATAAAATAAATAAAATATAC
1946860 A-TTTAAAATATTAT-AAATAAATAATAA-ATA-
1 ATTTTAAAATATTATAAAATAAATAA-AATATAC
1946890 ATTTTAAAA
1 ATTTTAAAA
1946899 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 1 0.03
31 18 0.51
32 11 0.31
33 4 0.11
34 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTTTAAAATATTATAAAATAAATAAAATATAC
Found at i:1946897 original size:21 final size:20
Alignment explanation
Indices: 1946865--1946904 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1946855 TATACATTTA
*
1946865 AAATATTATAAATAAATAAT
1 AAATATTATAAAAAAATAAT
*
1946885 AAATAATTTTAAAAAAATAA
1 AAAT-ATTATAAAAAAATAA
1946905 AAAAACAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATTATAAAAAAATAAT
Found at i:1947533 original size:14 final size:15
Alignment explanation
Indices: 1947502--1947541 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1947492 AAAAAATTAT
* *
1947502 AAAACTAAATTTCTA
1 AAAATTAAATTACTA
1947517 AAAATTAAATTAC-A
1 AAAATTAAATTACTA
1947531 AAAATTAAATT
1 AAAATTAAATT
1947542 TAATGTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAAATTACTA
Found at i:1947635 original size:13 final size:13
Alignment explanation
Indices: 1947614--1947676 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
1947604 TTGGCAATGT
*
1947614 TTTTAAAAAGTGC
1 TTTTGAAAAGTGC
1947627 TTTTGAAAAGTG-
1 TTTTGAAAAGTGC
* **
1947639 TTGTGGAAAAGTAA
1 TT-TTGAAAAGTGC
*
1947653 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
1947666 TTTTGAAAAGT
1 TTTTGAAAAGT
1947677 TTAATTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:1950441 original size:11 final size:11
Alignment explanation
Indices: 1950425--1950462 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1950415 TTTTAAATGG
*
1950425 AAAAAAATTAT
1 AAAAAAATTAC
1950436 AAAAAAATTAC
1 AAAAAAATTAC
*
1950447 -AAAAAATTGC
1 AAAAAAATTAC
1950457 AAAAAA
1 AAAAAA
1950463 TTAAAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:1950450 original size:9 final size:10
Alignment explanation
Indices: 1950426--1950465 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
1950416 TTTAAATGGA
*
1950426 AAAAAATTATA
1 AAAAAATTA-C
1950437 AAAAAATTAC
1 AAAAAATTAC
*
1950447 AAAAAATTGC
1 AAAAAATTAC
1950457 AAAAAATTA
1 AAAAAATTA
1950466 AAATAGGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAAAATTAC
Found at i:1951288 original size:9 final size:9
Alignment explanation
Indices: 1951274--1951341 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
1951264 ATAAGTATAA
1951274 AATTAACCG
1 AATTAACCG
*
1951283 AATTAATCG
1 AATTAACCG
*
1951292 AATTAGCCG
1 AATTAACCG
*
1951301 AATTATCCG
1 AATTAACCG
*
1951310 AATT-ACCTA
1 AATTAACC-G
*
1951319 AATTAACCA
1 AATTAACCG
*
1951328 AATTAATCG
1 AATTAACCG
1951337 AATTA
1 AATTA
1951342 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 44 0.90
10 3 0.06
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:1952505 original size:12 final size:12
Alignment explanation
Indices: 1952488--1952517 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1952478 TTACTGCCAA
1952488 TCTTGAAAATCT
1 TCTTGAAAATCT
*
1952500 TCTTGAAAGTCT
1 TCTTGAAAATCT
1952512 TCTTGA
1 TCTTGA
1952518 GTCTCCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (12 bp):
TCTTGAAAATCT
Found at i:1953318 original size:12 final size:12
Alignment explanation
Indices: 1953301--1953330 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1953291 ACGTGGAGAC
1953301 TCAAGAAGACTT
1 TCAAGAAGACTT
*
1953313 TCAAGAAGATTT
1 TCAAGAAGACTT
1953325 TCAAGA
1 TCAAGA
1953331 TTGGCAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (12 bp):
TCAAGAAGACTT
Found at i:1955715 original size:19 final size:19
Alignment explanation
Indices: 1955691--1955729 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1955681 ATTGTTGAAG
1955691 TTGTTTTTGATCTTTAATT
1 TTGTTTTTGATCTTTAATT
1955710 TTGTTTTTGATCTTTAATT
1 TTGTTTTTGATCTTTAATT
1955729 T
1 T
1955730 CTTCAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.69
Consensus pattern (19 bp):
TTGTTTTTGATCTTTAATT
Found at i:1957506 original size:19 final size:19
Alignment explanation
Indices: 1957450--1957521 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
1957440 AATCATATCT
1957450 TCTAAGATTGCATA-CATA
1 TCTAAGATTGCATATCATA
1957468 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
* *
1957485 TCTAAGAATGCATATCACA
1 TCTAAGATTGCATATCATA
1957504 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
1957522 TGAATATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 2 0.04
17 13 0.28
18 10 0.21
19 22 0.47
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1957677 original size:21 final size:20
Alignment explanation
Indices: 1957640--1957678 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1957630 TTGGACTTCA
**
1957640 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
1957660 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
1957679 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:1957999 original size:45 final size:45
Alignment explanation
Indices: 1957876--1958024 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
1957866 TGATATCTGC
* * *
1957876 TATCTTCGATCTGCTCCCTGTCTAATACAGATACGCCAAATTTGC
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATTTGT
* *
1957921 T-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATTTGT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATTTGT
* * * *
1957965 TATCTCCGATTTGCTCCCTGTCTAATACAAAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATTTGT
* *
1958010 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
1958025 TTGATGTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 39 0.44
45 49 0.56
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATTTGT
Found at i:1958271 original size:77 final size:78
Alignment explanation
Indices: 1958038--1958331 Score: 441
Period size: 78 Copynumber: 3.8 Consensus size: 78
1958028 ATGTAAACAC
* *
1958038 ATGAAGGTCAGATCTACTATGTCTTTGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1958103 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
1958116 ATGAATGTCCA-ATCTGTTATGTC-TCTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGT-CAGATCTGCTATGTCTTC-GATCTACTCCCCGTCTAATACAGAGATGCCAAATCAT
1958179 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
* * *
1958194 ATGAAGGTCTGATCTGCTGTGTCTTCG-TCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
1958258 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
1958271 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCCATCAAATATAGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATC
1958332 TGTTTCTTCG
Statistics
Matches: 195, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
77 77 0.39
78 114 0.58
79 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:1958474 original size:44 final size:44
Alignment explanation
Indices: 1958282--1958943 Score: 354
Period size: 44 Copynumber: 15.1 Consensus size: 44
1958272 TGAAGGTCAG
* * *
1958282 ATCTGCTATGTCTTCGATCTACTCTC-CATCAAATATAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGA-C-AATACAGAGATGCCAA
* * * *
1958329 ATCTG-TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * * **
1958372 A--T--AATCTTAGATCTGCT-TCAGTG-TAA-ACACGTGAAAACCAA
1 ATCTGCTATCTTCGATCTGCTCTC--TGACAATACA-GAG-ATGCCAA
* * *
1958413 ATCTACTATGTCTTCAATTTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
1958459 ATCTGCTATCTTCAATCTGCT-TCCTAACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAGATGCCAA
* * * *
1958503 ATCTGCTGTCTTTGATCTGCTCTCTGACAATACATAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
** * * * *
1958547 ATCAT-CTTAAATTC-A-CT--T-TAGTG-TAA-ACATGTGAAGGCCAA
1 ATC-TGC-TATCTTCGATCTGCTCT-CTGACAATACA-GAG-ATGCCAA
* * * ** *
1958588 ATCTGCTATGTCTTCGGTCTGCTCTCCGTCGAATATGGAGATGTCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * * *
