Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 92 of 210
Found at i:26890596 original size:20 final size:20
Alignment explanation
Indices: 26890567--26890604 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26890557 AATTGAATTA
26890567 ATTTTTATAATTT-TTTTTT
1 ATTTTTATAATTTATTTTTT
26890586 ATTTTTGATAATTTATTTT
1 ATTTTT-ATAATTTATTTT
26890605 CTTTGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
ATTTTTATAATTTATTTTTT
Found at i:26890925 original size:22 final size:23
Alignment explanation
Indices: 26890895--26890944 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
26890885 TTTCCAAAAG
26890895 TTTT-ATTTTAAAAAAATAT-AT
1 TTTTAATTTTAAAAAAATATAAT
**
26890916 TTTTAATTTTAAAAAGTTATAAT
1 TTTTAATTTTAAAAAAATATAAT
26890939 TTTTAA
1 TTTTAA
26890945 AATTTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 13 0.52
23 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTTAATTTTAAAAAAATATAAT
Found at i:26890956 original size:16 final size:16
Alignment explanation
Indices: 26890914--26890960 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
26890904 AAAAAAATAT
26890914 ATTTTTAATTTTAAAA
1 ATTTTTAATTTTAAAA
* * *
26890930 AGTTATAATTTTTAAA
1 ATTTTTAATTTTAAAA
*
26890946 ATTTTTTA-TTTAAAA
1 ATTTTTAATTTTAAAA
26890961 TATGAAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTTAATTTTAAAA
Found at i:26905562 original size:41 final size:41
Alignment explanation
Indices: 26905496--26905774 Score: 350
Period size: 41 Copynumber: 6.8 Consensus size: 41
26905486 CTTTCGGGGT
* *
26905496 TTTAGCGGCGTTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCG-TTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * *
26905538 TTTACCGACGTTTTTGGGAAAGCGCCGCTAATGATCAGGCC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* **
26905579 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * *
26905620 TTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
* * *
26905661 TTTAGTGGCGTTTTTGGGAAAGCGCAGCTAATGATCAGGGA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
*
26905702 TTTAGCGGCGTTTTTGAGG-AAGCACCGCTAAT-ACTCAGGGC
1 TTTAGCGGCGTTTTTG-GGAAAGCGCCGCTAATGA-TCAGGGC
26905743 TTTAGCGGCGTTTTT--GAAGTAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGGGAA--AGCGCCGCTAAT
26905775 TCTATATTTT
Statistics
Matches: 209, Mismatches: 23, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 1 0.00
41 196 0.94
42 10 0.05
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGATCAGGGC
Found at i:26906797 original size:7 final size:7
Alignment explanation
Indices: 26906787--26906879 Score: 62
Period size: 7 Copynumber: 13.0 Consensus size: 7
26906777 TATGAATTAA
*
26906787 GGTTTAT
1 GGTTTAG
26906794 GGTTTAG
1 GGTTTAG
*
26906801 GGGTTAG
1 GGTTTAG
*
26906808 GGGTTAGG
1 GGTTTA-G
26906816 GGTTTAG
1 GGTTTAG
*
26906823 GGTTTAT
1 GGTTTAG
* *
26906830 GTTTTAT
1 GGTTTAG
**
26906837 AATTTAG
1 GGTTTAG
26906844 GGTTTAG
1 GGTTTAG
*
26906851 GAG-ATAG
1 G-GTTTAG
*
26906858 GGGTTAGG
1 GGTTTA-G
26906866 GGTTTAG
1 GGTTTAG
26906873 GGTTTAG
1 GGTTTAG
26906880 ATTAATTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
6 1 0.01
7 55 0.80
8 13 0.19
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:26906830 original size:50 final size:50
Alignment explanation
Indices: 26906769--26906878 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
26906759 ATTTAAATAA
* * * * *
26906769 TTAGGGATTATGAATTA-AGGTTTATGGTTTAGGGGTTAGGGGTTAGGGGT
1 TTAGGGTTTATGAATTATA-ATTTAGGGTTTAGGAGATAGGGGTTAGGGGT
**
26906819 TTAGGGTTTATGTTTTATAATTTAGGGTTTAGGAGATAGGGGTTAGGGGT
1 TTAGGGTTTATGAATTATAATTTAGGGTTTAGGAGATAGGGGTTAGGGGT
26906869 TTAGGGTTTA
1 TTAGGGTTTA
26906879 GATTAATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 51 0.98
51 1 0.02
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (50 bp):
TTAGGGTTTATGAATTATAATTTAGGGTTTAGGAGATAGGGGTTAGGGGT
Found at i:26910342 original size:5 final size:5
Alignment explanation
Indices: 26910334--26910360 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
26910324 ATATTTTACC
26910334 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
26910361 AAACAAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:26911351 original size:44 final size:43
Alignment explanation
Indices: 26911263--26911513 Score: 279
Period size: 43 Copynumber: 5.8 Consensus size: 43
26911253 CGGCGTTTTT
* * * * * *
26911263 ACCTTTAGCGGCGCTTTTCTCACAGACGTCGCTAAAGACCAGG
1 ACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAAG
* * * *
26911306 ACCTTTAGTGGCGTTTTTCCCACAAAATGCCGCTAAAGACTAGG
1 ACCTTTAGCGGCGCTTTTCCCA-AAAATGCCGCTAAAGACCAAG
* *
26911350 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAG
1 ACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAAG
**
26911393 ACCTTTAGCGGCGC-TTTCTCCAAAAATGCCGCTAAAGAAGAAG
1 ACCTTTAGCGGCGCTTTTC-CCAAAAATGCCGCTAAAGACCAAG
* *
26911436 ACCTTTAGCGGCGCTTTCCCCAAAAATTGCCGCTAAAGAACAAG
1 ACCTTTAGCGGCGCTTTTCCCAAAAA-TGCCGCTAAAGACCAAG
* * * * *
26911480 ACCTTTAGCGACACTTTTTCCACAAACGCCGCTA
1 ACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTA
26911514 TAACATTAAC
Statistics
Matches: 178, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.02
43 98 0.55
44 76 0.43
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAAG
Found at i:26911440 original size:130 final size:130
Alignment explanation
Indices: 26911263--26911513 Score: 328
Period size: 130 Copynumber: 1.9 Consensus size: 130
26911253 CGGCGTTTTT
* * * * * * * *
26911263 ACCTTTAGCGGCGCTTTTCTCACAGACGTCGCTAAAGACCAGGACCTTTAGTGGCGTTTTTCCCA
1 ACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCA
* * *
26911328 CAAAA-TGCCGCTAAAG-ACTAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCA
66 -AAAATTGCCGCTAAAGAAC-AAGACCTTTAGCGACACTTTTCCCACAAACGCCGCTAAAGACCA
26911391 AG
129 AG
* *
26911393 ACCTTTAGCGGCGC-TTTCTCCAAAAATGCCGCTAAAGAAGAAGACCTTTAGCGGCGCTTTCCCC
1 ACCTTTAGCGGCGCTTTTCT-CAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCC
*
26911457 AAAAATTGCCGCTAAAGAACAAGACCTTTAGCGACACTTTTTCCACAAACGCCGCTA
65 AAAAATTGCCGCTAAAGAACAAGACCTTTAGCGACACTTTTCCCACAAACGCCGCTA
26911514 TAACATTAAC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
129 9 0.09
130 93 0.89
131 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (130 bp):
ACCTTTAGCGGCGCTTTTCTCAAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCA
AAAATTGCCGCTAAAGAACAAGACCTTTAGCGACACTTTTCCCACAAACGCCGCTAAAGACCAAG
Found at i:26911474 original size:87 final size:86
Alignment explanation
Indices: 26911263--26911513 Score: 297
Period size: 87 Copynumber: 2.9 Consensus size: 86
26911253 CGGCGTTTTT
* * * * * * *
26911263 ACCTTTAGCGGCGCTTTTCTCACAGACGTCGCTAAAGACCAGGACCTTTAGTGGCG-TTTTTCCC
1 ACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTT-CC
** *
26911327 ACAAAATGCCGCTAAAGACTAGG
65 A-AAAATGCCGCTAAAGAAGAAG
* * *
26911350 ACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCTCCA
1 ACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCA
26911415 AAAATGCCGCTAAAGAAGAAG
66 AAAATGCCGCTAAAGAAGAAG
* * * *
26911436 ACCTTTAGCGGCGCTTTCCCCAAAAATTGCCGCTAAAGAACAAGACCTTTAGCGACACTTTTTCC
1 ACCTTTAGCGGCGCTTTCCCCAAAAA-CGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
* *
26911501 ACAAACGCCGCTA
65 AAAAATGCCGCTA
26911514 TAACATTAAC