1958635 ATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGATACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
*
1958678 ATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * *
1958722 A--T-C-ATCTTAGAT-TCGCT-TCAGTG-TAA-ACACGTGAAGGCCAA
1 ATCTGCTATCTTCGATCT-GCTCTC--TGACAATACA-GAG-ATGCCAA
* * **
1958763 ATCTGCTATTTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGATGCCAA
* * * ** *
1958810 ATCTG-TTTCTTCGATTTGTTCTCTGACAATACAGAGACACAAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* * * *
1958853 ACCTACTATCTTCGATCTGCTCTCTGATAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
* *
1958897 ATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
1958941 ATC
1 ATC
1958944 ATCTTAGATT
Statistics
Matches: 463, Mismatches: 102, Indels: 103
0.69 0.15 0.15
Matches are distributed among these distances:
39 14 0.03
40 35 0.08
41 32 0.07
42 4 0.01
43 51 0.11
44 230 0.50
45 8 0.02
46 20 0.04
47 51 0.11
48 16 0.03
49 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
Found at i:1958575 original size:175 final size:175
Alignment explanation
Indices: 1958313--1958899 Score: 768
Period size: 175 Copynumber: 3.4 Consensus size: 175
1958303 CTCTCCATCA
* * * * * * * *
1958313 AATATAGAGATGCCAAATCTG-TTTCTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATAAT
1 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
** * * * *
1958377 CTTAGA-TCTGCTTCAGTGTAAACACGTGAAAACCAAATCTACTATGTCTTCAATTTGCTCTCTG
66 CTTAGATTC-GCTTCAGTGTAAACACGTGAAGGCCAAATCTGCTATGTCTTCGATCTGCTCTCCG
* ** * * * *
1958441 AC-AATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTTC-CTAAC
130 TCGAATATGGAGATGCCAAATCTG-TTTCTTCGATTTG-TTCTCTGAC
* * * *
1958487 AATACAGAGATGCCAAATCTGCTGTCTTTGATCTGCTCTCTGACAATACATAGACGCCAAATCAT
1 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
* * * * *
1958552 CTTAAATTCACTTTAGTGTAAACATGTGAAGGCCAAATCTGCTATGTCTTCGGTCTGCTCTCCGT
66 CTTAGATTCGCTTCAGTGTAAACACGTGAAGGCCAAATCTGCTATGTCTTCGATCTGCTCTCCGT
*
1958617 CGAATATGGAGATGTCAAATCTGTTTCTTCGATTTGTTCTCTGAC
131 CGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
* *
1958662 AATACAGAGATACCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCAT
1 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
*
1958727 CTTAGATTCGCTTCAGTGTAAACACGTGAAGGCCAAATCTGCTATTTCTTCGATCTGCTCTCCGT
66 CTTAGATTCGCTTCAGTGTAAACACGTGAAGGCCAAATCTGCTATGTCTTCGATCTGCTCTCCGT
1958792 CGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
131 CGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
* * * * *
1958837 AATACAGAGACACAAAACCTACTATCTTCGATCTGCTCTCTGATAATACAGAGACGCCAAATC
1 AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
1958900 TGCTATCTTT
Statistics
Matches: 363, Mismatches: 46, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
174 23 0.06
175 320 0.88
176 20 0.06
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (175 bp):
AATACAGAGATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCAT
CTTAGATTCGCTTCAGTGTAAACACGTGAAGGCCAAATCTGCTATGTCTTCGATCTGCTCTCCGT
CGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTGAC
Found at i:1964922 original size:572 final size:572
Alignment explanation
Indices: 1963839--1964986 Score: 2242
Period size: 572 Copynumber: 2.0 Consensus size: 572
1963829 AACACCCCTA
*
1963839 TCTCCAGGTAAGCTATCCCTCCTGATACAAAAGCCTAGGATATGTAAGGGAGCGTCTTCTTTTCG
1 TCTCCAGGTAAGCTATCCCTCCTGATACAAAAGCCTAGGATATGTAAAGGAGCGTCTTCTTTTCG
1963904 CTCAGCCATGACCCTCTTCTCTCTTTCTTTCTCTTTTTAACCTTAACTAATCAGGGTCTTTTTAT
66 CTCAGCCATGACCCTCTTCTCTCTTTCTTTCTCTTTTTAACCTTAACTAATCAGGGTCTTTTTAT
1963969 GGATTTAAATGCATGTGATGTGATGCAATGCAAATGCATGAATGCAAAAGAAAAGGAGATGTTGA
131 GGATTTAAATGCATGTGATGTGATGCAATGCAAATGCATGAATGCAAAAGAAAAGGAGATGTTGA
* *
1964034 TCTTGAATCCAATTCCATTAGAATAACTTTTCTAGAAAATAGATTTCTTTACATGAAAATAGATT
196 TCTTGAATCCAATTCCATTAGAATAACTTTTCTAAAAAACAGATTTCTTTACATGAAAATAGATT
*
1964099 ACATATGCGGTTTTACCCTTTATAGTCCAAGTAAACGCTGATCTTTTCTTCATGTTCGAATCCTA
261 ACATATGCGGTTTTACCCTTTATAGTCCAAGTAAACACTGATCTTTTCTTCATGTTCGAATCCTA
1964164 TAAATTCTCCAAAAGACGCCTTTACTAGCTCCTTACTGCTTAATCTGAGCCTCGATCCCTTGCTC
326 TAAATTCTCCAAAAGACGCCTTTACTAGCTCCTTACTGCTTAATCTGAGCCTCGATCCCTTGCTC
1964229 GCTTATCTCCATGATACTCATAAAAAAGTGCCGGCTCTTGGATAATCTTCGTTGGCAATTAAATC
391 GCTTATCTCCATGATACTCATAAAAAAGTGCCGGCTCTTGGATAATCTTCGTTGGCAATTAAATC
1964294 AAGTAATGTATTCCTTCGTGGACTTCCGGCTTTCTCTCGTCATGCTCTTGGATAACCTTTGTTGG
456 AAGTAATGTATTCCTTCGTGGACTTCCGGCTTTCTCTCGTCATGCTCTTGGATAACCTTTGTTGG
1964359 CCTGAATCTCTGGCAATTATATCATGTATTCCTCCGTGGACTACCAGCTTTC
521 CCTGAATCTCTGGCAATTATATCATGTATTCCTCCGTGGACTACCAGCTTTC
1964411 TCTCCAGGTAAGCTATCCCTCCTGATACAAAAGCCTAGGATATGTAAAGGAGCGTCTTCTTTTCG
1 TCTCCAGGTAAGCTATCCCTCCTGATACAAAAGCCTAGGATATGTAAAGGAGCGTCTTCTTTTCG
*
1964476 CTCAGCCATGACCCTCTTCTCTCTTTCTTTCTCTTTTTAACCTTAACTAATTAGGGTCTTTTTAT
66 CTCAGCCATGACCCTCTTCTCTCTTTCTTTCTCTTTTTAACCTTAACTAATCAGGGTCTTTTTAT
1964541 GGATTTAAATGCATGTGATGTGATGCAATGCAAATGCATGAATGCAAAAGAAAAGGAGATGTTGA
131 GGATTTAAATGCATGTGATGTGATGCAATGCAAATGCATGAATGCAAAAGAAAAGGAGATGTTGA
1964606 TCTTGAATCCAATTCCATTAGAATAACTTTTCTAAAAAACAGATTTCTTTACATGAAAATAGATT
196 TCTTGAATCCAATTCCATTAGAATAACTTTTCTAAAAAACAGATTTCTTTACATGAAAATAGATT
1964671 ACATATGCGGTTTTACCCTTTATAGTCCAAGTAAACACTGATCTTTTCTTCATGTTCGAATCCTA
261 ACATATGCGGTTTTACCCTTTATAGTCCAAGTAAACACTGATCTTTTCTTCATGTTCGAATCCTA
*
1964736 TAAATTCTCCAAAAGACGCCTTTGCTAGCTCCTTACTGCTTAATCTGAGCCTCGATCCCTTGCTC
326 TAAATTCTCCAAAAGACGCCTTTACTAGCTCCTTACTGCTTAATCTGAGCCTCGATCCCTTGCTC
1964801 GCTTATCTCCATGATACTCATAAAAAAGTGCCGGCTCTTGGATAATCTTCGTTGGCAATTAAATC
391 GCTTATCTCCATGATACTCATAAAAAAGTGCCGGCTCTTGGATAATCTTCGTTGGCAATTAAATC
1964866 AAGTAATGTATTCCTTCGTGGACTTCCGGCTTTCTCTCGTCATGCTCTTGGATAACCTTTGTTGG
456 AAGTAATGTATTCCTTCGTGGACTTCCGGCTTTCTCTCGTCATGCTCTTGGATAACCTTTGTTGG
1964931 CCTGAATCTCTGGCAATTATATCATGTATTCCTCCGTGGACTACCAGCTTTC
521 CCTGAATCTCTGGCAATTATATCATGTATTCCTCCGTGGACTACCAGCTTTC
1964983 TCTC
1 TCTC
1964987 ATCATATTTA
Statistics
Matches: 570, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
572 570 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (572 bp):
TCTCCAGGTAAGCTATCCCTCCTGATACAAAAGCCTAGGATATGTAAAGGAGCGTCTTCTTTTCG
CTCAGCCATGACCCTCTTCTCTCTTTCTTTCTCTTTTTAACCTTAACTAATCAGGGTCTTTTTAT
GGATTTAAATGCATGTGATGTGATGCAATGCAAATGCATGAATGCAAAAGAAAAGGAGATGTTGA
TCTTGAATCCAATTCCATTAGAATAACTTTTCTAAAAAACAGATTTCTTTACATGAAAATAGATT
ACATATGCGGTTTTACCCTTTATAGTCCAAGTAAACACTGATCTTTTCTTCATGTTCGAATCCTA
TAAATTCTCCAAAAGACGCCTTTACTAGCTCCTTACTGCTTAATCTGAGCCTCGATCCCTTGCTC
GCTTATCTCCATGATACTCATAAAAAAGTGCCGGCTCTTGGATAATCTTCGTTGGCAATTAAATC
AAGTAATGTATTCCTTCGTGGACTTCCGGCTTTCTCTCGTCATGCTCTTGGATAACCTTTGTTGG
CCTGAATCTCTGGCAATTATATCATGTATTCCTCCGTGGACTACCAGCTTTC
Found at i:1967927 original size:23 final size:22
Alignment explanation
Indices: 1967884--1967941 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
1967874 AAAAGGTATC
* *
1967884 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
1967905 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
1967928 TGCATATCATATCT
1 TACAAATCATATCT
1967942 AAGATCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:1967944 original size:19 final size:19
Alignment explanation
Indices: 1967920--1968022 Score: 118
Period size: 19 Copynumber: 5.9 Consensus size: 19
1967910 AATCATATCT
1967920 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
1967939 TCT-A-A--G---ATCATA
1 TCTAAGATTGCATATCATA
1967951 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
1967969 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
1967986 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
1968005 TCTAAGATTACATATCAT
1 TCTAAGATTGCATATCAT
1968023 TGAAGATTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 18
0.77 0.03 0.19
Matches are distributed among these distances:
12 9 0.12
13 1 0.01
14 1 0.01
15 1 0.01
16 1 0.01
17 17 0.24
18 17 0.24
19 25 0.35
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:1967950 original size:12 final size:12
Alignment explanation
Indices: 1967933--1967958 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1967923 AAGATTGCAT
1967933 ATCATATCTAAG
1 ATCATATCTAAG
1967945 ATCATATCTAAG
1 ATCATATCTAAG
1967957 AT
1 AT
1967959 TGCAATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:1967968 original size:18 final size:18
Alignment explanation
Indices: 1967945--1968013 Score: 104
Period size: 17 Copynumber: 3.8 Consensus size: 18
1967935 CATATCTAAG
1967945 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
1967963 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
1967980 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
1967998 TATCACATCTAAGATT
1 -ATCATATCTAAGATT
1968014 ACATATCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
17 16 0.35
18 16 0.35
19 14 0.30
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (18 bp):
ATCATATCTAAGATTGCA
Found at i:1967984 original size:35 final size:35
Alignment explanation
Indices: 1967920--1968020 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 35
1967910 AATCATATCT
1967920 TCTAAGATTGCATATCATATCT-A-A--GATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGATCATA
1967951 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-ATCATA
*
1967986 TCTAAGATTGCATATCACATCTAAGATT-A-CATA
1 TCTAAGATTGCATATCATATCTAAGATTGATCATA
1968019 TC
1 TC
1968021 ATTGAAGATT
Statistics
Matches: 63, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
30 9 0.14
31 13 0.21
32 1 0.02
33 6 0.10
34 2 0.03
35 18 0.29
36 14 0.22
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGCATATCATATCTAAGATTGATCATA
Found at i:1968179 original size:21 final size:20
Alignment explanation
Indices: 1968141--1968180 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1968131 TTGGACTTCG
**
1968141 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
1968161 TTTTTATTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
1968181 TCTGGGCTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:1976341 original size:26 final size:26
Alignment explanation
Indices: 1976312--1976419 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
1976302 TGGTACAAAT
1976312 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1976338 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1976364 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
1976390 TGATAATGGTTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1976416 TGAT
1 TGAT
1976420 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1977930 original size:26 final size:26
Alignment explanation
Indices: 1977901--1977953 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
1977891 TTTACAGTTT
*
1977901 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
1977927 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
1977953 T
1 T
1977954 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:1983354 original size:26 final size:26
Alignment explanation
Indices: 1983325--1983432 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
1983315 TGGTACAAAT
1983325 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
1983351 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1983377 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1983403 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1983429 TGAT
1 TGAT
1983433 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1984964 original size:25 final size:25
Alignment explanation
Indices: 1984916--1984964 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1984906 ACAGTTTTAC
1984916 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
1984941 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
1984965 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:1990378 original size:26 final size:26
Alignment explanation
Indices: 1990320--1990426 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
1990310 TGGTACAAAT
1990320 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
1990345 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1990371 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
1990397 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
1990423 TGAT
1 TGAT
1990427 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 21 0.28
26 55 0.72
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:1991928 original size:26 final size:26
Alignment explanation
Indices: 1991899--1991951 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1991889 TTTACAGTTT
1991899 TACCCCTAGGAGGTAAATT-ACCGAAA
1 TACCCCTAGG-GGTAAATTGACCGAAA
* *
1991925 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGGTAAATTGACCGAAA
1991951 T
1 T
1991952 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGGTAAATTGACCGAAA
Found at i:1996404 original size:34 final size:34
Alignment explanation
Indices: 1996365--1996431 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
1996355 TAATACCAGG
1996365 TTGGTGTTAGTTCAATATCATTACCGTTTTCGCT
1 TTGGTGTTAGTTCAATATCATTACCGTTTTCGCT
1996399 TTGGTGTTAGTTCAATATCATTACCGTTTTCGC
1 TTGGTGTTAGTTCAATATCATTACCGTTTTCGC
1996432 GTTCTATCGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (34 bp):
TTGGTGTTAGTTCAATATCATTACCGTTTTCGCT
Found at i:1996665 original size:27 final size:27
Alignment explanation
Indices: 1996642--1996696 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
1996632 TGTTATAAAC
1996642 AGCAACAATAATGATGATGATATAGAA
1 AGCAACAATAATGATGATGATATAGAA
* * *
1996669 ATCAATAATGATGATGATGATATAGAA
1 AGCAACAATAATGATGATGATATAGAA
1996696 A
1 A
1996697 TTAAGTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.25
Consensus pattern (27 bp):
AGCAACAATAATGATGATGATATAGAA
Found at i:1998071 original size:26 final size:24
Alignment explanation
Indices: 1998002--1998093 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 24
1997992 ATTTGGAAAT
* * *
1998002 TATTATAAAACATTT-AAAAT-AT
1 TATTAAAAAATATTTAAAAATAAA
* *
1998024 TATAAAAAAATAATTTAAAAATGAA
1 TATTAAAAAAT-ATTTAAAAATAAA
*
1998049 TTTTAAAAAATATTTGAATAAATAAA
1 TATTAAAAAATATTT-AA-AAATAAA
* *
1998075 TATTATAAAACATTTAAAA
1 TATTAAAAAATATTTAAAA
1998094 TATTATAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 8 0.15
23 4 0.07
24 11 0.20
25 14 0.25
26 18 0.33
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TATTAAAAAATATTTAAAAATAAA
Found at i:1998104 original size:10 final size:10
Alignment explanation
Indices: 1998072--1998105 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1998062 TTGAATAAAT
1998072 AAATATTATA
1 AAATATTATA
*
1998082 AAACATT-TA
1 AAATATTATA
1998091 AAATATTATA
1 AAATATTATA
1998101 AAATA
1 AAATA
1998106 AATAATGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATTATA
Found at i:1998106 original size:37 final size:37
Alignment explanation
Indices: 1998002--1998110 Score: 113
Period size: 37 Copynumber: 3.0 Consensus size: 37
1997992 ATTTGGAAAT
1998002 TATTATAAAACATTTAAAATATTATAAAA-AAAT-AA
1 TATTATAAAACATTTAAAATATTATAAAATAAATAAA
* *
1998037 T-TTA-AAAATGAATTTTAAAAAATATT-T-GAATAAATAAA
1 TATTATAAAA--CA-TTT--AAAATATTATAAAATAAATAAA
1998075 TATTATAAAACATTTAAAATATTATAAAATAAATAA
1 TATTATAAAACATTTAAAATATTATAAAATAAATAA
1998111 TGAACAATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 10 0.17
36 6 0.10
37 17 0.29
38 12 0.20
39 3 0.05
40 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (37 bp):
TATTATAAAACATTTAAAATATTATAAAATAAATAAA
Found at i:1998142 original size:73 final size:71
Alignment explanation
Indices: 1998002--1998149 Score: 158
Period size: 73 Copynumber: 2.0 Consensus size: 71
1997992 ATTTGGAAAT
* * * *
1998002 TATTATAAAACATTTAAAATATTATAAAAAAATAATTTAAAAATGAATTTTAAAAAATATTTGAA
1 TATTATAAAACATTTAAAATATTATAAAAAAATAATTGAAAAAT--ATTTAAAAAAAAATATGAA
*
1998067 TAAATAAA
64 TAAACAAA
*