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
86 42 0.29
87 98 0.68
88 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (86 bp):
ACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCA
AAAATGCCGCTAAAGAAGAAG
Found at i:26915084 original size:95 final size:95
Alignment explanation
Indices: 26914907--26915085 Score: 207
Period size: 95 Copynumber: 1.9 Consensus size: 95
26914897 GTTCACCAGG
* * * * **
26914907 AAACATGAGGTTATATTGTGTAAGACCATAACTCGACTATGGCAGCTTATGGAGTCTGTCGGAAC
1 AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
* *
26914972 ATTAAACATAGGGTAGTCCGCTTGGACGTT
66 AATAAACATAGGATAGTCCGCTTGGACGTT
* * * * * *
26915002 AAACATGGGGTTATATTATGTAAGACCATAGCTTGGCTATGACAACATATGGAACCTGTTGGGAC
1 AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
*
26915067 AATATACAT-GAGATAGTCC
66 AATAAACATAG-GATAGTCC
26915086 ACTGAGATAA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
94 1 0.01
95 67 0.99
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (95 bp):
AAACATGAGGTTATATTATGTAAGACCATAACTCGACTATGACAACATATGGAACCTGTCGGAAC
AATAAACATAGGATAGTCCGCTTGGACGTT
Found at i:26917495 original size:45 final size:45
Alignment explanation
Indices: 26917439--26917533 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
26917429 TACTATTTGA
* *
26917439 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
26917484 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
26917529 ACCGA
1 ACCGA
26917534 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:26920531 original size:25 final size:23
Alignment explanation
Indices: 26920503--26920560 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
26920493 TGTAGGTGCA
*
26920503 TGTATTAATTGAATTATAGTATGTC
1 TGTATTAATTAAATTA-AG-ATGTC
*
26920528 TGTATTAATTAAATTAAGATTTC
1 TGTATTAATTAAATTAAGATGTC
*
26920551 TCTATTAATT
1 TGTATTAATT
26920561 TAATATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 13 0.43
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.50
Consensus pattern (23 bp):
TGTATTAATTAAATTAAGATGTC
Found at i:26920560 original size:23 final size:25
Alignment explanation
Indices: 26920505--26920560 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
26920495 TAGGTGCATG
* *
26920505 TATTAATTGAATTATAGTATGTCTG
1 TATTAATTAAATTATAGTATGTCTC
*
26920530 TATTAATTAAATTA-AG-ATTTCTC
1 TATTAATTAAATTATAGTATGTCTC
26920553 TATTAATT
1 TATTAATT
26920561 TAATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 13 0.46
24 2 0.07
25 13 0.46
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (25 bp):
TATTAATTAAATTATAGTATGTCTC
Found at i:26922608 original size:65 final size:65
Alignment explanation
Indices: 26922504--26922650 Score: 242
Period size: 65 Copynumber: 2.3 Consensus size: 65
26922494 GATACACGGA
* *
26922504 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCC-AAAGTTGAAGCATAGAGCTAACA
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAG-TGAAGCATAAAACTAACA
26922568 C
65 C
* *
26922569 TCTCCAACACACTAAATGACTCATAGAGTCGATCATATCCCAAAAGTGAAGCATAAAACTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAACTAACAC
26922634 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
26922651 ATGTCCCATT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
65 72 0.95
66 4 0.05
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAACTAACAC
Found at i:26924880 original size:4 final size:4
Alignment explanation
Indices: 26924871--26924911 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
26924861 TCTAACATTC
26924871 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA ACAA A
26924912 TAAAGGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:26927032 original size:20 final size:22
Alignment explanation
Indices: 26926988--26927033 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
26926978 AAGAGATGAT
*
26926988 TTTTACAGAGAAAAAACTAGTG
1 TTTTACAGAGAAAAAACTAGAG
*
26927010 TTTTACAG-GAAAAACCT-GAG
1 TTTTACAGAGAAAAAACTAGAG
26927030 TTTT
1 TTTT
26927034 TTTTATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 8 0.36
22 8 0.36
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (22 bp):
TTTTACAGAGAAAAAACTAGAG
Found at i:26927035 original size:22 final size:22
Alignment explanation
Indices: 26926987--26927035 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
26926977 AAAGAGATGA
26926987 TTTTTACAGAGAAAAAACTAGT
1 TTTTTACAGAGAAAAAACTAGT
* *
26927009 GTTTTACAG-GAAAAACCTGAGT
1 TTTTTACAGAGAAAAAACT-AGT
26927031 TTTTT
1 TTTTT
26927036 TTATAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (22 bp):
TTTTTACAGAGAAAAAACTAGT
Found at i:26927618 original size:43 final size:43
Alignment explanation
Indices: 26927552--26927769 Score: 221
Period size: 43 Copynumber: 5.1 Consensus size: 43
26927542 ACGCCGCTAA
*
26927552 CTTTAGCGGCGCTTTTA-TAACAAACGCCGCTAAAGAACATGAC
1 CTTTAGCGGCGC-TTTAGTCACAAACGCCGCTAAAGAACATGAC
* * *
26927595 CTTTAGCGGCGCTTTTGTCACAAACGCCGCTAAAGATCTTGAC
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGAACATGAC
* * * * *
26927638 CTTTAGCGGCACTTTAGAT-ACAAACGTCGCTAAAGATCGTGAG
1 CTTTAGCGGCGCTTTAG-TCACAAACGCCGCTAAAGAACATGAC
* * * * *
26927681 CTTTAGCGACGCTTTAGCCACAAACGCCGCTAAAGAATA-AAT
1 CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGAACATGAC
* * *
26927723 CTTTAGCGACGCTTCTAG-CAAAAACGCCGCTAAA-AACATAAC
1 CTTTAGCGGCGCTT-TAGTCACAAACGCCGCTAAAGAACATGAC
26927765 CTTTA
1 CTTTA
26927770 AAAATATATT
Statistics
Matches: 149, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.02
42 40 0.27
43 105 0.70
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGTCACAAACGCCGCTAAAGAACATGAC
Found at i:26929096 original size:23 final size:23
Alignment explanation
Indices: 26929070--26929116 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
26929060 ATGTTCCATT
26929070 AATGATAAAGTATATACATTTTC
1 AATGATAAAGTATATACATTTTC
26929093 AATGATAAAGTATATACATTTTC
1 AATGATAAAGTATATACATTTTC
26929116 A
1 A
26929117 TATAGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (23 bp):
AATGATAAAGTATATACATTTTC
Found at i:26929202 original size:18 final size:18
Alignment explanation
Indices: 26929181--26929220 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26929171 AAAATAAAAT
26929181 AAAAGAATAAAAGCAATA
1 AAAAGAATAAAAGCAATA
** *
26929199 AAAAGCGTGAAAGCAATA
1 AAAAGAATAAAAGCAATA
26929217 AAAA
1 AAAA
26929221 AGACAGACAC
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:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAGAATAAAAGCAATA
Found at i:26933264 original size:21 final size:21
Alignment explanation
Indices: 26933221--26933264 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
26933211 AATTAACCTT
* **
26933221 TAACCTCTAACCCTTAATTCC
1 TAACCTCTAACCCCTAACCCC
26933242 TAACCTCTAACCCCTAACCCC
1 TAACCTCTAACCCCTAACCCC
26933263 TA
1 TA
26933265 TTTTACAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (21 bp):
TAACCTCTAACCCCTAACCCC
Found at i:26933405 original size:34 final size:34
Alignment explanation
Indices: 26933358--26933425 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
26933348 ATTTCTAAAC
* * * **
26933358 CCTAAATCACTAACTCTTAACTTTTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
*
26933392 CCTAAACCTCTAACCCCTAACTACTAACCCCTAA
1 CCTAAACCACTAACCCCTAACTACTAACCCCTAA