1998075 TATTATAAAACATTTAAAATATTATAAAATAAATAA-TGAACAAT-TTTCAAAAAAACAAATAAT
1 TATTATAAAACATTTAAAATATTATAAAA-AAATAATTGAAAAATATTT--AAAAAA-AAAT-AT
1998138 -AATAAACAAA
61 GAATAAACAAA
1998148 TA
1 TA
1998150 AAAAATTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
70 3 0.05
72 5 0.08
73 49 0.77
74 7 0.11
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.32
Consensus pattern (71 bp):
TATTATAAAACATTTAAAATATTATAAAAAAATAATTGAAAAATATTTAAAAAAAAATATGAATA
AACAAA
Found at i:1998718 original size:22 final size:20
Alignment explanation
Indices: 1998682--1998744 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 20
1998672 AAAATATCAT
1998682 AAAAATAAAT-TTAATAA-A
1 AAAAATAAATATTAATAATA
* *
1998700 AAATAA-CAATATTAATAATT
1 AAA-AATAAATATTAATAATA
* *
1998720 AAAACTAAATTTTAA-AATA
1 AAAAATAAATATTAATAATA
1998739 AAAAAT
1 AAAAAT
1998745 TATGAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 7
0.71 0.15 0.15
Matches are distributed among these distances:
18 6 0.18
19 18 0.53
20 10 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATAAATATTAATAATA
Found at i:1998996 original size:22 final size:19
Alignment explanation
Indices: 1998970--1999022 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 19
1998960 TTAAATTTTA
1998970 AAATTTAAAAGATAATGAAATT
1 AAATTTAAAA-ATAA--AAATT
*
1998992 AAATTTTAAAAATAAATATT
1 AAA-TTTAAAAATAAAAATT
1999012 AAATATTAAAA
1 AAAT-TTAAAA
1999023 TTTAACAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
22 7 0.25
23 7 0.25
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATTTAAAAATAAAAATT
Found at i:2001453 original size:18 final size:19
Alignment explanation
Indices: 2001430--2001469 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
2001420 TACTAACTTC
2001430 TTAGTAAGT-AAAATA-TAA
1 TTAGT-AGTAAAAATATTAA
2001448 TTAGTAGTAAAAATATTAA
1 TTAGTAGTAAAAATATTAA
2001467 TTA
1 TTA
2001470 ATATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAGTAGTAAAAATATTAA
Found at i:2001477 original size:19 final size:18
Alignment explanation
Indices: 2001439--2001477 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2001429 CTTAGTAAGT
*
2001439 AAAATATAATTAGTAGTA
1 AAAATATAATTAATAGTA
*
2001457 AAAATATTAATTAATATTA
1 AAAATA-TAATTAATAGTA
2001476 AA
1 AA
2001478 TAAATAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAAATATAATTAATAGTA
Found at i:2002927 original size:20 final size:20
Alignment explanation
Indices: 2002902--2002942 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2002892 ACATGCCAAA
*
2002902 AAATAATATGAATATTTGAT
1 AAATAATAAGAATATTTGAT
2002922 AAATAATAAGAATATTTGAT
1 AAATAATAAGAATATTTGAT
2002942 A
1 A
2002943 CGGTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (20 bp):
AAATAATAAGAATATTTGAT
Found at i:2004920 original size:3 final size:3
Alignment explanation
Indices: 2004912--2004968 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
2004902 ATTCAATACC
2004912 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2004960 ATA ATA ATA
1 ATA ATA ATA
2004969 CTTAGCATTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2005605 original size:19 final size:19
Alignment explanation
Indices: 2005577--2005621 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
2005567 AAATCACTAG
2005577 TTTTCCCTTTTTCTT-TTTC
1 TTTTCCC-TTTTCTTCTTTC
*
2005596 TTTTCTCTTTTCTTCTTTC
1 TTTTCCCTTTTCTTCTTTC
2005615 -TTTCCCT
1 TTTTCCCT
2005622 GCTAACCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTC
Found at i:2005911 original size:24 final size:24
Alignment explanation
Indices: 2005854--2005912 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
2005844 AATATCAATT
* *
2005854 TAATAAAAATAACCTTAATAAATA
1 TAATAATAATAACCATAATAAATA
2005878 TCAA-ATATAA-AACCATAATAAATAA
1 T-AATA-ATAATAACCATAATAAAT-A
2005903 TAATAATAAT
1 TAATAATAAT
2005913 TTAAGATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
TAATAATAATAACCATAATAAATA
Found at i:2006398 original size:14 final size:15
Alignment explanation
Indices: 2006379--2006407 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2006369 AATGAAAGAG
2006379 GAAGAAAA-AAAAAA
1 GAAGAAAATAAAAAA
2006393 GAAGAAAATAAAAAA
1 GAAGAAAATAAAAAA
2006408 ATGAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
GAAGAAAATAAAAAA
Found at i:2008959 original size:6 final size:6
Alignment explanation
Indices: 2008948--2008978 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2008938 TAAATCCAAT
2008948 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
2008979 TAAATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:2009875 original size:12 final size:12
Alignment explanation
Indices: 2009858--2009882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2009848 ACCCAAAACC
2009858 CTTAGCCCAAAA
1 CTTAGCCCAAAA
2009870 CTTAGCCCAAAA
1 CTTAGCCCAAAA
2009882 C
1 C
2009883 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:2010901 original size:27 final size:26
Alignment explanation
Indices: 2010864--2010978 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
2010854 AGCATGGCTG
* *
2010864 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
2010890 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
2010918 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
2010945 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
2010972 CCAGAAC
1 CCAGAAC
2010979 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:2010923 original size:54 final size:54
Alignment explanation
Indices: 2010864--2010978 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
2010854 AGCATGGCTG
*
2010864 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
2010918 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
2010972 CCAGAAC
1 CCAGAAC
2010979 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:2012662 original size:26 final size:26
Alignment explanation
Indices: 2012586--2012669 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
2012576 CATGAAATTC
*
2012586 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
2012612 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
2012638 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
2012664 TTATCA
1 TTATCA
2012670 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:2013655 original size:12 final size:12
Alignment explanation
Indices: 2013638--2013699 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
2013628 TTTTTTGTTG
*
2013638 TTTATATTTTTA
1 TTTATATTATTA
2013650 TTTATATTATTA
1 TTTATATTATTA
2013662 -TTATTATTATTA
1 TTTA-TATTATTA
2013674 -TTATTATTATTA
1 TTTA-TATTATTA
2013686 -TTATTATTATTA
1 TTTA-TATTATTA
2013698 TT
1 TT
2013700 ATTATTATCT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
11 3 0.06
12 43 0.91
13 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:2013765 original size:20 final size:21
Alignment explanation
Indices: 2013740--2013779 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2013730 TTGTTATATT
*
2013740 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
2013760 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
2013780 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:2013798 original size:3 final size:3
Alignment explanation
Indices: 2013654--2013784 Score: 115
Period size: 3 Copynumber: 43.7 Consensus size: 3
2013644 TTTTTATTTA
2013654 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
2013702 TAT TAT CTCCGT GAC TAT TAT TAT TAT T-T TGT TA- TAT TAC TAT TAT
1 TAT TAT -T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
2013748 TGT TA- TAT TAT CAC TAT TTT TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2013785 CTACAACTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.06
3 94 0.92
4 1 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2014117 original size:15 final size:15
Alignment explanation
Indices: 2014097--2014127 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2014087 TATTATTTCC