26933426 ACCTTATCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (34 bp):
CCTAAACCACTAACCCCTAACTACTAACCCCTAA
Found at i:26933482 original size:77 final size:76
Alignment explanation
Indices: 26933401--26933545 Score: 202
Period size: 77 Copynumber: 1.9 Consensus size: 76
26933391 ACCTAAACCT
* * * *
26933401 CTAACCCCTAACTACTAACCCCTAAACCTTATCTAATATATAAATTCAAAA-ACATTTATTAATC
1 CTAACCCCTAACCACTAACCCCTAAACCTTATCTAATA-AAAAATT-AAAACACACTAATTAATC
26933465 TAAACTCGAATCC
64 TAAACTCGAATCC
* * *
26933478 CTAACCCCTAACCCCTAACCCCTAAACCTTATTTCATAAAAAATTAAAACACACTAATTAATCTA
1 CTAACCCCTAACCACTAACCCCTAAACCTTATCTAATAAAAAATTAAAACACACTAATTAATCTA
26933543 AAC
66 AAC
26933546 CCTAAAGCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
75 4 0.07
76 22 0.37
77 34 0.57
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.28
Consensus pattern (76 bp):
CTAACCCCTAACCACTAACCCCTAAACCTTATCTAATAAAAAATTAAAACACACTAATTAATCTA
AACTCGAATCC
Found at i:26933488 original size:7 final size:7
Alignment explanation
Indices: 26933476--26933502 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26933466 AAACTCGAAT
26933476 CCCTAAC
1 CCCTAAC
26933483 CCCTAAC
1 CCCTAAC
26933490 CCCTAAC
1 CCCTAAC
26933497 CCCTAA
1 CCCTAA
26933503 ACCTTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
CCCTAAC
Found at i:26934106 original size:41 final size:41
Alignment explanation
Indices: 26934048--26934205 Score: 271
Period size: 41 Copynumber: 3.9 Consensus size: 41
26934038 AAAGGGGGGG
* *
26934048 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
26934089 GCGGCGCTTTTTAAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
26934130 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
26934171 GCGGCGCTTTTTTAAAAACGCCGCTAAAGACCTGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGA
26934206 TAGGTCAAAA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:26934286 original size:39 final size:40
Alignment explanation
Indices: 26934237--26934372 Score: 179
Period size: 40 Copynumber: 3.4 Consensus size: 40
26934227 GGGCTTAGGT
* *
26934237 TTTTTTGCGGCGTTTTTCCAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTTGA
*
26934276 TTTTTAGCGGCG-CTTTCCTAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTCC-AAAAGCGCCGCTAATGCTTGA
* **
26934316 TCTTTAGCGGCGTTTTGT-GTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTT-TCCAAAAGCGCCGCTAATGCTTGA
26934356 TTTTTAGCGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
26934373 TTCCAAACGC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
38 5 0.06
39 30 0.35
40 47 0.55
41 2 0.02
42 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTTGA
Found at i:26935707 original size:27 final size:27
Alignment explanation
Indices: 26935669--26935726 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
26935659 CATTTTGAGC
*
26935669 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
*
26935696 TTCTCTAACTCCAATCTCAGCCTCTCG
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26935723 TTCT
1 TTCT
26935727 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:26937463 original size:3 final size:3
Alignment explanation
Indices: 26937455--26937487 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26937445 TGGTAGTTTC
26937455 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26937488 TAAAATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26942005 original size:19 final size:19
Alignment explanation
Indices: 26941983--26942025 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
26941973 AAAATTAGAA
26941983 AAAAATTAG-AAAAAAATAT
1 AAAAA-TAGTAAAAAAATAT
*
26942002 AAAAATCGTAAAAAAATAT
1 AAAAATAGTAAAAAAATAT