2014097 TATTTATTACTATTA
1 TATTTATTACTATTA
2014112 TATTTATTACTATTA
1 TATTTATTACTATTA
2014127 T
1 T
2014128 TATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:2014130 original size:18 final size:18
Alignment explanation
Indices: 2014107--2014144 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
2014097 TATTTATTAC
2014107 TATTATATTTATTA-CTAT
1 TATTATATTT-TTACCTAT
2014125 TATTATATTTTTACCTAT
1 TATTATATTTTTACCTAT
2014143 TA
1 TA
2014145 CTCTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTATATTTTTACCTAT
Found at i:2014143 original size:15 final size:16
Alignment explanation
Indices: 2014097--2014144 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
2014087 TATTATTTCC
2014097 TATTTATTA-CTATTA
1 TATTTATTACCTATTA
2014112 TATTTATTA-CTATTA
1 TATTTATTACCTATTA
*
2014127 TTATATTTTTACCTATTA
1 -TAT-TTATTACCTATTA
2014145 CTCTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 15 0.52
16 3 0.10
17 5 0.17
18 6 0.21
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTATTACCTATTA
Found at i:2017166 original size:13 final size:13
Alignment explanation
Indices: 2017136--2017169 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2017126 TTTCTCTTTT
* *
2017136 ATATATTATGTAT
1 ATATTTTATGTAC
2017149 ATATTTTATGTAC
1 ATATTTTATGTAC
2017162 ATATTTTA
1 ATATTTTA
2017170 ATATTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTATGTAC
Found at i:2017622 original size:20 final size:20
Alignment explanation
Indices: 2017580--2017637 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
2017570 ACCCCTATTA
* **
2017580 TATTTTCTTTATATGTAGTAT
1 TATTTT-TTTATATATACCAT
2017601 TATTTTTTTATATATACCAT
1 TATTTTTTTATATATACCAT
*
2017621 TATATTTATTAT-TATAC
1 TAT-TTTTTTATATATAC
2017638 TTATTATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
TATTTTTTTATATATACCAT
Found at i:2030018 original size:86 final size:86
Alignment explanation
Indices: 2029839--2030265 Score: 556
Period size: 86 Copynumber: 5.0 Consensus size: 86
2029829 TGAAAATTTA
* * * * * * * * *
2029839 CAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATTGAAGATGACGTGACCATAAACTCCTAAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAG-AACCTTAAACCCCTAAG
* * * *
2029903 CAATAGGGTAACAGGCTAAATTC
64 CAGTAGGGTAACAGGTTGAATTG
2029926 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
2029991 GTAGGGTAACAGGTTGAATTG
66 GTAGGGTAACAGGTTGAATTG
2030012 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
2030077 GTAGGGTAACAGGTTGAATTG
66 GTAGGGTAACAGGTTGAATTG
* *
2030098 CAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGACGAAGAACCTTAAACCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
*
2030163 GTAGGGTAACAGGTTGAATTA
66 GTAGGGTAACAGGTTGAATTG
*** * * * * * *
2030184 CAGATC-TAAAACCCTAAGCAGTAG-GGAAACAGATCAAAGATGACA-AGCCTTAATCCCCTAAA
1 CAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAACCCCTAAG
*
2030246 CAGTAGGGTAACAGGCTGAA
64 CAGTAGGGTAACAGGTTGAA
2030266 AATTAAATAT
Statistics
Matches: 311, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
84 1 0.00
85 62 0.20
86 209 0.67
87 37 0.12
88 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (86 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
GTAGGGTAACAGGTTGAATTG
Found at i:2030036 original size:42 final size:42
Alignment explanation
Indices: 2029897--2030122 Score: 172
Period size: 42 Copynumber: 5.3 Consensus size: 42
2029887 ACCATAAACT
* * * *
2029897 CCTAAGCAATAGGGTAACAGGCTAAATTCCAGATCTTATCTC
1 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
* * * ** * * *
2029939 CCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAAAC-C
1 CCTAAGCAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATCTC
2029983 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
1 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
* * * ** * * *
2030025 CCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAAAC-C
1 CCTAAGCAGTAG-GGTAACAGGTTGAA-TTGCAG-ATCTT-ATCTC
2030069 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
1 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
2030111 CCTAAGCAGTAG
1 CCTAAGCAGTAG
2030123 TAGAGCAGAT
Statistics
Matches: 136, Mismatches: 36, Indels: 24
0.69 0.18 0.12
Matches are distributed among these distances:
41 4 0.03
42 59 0.43
43 19 0.14
44 50 0.37
45 4 0.03
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (42 bp):
CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTC
Found at i:2030104 original size:172 final size:172
Alignment explanation
Indices: 2029836--2030265 Score: 614
Period size: 172 Copynumber: 2.5 Consensus size: 172
2029826 GATTGAAAAT
* * * * * *
2029836 TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGTGACCATAAACTCCTA
1 TTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGAAG-AACCTTAAACCCCTA
* * * *
2029901 AGCAATAGGGTAACAGGCTAAATTCCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
65 AGCAGTAGGGTAACAGGCTGAATTCCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAG
2029966 ACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
130 ACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
* * * * *
2030009 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAAACCCCTA
1 TTACAGATCTTAACACCCTAAGCAGTAG-GGAAACAGATCGAAGATGAAGAACCTTAAACCCCTA
* *
2030073 AGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAG
65 AGCAGTAGGGTAACAGGCTGAATTCCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAG
2030138 ACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
130 ACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
* * * *
2030181 TTACAGATC-TAAAACCCTAAGCAGTAGGGAAACAGATCAAAGATGACA-AGCCTTAATCCCCTA
1 TTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAACCTTAAACCCCTA
*
2030244 AACAGTAGGGTAACAGGCTGAA
65 AGCAGTAGGGTAACAGGCTGAA
2030266 AATTAAATAT
Statistics
Matches: 227, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
170 2 0.01
171 61 0.27
172 123 0.54
173 39 0.17
174 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (172 bp):
TTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAACCTTAAACCCCTAA
GCAGTAGGGTAACAGGCTGAATTCCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGA
CGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
Found at i:2030160 original size:44 final size:44
Alignment explanation
Indices: 2029938--2030166 Score: 181
Period size: 44 Copynumber: 5.3 Consensus size: 44
2029928 GATCTTATCT
*
2029938 CCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAAC
1 CCCTAAGCAGTAGTAGAGCAGATCGAAGACGAAGAACCTTAAAC
* * ** * * *
2029982 CCCTAAGCAGTAGGGTA-A-CAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTA--GTAGAGCAGATCGAAGACGAAGAACCTTAAAC
*
2030023 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTAGAGCAGATCGAAGACGAAGAACCTTAAAC
* * ** * * *
2030068 CCCTAAGCAGTAGGGTA-A-CAGGTTGAA-TTGCAG-ATCTT-ATC
1 CCCTAAGCAGTA--GTAGAGCAGATCGAAGACGAAGAACCTTAAAC
*
2030109 TCCCTAAGCAGTAGTAGAGCAGATCAAAGACGAAGAACCTTAAAC
1 -CCCTAAGCAGTAGTAGAGCAGATCGAAGACGAAGAACCTTAAAC
2030154 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
2030167 GGTAACAGGT
Statistics
Matches: 137, Mismatches: 32, Indels: 32
0.68 0.16 0.16
Matches are distributed among these distances:
40 5 0.04
41 6 0.04
42 45 0.33
43 12 0.09
44 59 0.43
45 6 0.04
46 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (44 bp):
CCCTAAGCAGTAGTAGAGCAGATCGAAGACGAAGAACCTTAAAC
Found at i:2031848 original size:2 final size:2
Alignment explanation
Indices: 2031841--2031873 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
2031831 ATTCTTTTAC
*
2031841 TA TA TA TA CA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2031874 CTCCATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2032442 original size:21 final size:21
Alignment explanation
Indices: 2032393--2032467 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
2032383 ATTTTCACCC
*
2032393 CTATTATATTTTCTTTATATGTA
1 CTATTAT-TTTT-TTTATATATA
*
2032416 GTATTATTTTTTTTATATATA
1 CTATTATTTTTTTTATATATA
* * *
2032437 CCATTATATTTATTAT-TATA
1 CTATTATTTTTTTTATATATA
2032457 CTTATTATTTT
1 C-TATTATTTT
2032468 CACTATTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 5 0.12
21 28 0.65
22 4 0.09
23 6 0.14
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (21 bp):
CTATTATTTTTTTTATATATA
Found at i:2033829 original size:21 final size:21
Alignment explanation
Indices: 2033805--2033846 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2033795 TAATTCAAGC
*
2033805 ATCAAAACCTATCACTTAAAA
1 ATCAAAACCCATCACTTAAAA
2033826 ATCAAAACCCATCACTTAAAA
1 ATCAAAACCCATCACTTAAAA
2033847 CATTACGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
ATCAAAACCCATCACTTAAAA
Found at i:2036228 original size:10 final size:9
Alignment explanation
Indices: 2036215--2036254 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
2036205 AGTTTACGAA
2036215 TTTATTTATT
1 TTTATTT-TT
2036225 TTTATTTTT
1 TTTATTTTT
2036234 TTT-TTTTT
1 TTTATTTTT
2036242 TATTATTTTT
1 T-TTATTTTT
2036252 TTT
1 TTT
2036255 TTAGGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 9 0.32
10 13 0.46
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:2036243 original size:15 final size:16
Alignment explanation
Indices: 2036223--2036256 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2036213 AATTTATTTA
2036223 TTTTTATT-TTTTTTT
1 TTTTTATTATTTTTTT
2036238 TTTTTATTATTTTTTT
1 TTTTTATTATTTTTTT
2036254 TTT
1 TTT
2036257 AGGAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTTTATTATTTTTTT
Found at i:2037605 original size:2 final size:2
Alignment explanation
Indices: 2037598--2037649 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2037588 AGACATTAAG
2037598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2037640 TA TA TA TA TA
1 TA TA TA TA TA
2037650 ATAAAGTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2037887 original size:21 final size:21
Alignment explanation
Indices: 2037861--2037904 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2037851 TGATATTACA
2037861 TTATTATTATTTTCTTTCTAT
1 TTATTATTATTTTCTTTCTAT
* *
2037882 TTATTATTTTTTTCTTTTTAT
1 TTATTATTATTTTCTTTCTAT
2037903 TT
1 TT
2037905 TATTTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (21 bp):
TTATTATTATTTTCTTTCTAT
Found at i:2037895 original size:17 final size:18
Alignment explanation
Indices: 2037864--2037903 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
2037854 TATTACATTA
2037864 TTATTATTTTCTTTCTAT
1 TTATTATTTTCTTTCTAT
*
2037882 TTATTATTTT-TTTCTTT
1 TTATTATTTTCTTTCTAT
2037899 TTATT
1 TTATT
2037904 TTATTTTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTATTTTCTTTCTAT
Found at i:2038640 original size:15 final size:14
Alignment explanation
Indices: 2038614--2038649 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
2038604 TATATTTTTG
2038614 TTATACTTATATATA
1 TTATA-TTATATATA
2038629 TGTATATTATATATA
1 T-TATATTATATATA
2038644 TTATAT
1 TTATAT
2038650 AGTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 11 0.55
16 4 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATATTATATATA
Found at i:2038829 original size:29 final size:29
Alignment explanation
Indices: 2038755--2038833 Score: 72
Period size: 31 Copynumber: 2.7 Consensus size: 29
2038745 TTTATATATC
* *
2038755 AATATTATATTATGTATATTTCTTTTTTA
1 AATATTATATTATGTATATATCTTATTTA
*
2038784 AATACTATATATATATGTATGTAT-TTATTTA
1 AATA-T-TATAT-TATGTATATATCTTATTTA
*
2038815 GATATTATATGTATG-ATAT
1 AATATTATAT-TATGTATAT
2038834 TTATGTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
28 3 0.07
29 13 0.32
30 2 0.05
31 14 0.34
32 9 0.22
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (29 bp):
AATATTATATTATGTATATATCTTATTTA
Found at i:2038843 original size:14 final size:13
Alignment explanation
Indices: 2038792--2038839 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
2038782 TAAATACTAT
*
2038792 ATATATATGTATG
1 ATATTTATGTATG
*
2038805 -TATTTATTTA-G
1 ATATTTATGTATG
2038816 ATATTATATGTATG
1 ATATT-TATGTATG
2038830 ATATTTATGT
1 ATATTTATGT
2038840 TATGTACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.03
12 12 0.41
13 10 0.34
14 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (13 bp):
ATATTTATGTATG
Found at i:2039108 original size:24 final size:24
Alignment explanation
Indices: 2039062--2039108 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
2039052 CTTTAATACT
* *
2039062 ATATCATTTTTATTTTTATTTTTC
1 ATATCATTCTTATGTTTATTTTTC
2039086 ATATCA-TCTTATGTTTATGTTTT
1 ATATCATTCTTATGTTTAT-TTTT
2039109 TCAAACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (24 bp):
ATATCATTCTTATGTTTATTTTTC
Found at i:2039206 original size:28 final size:25
Alignment explanation
Indices: 2039160--2039216 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 25
2039150 GTGTTTTTTT
* *
2039160 TATTATGATTATTTCTAATATGTATG
1 TATTATGATTACTTCTAATA-CTATG
2039186 TATTATGTATTTACTTCTAATACTATG
1 TATTATG-A-TTACTTCTAATACTATG
2039213 TATT
1 TATT
2039217 GTATATTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 9 0.33
28 11 0.41
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (25 bp):
TATTATGATTACTTCTAATACTATG
Found at i:2039320 original size:3 final size:3
Alignment explanation
Indices: 2039307--2039424 Score: 75
Period size: 3 Copynumber: 39.3 Consensus size: 3
2039297 TTCTTGTCCT
* * * *
2039307 TTA TATA TTA TTA TTA TTA TTAA CGTA -CA TTA TTA TTA TCA AT- TTA
1 TTA T-TA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
2039353 CTA TTAA TT- TTA CTT- TTA TTA TTA CTA CTA -TA TTA TTA TTA TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2039397 TCA TTA TCA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2039425 CATATTTATA
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
2 8 0.09
3 72 0.79
4 10 0.11
5 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:2039646 original size:3 final size:3
Alignment explanation
Indices: 2039638--2039691 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
2039628 TATCTCTAAC
*
2039638 TAT TAT TAT TAT T-T TA- TAT ATAT TAT TAT CT-C TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT
*
2039682 TAC TAT TAT T
1 TAT TAT TAT T
2039692 CTTTATTGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 33 0.79
4 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2042485 original size:44 final size:44
Alignment explanation
Indices: 2042392--2042495 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
2042382 GGCTATATGA
*
2042392 GGCACTAAGTGTGCGATACCGAGATAGCTTCAGCTAGTTGAGAT
1 GGCACTAAGTGTGCGATACCGAGATAGCTTCAGCTAATTGAGAT
* * *
2042436 GGCACTAAGTGTGCGAGT-TCGATATAGCTTCAGCTAATCATTA-AT
1 GGCACTAAGTGTGCGA-TACCGAGATAGCTTCAGCTAAT--TGAGAT
2042481 -GCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
2042496 ATTCTTAAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 48 0.91
45 3 0.06
46 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
GGCACTAAGTGTGCGATACCGAGATAGCTTCAGCTAATTGAGAT
Found at i:2045688 original size:28 final size:29
Alignment explanation
Indices: 2045643--2045698 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
2045633 TTTAACCCTT
* *
2045643 TTTTTTATTTTTAAAATT-TGTTATTTTA
1 TTTTTTATATATAAAATTATGTTATTTTA
* *
2045671 TTTTTTATATATATAATTATTTTATTTT
1 TTTTTTATATATAAAATTATGTTATTTT
2045699 TTAGATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTTTATATATAAAATTATGTTATTTTA
Found at i:2045789 original size:24 final size:24
Alignment explanation
Indices: 2045762--2045821 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
2045752 AACTTTTATC
* *
2045762 ATATATTATTTTCCT-AGATATATT
1 ATATATTATTTT-ATAACATATATT
* * *
2045786 ATATTTTATTATATAACATTTATT
1 ATATATTATTTTATAACATATATT
2045810 ATATATTATTTT
1 ATATATTATTTT
2045822 TTTTATGTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATATTATTTTATAACATATATT
Found at i:2045860 original size:28 final size:28
Alignment explanation
Indices: 2045829--2045888 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
2045819 TTTTTTTATG
*
2045829 TTATGTATGTTATATATTA-TCTATCATA
1 TTATATATGTTATATATTACTC-ATCATA
* *
2045857 TTATATATGTTTTATATTACTCATTATA
1 TTATATATGTTATATATTACTCATCATA
2045885 TTAT
1 TTAT
2045889 TTAATTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (28 bp):
TTATATATGTTATATATTACTCATCATA
Found at i:2049822 original size:14 final size:14
Alignment explanation
Indices: 2049803--2049832 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2049793 AAGATATTAT
2049803 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
2049817 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
2049831 TT
1 TT
2049833 GAACCAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:2060596 original size:14 final size:16
Alignment explanation
Indices: 2060561--2060597 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2060551 CAAGCGATGC
2060561 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
2060576 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
2060591 -ATGCAAA
1 GATGCAAA
2060598 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:2060641 original size:14 final size:14
Alignment explanation
Indices: 2060618--2060647 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2060608 ATTCTGGTTC
2060618 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
2060632 AACTTTATTTAGAA
1 AACTTCATTTAGAA
2060646 AA
1 AA
2060648 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:2064270 original size:24 final size:24
Alignment explanation
Indices: 2064243--2064289 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
2064233 AATACCTAAT
*
2064243 GATTTATATA-ATAACATATAAAAG
1 GATTAATATATATAA-ATATAAAAG
*
2064267 GATTAATTTATATAAATATAAAA
1 GATTAATATATATAAATATAAAA
2064290 TAAAGTGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
GATTAATATATATAAATATAAAAG
Found at i:2064672 original size:18 final size:18
Alignment explanation
Indices: 2064649--2064687 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2064639 TAATATAAGT
2064649 TAAAATCTTTAATAATAA
1 TAAAATCTTTAATAATAA
2064667 TAAAATCTTTAATAATAA
1 TAAAATCTTTAATAATAA
2064685 TAA
1 TAA
2064688 TATATAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATCTTTAATAATAA
Found at i:2064703 original size:17 final size:16
Alignment explanation
Indices: 2064681--2064721 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
2064671 ATCTTTAATA
*
2064681 ATAATAATAT-ATAG-
1 ATAAAAATATAATAGT
2064695 ATAAAAATATAATAGT
1 ATAAAAATATAATAGT
2064711 ATAAAAA-ATAA
1 ATAAAAATATAA
2064722 CATAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 9 0.38
15 8 0.33
16 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
ATAAAAATATAATAGT
Found at i:2064730 original size:17 final size:17
Alignment explanation
Indices: 2064697--2064749 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
2064687 ATATATAGAT
*
2064697 AAAAATATAATAGTATA
1 AAAAATATAATAATATA
2064714 AAAAATA-ACATAATATA
1 AAAAATATA-ATAATATA
2064731 AAATAATTATAAT-ATATA
1 AAA-AA-TATAATAATATA
2064749 A
1 A
2064750 TATGAAGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.03
17 17 0.55
18 8 0.26
19 4 0.13
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAATATAATAATATA
Found at i:2064910 original size:13 final size:16
Alignment explanation
Indices: 2064877--2064912 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
2064867 ATATATAATA
2064877 AATAACAATAATATAT
1 AATAACAATAATATAT
2064893 AATAA-AATAATTATAT
1 AATAACAATAA-TATAT
2064909 AATA
1 AATA
2064913 TATAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAACAATAATATAT
Found at i:2064910 original size:23 final size:21
Alignment explanation
Indices: 2064865--2064922 Score: 82
Period size: 23 Copynumber: 2.7 Consensus size: 21
2064855 TTGTGAAAAG
2064865 TAATATATAAT-AAATAACAA
1 TAATATATAATAAAATAACAA
*
2064885 TAATATATAATAAAATAATTATA
1 TAATATATAATAAAATAA-CA-A
2064908 TAATATATAATAAAA
1 TAATATATAATAAAA
2064923 AATAAGATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 11 0.32
21 6 0.18
22 1 0.03
23 16 0.47
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATATATAATAAAATAACAA
Found at i:2071278 original size:15 final size:15
Alignment explanation
Indices: 2071252--2071289 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2071242 AGAGAGCAGG
*
2071252 GGAAAGAAAGAAGGAA
1 GGAAA-AAAGAAAGAA
2071268 GGAAAAAAGAAAGAA
1 GGAAAAAAGAAAGAA
2071283 GGAAAAA
1 GGAAAAA
2071290 TGGGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GGAAAAAAGAAAGAA
Found at i:2072640 original size:18 final size:18
Alignment explanation
Indices: 2072569--2072718 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 18
2072559 TGGAAAGATC
*
2072569 GACTATTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* *
2072588 GATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
2072606 GA-TTTTATTGAATAATT
1 GACTGTTACTGAATAATT
*
2072623 GACTGTTACTGGATAATT
1 GACTGTTACTGAATAATT
*
2072641 GATCAATTGATTGATACTGAATAACT
1 GA-C---TG--T--TACTGAATAATT
* * *
2072667 GATTATTATTGAATAATT
1 GACTGTTACTGAATAATT
* *
2072685 GATTGTTA-TCAAATAATT
1 GACTGTTACT-GAATAATT
2072703 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
2072719 ATAATTGTTC
Statistics
Matches: 99, Mismatches: 19, Indels: 27
0.68 0.13 0.19
Matches are distributed among these distances:
17 13 0.13
18 56 0.57
19 13 0.13
20 1 0.01
22 3 0.03
24 1 0.01
26 12 0.12
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.43
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:2072642 original size:26 final size:26
Alignment explanation
Indices: 2072619--2072669 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2072609 TTTATTGAAT
* *
2072619 AATTGACTGTTACTGGATAATTGATC
1 AATTGACTGATACTGAATAATTGATC
* *
2072645 AATTGATTGATACTGAATAACTGAT
1 AATTGACTGATACTGAATAATTGAT
2072670 TATTATTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (26 bp):
AATTGACTGATACTGAATAATTGATC
Found at i:2072701 original size:62 final size:61
Alignment explanation
Indices: 2072586--2072704 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
2072576 ACTGAATAAT
* * * **
2072586 TTGATTGTTACTGTATATCTGATTTTATTGAATAATTGACTGTTACTGGATAATTGATCAA
1 TTGATTGATACTGAATAACTGATTTTATTGAATAATTGACTGTTACTAAATAATTGATCAA
*
2072647 TTGATTGATACTGAATAACTGATTATTATTGAATAATTGATTGTTA-TCAAATAATTGA
1 TTGATTGATACTGAATAACTGATT-TTATTGAATAATTGACTGTTACT-AAATAATTGA
2072705 CTGTTACTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
61 22 0.44
62 28 0.56
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.45
Consensus pattern (61 bp):
TTGATTGATACTGAATAACTGATTTTATTGAATAATTGACTGTTACTAAATAATTGATCAA
Found at i:2074092 original size:19 final size:17
Alignment explanation
Indices: 2074068--2074102 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
2074058 TATATTGCGT
2074068 AAAGAAAGAGGAAAAAAAA
1 AAAGAAA-A-GAAAAAAAA
2074087 AAAGAAAAGAAAAAAA
1 AAAGAAAAGAAAAAAA
2074103 TGAGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAAAAA
Found at i:2074627 original size:44 final size:44
Alignment explanation
Indices: 2074575--2074664 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
2074565 TCATAGGCTC
*
2074575 TTTTACAACATTAGAAAATACACCCATTATAACTCATAACACAT
1 TTTTACAACATTAGAAAATACACCCATTAGAACTCATAACACAT
*
2074619 TTTTACAACCTTAGAAAATACACCCATTAGAACTCATAACACAT
1 TTTTACAACATTAGAAAATACACCCATTAGAACTCATAACACAT
2074663 TT
1 TT
2074665 AGAGAATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.30
Consensus pattern (44 bp):
TTTTACAACATTAGAAAATACACCCATTAGAACTCATAACACAT
Found at i:2077255 original size:15 final size:16
Alignment explanation
Indices: 2077230--2077259 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2077220 TTAAATTAGT