26942021 AAAAA
1 AAAAA
26942026 AATTGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAATAGTAAAAAAATAT
Found at i:26942006 original size:11 final size:11
Alignment explanation
Indices: 26941972--26941999 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
26941962 TTAAAATATT
26941972 AAAAATTAGAA
1 AAAAATTAGAA
26941983 AAAAATTAGAA
1 AAAAATTAGAA
26941994 AAAAAT
1 AAAAAT
26942000 ATAAAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:26942027 original size:40 final size:39
Alignment explanation
Indices: 26941956--26942065 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 39
26941946 AAATTTTAAT
* *
26941956 AAAAAAT-TAAAATAT--TAAAAATTAGAAAAAAATTAG-A
1 AAAAAATATAAAA-ATCGTAAAAAATATAAAAAAATT-GTA
26941993 AAAAAATATAAAAATCGTAAAAAAATATAAAAAAATTGTA
1 AAAAAATATAAAAATCGT-AAAAAATATAAAAAAATTGTA
*** * *
26942033 AAATTTTATAAAGATTGTAAAAAATATAAAAAA
1 AAAAAATATAAAAATCGTAAAAAATATAAAAAA
26942066 TAGAAGTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
37 9 0.15
38 5 0.08
39 17 0.28
40 30 0.49
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.25
Consensus pattern (39 bp):
AAAAAATATAAAAATCGTAAAAAATATAAAAAAATTGTA
Found at i:26942446 original size:28 final size:28
Alignment explanation
Indices: 26942415--26942469 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
26942405 TTTTTTTCTA
*
26942415 ATTTTTAGTAAATTTTAA-ATATTTTTAC
1 ATTTTTAGTAAAATTTAATA-ATTTTTAC
*
26942443 ATTTTTATTAAAATTTAATAATTTTTA
1 ATTTTTAGTAAAATTTAATAATTTTTA
26942470 TAAAACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTAGTAAAATTTAATAATTTTTAC
Found at i:26942929 original size:31 final size:30
Alignment explanation
Indices: 26942868--26942929 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
26942858 TAAATTAAGA
*
26942868 TTTTATATTAATTAATAAAAACAACCTATTT
1 TTTTATATTAA-TAATAAAAACAACATATTT
*
26942899 TTTTATATTAA-AATATATAAACCACATATTT
1 TTTTATATTAATAATA-A-AAACAACATATTT
26942930 AAATTAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 1 0.04
31 22 0.81
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTATATTAATAATAAAAACAACATATTT
Found at i:26965421 original size:23 final size:24
Alignment explanation
Indices: 26965395--26965439 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
26965385 ATATCCCCAC
*
26965395 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
26965418 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
26965440 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:26970360 original size:21 final size:21
Alignment explanation
Indices: 26970336--26970377 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
26970326 GATGTGACTT
*
26970336 GAAAGGAAG-AAAATAACAAAA
1 GAAA-GAAGAAAAATAAAAAAA
*
26970357 GAAATAAGAAAAATAAAAAAA
1 GAAAGAAGAAAAATAAAAAAA
26970378 CTAAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
GAAAGAAGAAAAATAAAAAAA
Found at i:26973124 original size:12 final size:14
Alignment explanation
Indices: 26973094--26973125 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26973084 AAAAAAAGGA
26973094 AAAAATTAGAATGT
1 AAAAATTAGAATGT
26973108 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
26973120 AAAAAT
1 AAAAAT
26973126 AAAAGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:26974290 original size:45 final size:44
Alignment explanation
Indices: 26974205--26974297 Score: 159
Period size: 44 Copynumber: 2.1 Consensus size: 44
26974195 CAAAACCTTC
*
26974205 AAAAAAATAATGACACGTAGAAATAATTTGAAATAAAAACATAG
1 AAAAAAATAATGACACGTAGAAAAAATTTGAAATAAAAACATAG
*
26974249 AAAAAAATAATGACACGTAGAAAAAATTTGAAAGTGAAAACATAG
1 AAAAAAATAATGACACGTAGAAAAAATTTGAAA-TAAAAACATAG