2077230 TTTTATTTAAAAATAA
1 TTTTATTTAAAAATAA
2077246 TTTT-TTTAAAAATA
1 TTTTATTTAAAAATA
2077260 TAATGCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTATTTAAAAATAA
Found at i:2078419 original size:56 final size:56
Alignment explanation
Indices: 2078352--2078464 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
2078342 TACAAATTGC
* * *
2078352 TTAACATTTGGTATACATGGCTACTGGTTAGAAAAGATAACAATTGATATACAAAT
1 TTAACAGTTGGTATACATAGCTACTAGTTAGAAAAGATAACAATTGATATACAAAT
* * *
2078408 TTAACAGTTGGTATACATAGCTGCTAGTTAGAAAAGATAACAGTTGGTATACAAAT
1 TTAACAGTTGGTATACATAGCTACTAGTTAGAAAAGATAACAATTGATATACAAAT
2078464 T
1 T
2078465 GCTTAACAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (56 bp):
TTAACAGTTGGTATACATAGCTACTAGTTAGAAAAGATAACAATTGATATACAAAT
Found at i:2078925 original size:21 final size:21
Alignment explanation
Indices: 2078901--2078945 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
2078891 CAGTAGGTAA
*
2078901 CTGAGTTGGGGTACCCTCTTG
1 CTGACTTGGGGTACCCTCTTG
2078922 CTGACTTGGGGTACCCTCTTG
1 CTGACTTGGGGTACCCTCTTG
2078943 CTG
1 CTG
2078946 GGTTCAGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.27, G:0.31, T:0.33
Consensus pattern (21 bp):
CTGACTTGGGGTACCCTCTTG
Found at i:2079703 original size:83 final size:83
Alignment explanation
Indices: 2079608--2079786 Score: 254
Period size: 83 Copynumber: 2.1 Consensus size: 83
2079598 TATAAAAAAA
* *
2079608 AATCATTGCATGCATATTAAAAAATAGGCAAC-AC-ACCAACAATCATTGCATGCATATTAAAAA
1 AATCAATGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATT-AAAA
2079671 ATAGTCAACAGCTTTCCAAC
65 A-AGTCAACAGCTTTCCAAC
* * *
2079691 AATCAATGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAA
1 AATCAATGCATGCATATTAAAAAATAGGCAACAAC-TACCAACAATCATTGCATACATATTAAAA
*
2079756 AAGTCAATAGCTTTCCAAC
65 AAGTCAACAGCTTTCCAAC
*
2079775 AATCACTGCATG
1 AATCAATGCATG
2079787 TAATCAGCAA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
83 30 0.35
84 30 0.35
85 5 0.06
86 21 0.24
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (83 bp):
AATCAATGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAA
AGTCAACAGCTTTCCAAC
Found at i:2079704 original size:43 final size:43
Alignment explanation
Indices: 2079608--2079786 Score: 251
Period size: 43 Copynumber: 4.3 Consensus size: 43
2079598 TATAAAAAAA
* *
2079608 AATCATTGCATGCATATTAAAAAATAGGCAACA-C--ACCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
2079648 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
* * *
2079691 AATCAATGCATGCATATTAAAAAATAGTCAACAACTTTCCAAT
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
* *
2079734 AATCATTGCATACATATT-AAAAA-AGTCAATAGCTTTCCAAC
1 AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
*
2079775 AATCACTGCATG
1 AATCATTGCATG
2079787 TAATCAGCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
40 32 0.26
41 26 0.21
42 5 0.04
43 61 0.49
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (43 bp):
AATCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAAC
Found at i:2081821 original size:62 final size:62
Alignment explanation
Indices: 2081738--2081881 Score: 236
Period size: 62 Copynumber: 2.3 Consensus size: 62
2081728 AGGAGCCTGG
*
2081738 ATACAAACAAT-GATAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAA
1 ATACAAACAATAG-CAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAA
* *
2081800 ATACAAATAATAGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAG
1 ATACAAACAATAGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAA
*
2081862 ATACAAACAATGGCAGATAT
1 ATACAAACAATAGCAGATAT
2081882 GGCAGATACA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
62 75 0.99
63 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (62 bp):
ATACAAACAATAGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCAA
Found at i:2081883 original size:25 final size:25
Alignment explanation
Indices: 2081855--2081906 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2081845 GTATAATTTA
2081855 ATGGCAGATACAAACAATGGCAGAT
1 ATGGCAGATACAAACAATGGCAGAT
2081880 ATGGCAGATACAAACAATGGCAGAT
1 ATGGCAGATACAAACAATGGCAGAT
2081905 AT
1 AT
2081907 ACACAATAAA
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:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (25 bp):
ATGGCAGATACAAACAATGGCAGAT
Found at i:2081913 original size:16 final size:16
Alignment explanation
Indices: 2081854--2081905 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
2081844 TGTATAATTT
2081854 AATGGCAGATACAAAC
1 AATGGCAGATACAAAC
2081870 AATGGCAGAT------
1 AATGGCAGATACAAAC
2081880 -ATGGCAGATACAAAC
1 AATGGCAGATACAAAC
2081895 AATGGCAGATA
1 AATGGCAGATA
2081906 TACACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
9 9 0.31
16 20 0.69
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (16 bp):
AATGGCAGATACAAAC
Found at i:2081971 original size:92 final size:87
Alignment explanation
Indices: 2081793--2081973 Score: 281
Period size: 92 Copynumber: 2.0 Consensus size: 87
2081783 GTATAATTTA
* *
2081793 ATGGCAAATACAAATAATAGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATG
1 ATGGCAAATACAAACAATAGCAGATATACACAATAAACATCAGTTTAATAATCTATAATTTAATG
2081858 GCAGATACAAACAATGGCAGAT
66 GCAGATACAAACAATGGCAGAT
* *
2081880 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATTTAATAATCTATAATT
1 ATGGCAAATACAAACAATAGCAGATATACACAATAAACATCAG-----TTTAATAATCTATAATT
2081945 TAATGGCAGATACAAACAATGGCAGAT
61 TAATGGCAGATACAAACAATGGCAGAT
2081972 AT
1 AT
2081974 ACACAATAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
87 40 0.47
92 45 0.53
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (87 bp):
ATGGCAAATACAAACAATAGCAGATATACACAATAAACATCAGTTTAATAATCTATAATTTAATG
GCAGATACAAACAATGGCAGAT
Found at i:2082047 original size:64 final size:64
Alignment explanation
Indices: 2081880--2082154 Score: 381
Period size: 64 Copynumber: 4.2 Consensus size: 64
2081870 AATGGCAGAT
* * *
2081880 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATTTAATAATC-TATAAT
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGA--TAATGA-CAT-TCAT
**
2081944 TTA
62 ACA
*
2081947 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
* *
2082011 ATGGCAGATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
* * * * * *
2082075 ATGACAGACACAAACAATGGCAGATACACACAATAAAGACCAGTTTGATAATGGCATTCATACA
1 ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
2082139 ATGGCAGATACAAACA
1 ATGGCAGATACAAACA
2082155 CATCAAAATC
Statistics
Matches: 192, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
64 140 0.73
65 6 0.03
67 46 0.24
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (64 bp):
ATGGCAGATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGACATTCATACA
Found at i:2082128 original size:34 final size:34
Alignment explanation
Indices: 2082026--2082130 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 34
2082016 AGATACAAAC
* *
2082026 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCAGATACACACAATAAAGACCAGTTTGAT
* * * * *
2082060 AATGGC--ATTCATACAATGACAGACACA----AAC
1 AATGGCAGATACACACAAT-AAAGAC-CAGTTTGAT
2082090 AATGGCAGATACACACAATAAAGACCAGTTTGAT
1 AATGGCAGATACACACAATAAAGACCAGTTTGAT
2082124 AATGGCA
1 AATGGCA
2082131 TTCATACAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
30 9 0.18
31 5 0.10
32 17 0.33
33 4 0.08
34 16 0.31
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (34 bp):
AATGGCAGATACACACAATAAAGACCAGTTTGAT
Found at i:2082308 original size:12 final size:12
Alignment explanation
Indices: 2082291--2082330 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
2082281 TGAAATAACC
2082291 CTAAATCGAAAT
1 CTAAATCGAAAT
2082303 CTAAATCGAAAT
1 CTAAATCGAAAT
*
2082315 CAAAATC-AAATT
1 CTAAATCGAAA-T
2082327 CTAA
1 CTAA
2082331 TCCTAGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 22 0.88
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (12 bp):
CTAAATCGAAAT
Done.