26974294 AAAA
1 AAAA
26974298 TTATTTGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 32 0.70
45 14 0.30
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.18
Consensus pattern (44 bp):
AAAAAAATAATGACACGTAGAAAAAATTTGAAATAAAAACATAG
Found at i:26974563 original size:21 final size:21
Alignment explanation
Indices: 26974539--26974599 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
26974529 TAGATTATGA
* *
26974539 GTTTAGGGATTATGGTTTACG
1 GTTTACGGTTTATGGTTTACG
* * *
26974560 GTTTATGGTTTAAGGTTTAGG
1 GTTTACGGTTTATGGTTTACG
*
26974581 GGTTACGGTTTATGGTTTA
1 GTTTACGGTTTATGGTTTA
26974600 AGATTTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.46
Consensus pattern (21 bp):
GTTTACGGTTTATGGTTTACG
Found at i:26974564 original size:7 final size:7
Alignment explanation
Indices: 26974552--26974599 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
26974542 TAGGGATTAT
26974552 GGTTTAC
1 GGTTTAC
*
26974559 GGTTTAT
1 GGTTTAC
*
26974566 GGTTTAA
1 GGTTTAC
*
26974573 GGTTTAG
1 GGTTTAC
*
26974580 GGGTTAC
1 GGTTTAC
*
26974587 GGTTTAT
1 GGTTTAC
26974594 GGTTTA
1 GGTTTA
26974600 AGATTTATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (7 bp):
GGTTTAC
Found at i:26974565 original size:14 final size:14
Alignment explanation
Indices: 26974533--26974599 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
26974523 GGTTTATAGA
* *
26974533 TTATGAGTTTAGGGA
1 TTATG-GTTTACGGT
26974548 TTATGGTTTACGGT
1 TTATGGTTTACGGT
*
26974562 TTATGGTTTAAGGT
1 TTATGGTTTACGGT
* *
26974576 TTAGGGGTTACGGT
1 TTATGGTTTACGGT
26974590 TTATGGTTTA
1 TTATGGTTTA
26974600 AGATTTATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 39 0.89
15 5 0.11
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATGGTTTACGGT
Found at i:26974606 original size:14 final size:14
Alignment explanation
Indices: 26974519--26974607 Score: 58
Period size: 14 Copynumber: 6.4 Consensus size: 14
26974509 AGTTACTATT
26974519 TTTA-GGTTTATAGA
1 TTTATGGTTTA-AGA
*
26974533 -TTATGAGTTTAGGGA
1 TTTATG-GTTTA-AGA
* *
26974548 -TTATGGTTTACGG
1 TTTATGGTTTAAGA
*
26974561 TTTATGGTTTAAGG
1 TTTATGGTTTAAGA
* * * *
26974575 TTTAGGGGTTACGG
1 TTTATGGTTTAAGA
26974589 TTTATGGTTTAAGA
1 TTTATGGTTTAAGA
26974603 TTTAT
1 TTTAT
26974608 AAATTAAGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.07
14 44 0.73
15 12 0.20
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTATGGTTTAAGA
Found at i:26974639 original size:14 final size:14
Alignment explanation
Indices: 26974614--26974674 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
26974604 TTATAAATTA
26974614 AGGGTT-GGGGTTT
1 AGGGTTAGGGGTTT
26974627 AGGGTTAGGGG-TT
1 AGGGTTAGGGGTTT
* * *
26974640 AGGGGTTAAGAGTTA
1 A-GGGTTAGGGGTTT
*
26974655 AGAGTTAGGGGTTT
1 AGGGTTAGGGGTTT
*
26974669 AAGGTT
1 AGGGTT
26974675 TAGATTAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
13 9 0.25
14 25 0.69
15 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.33
Consensus pattern (14 bp):
AGGGTTAGGGGTTT
Found at i:26974644 original size:21 final size:21
Alignment explanation
Indices: 26974611--26974674 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
26974601 GATTTATAAA
26974611 TTAAGGGTT-GGGGTTTAGGG
1 TTAAGGGTTAGGGGTTTAGGG
* * *
26974631 TTAGGGGTTAGGGGTTAAGAG
1 TTAAGGGTTAGGGGTTTAGGG
* *
26974652 TTAAGAGTTAGGGGTTTAAGG
1 TTAAGGGTTAGGGGTTTAGGG
26974673 TT
1 TT
26974675 TAGATTAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTTAGGG
Found at i:26974674 original size:28 final size:27
Alignment explanation
Indices: 26974630--26974682 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
26974620 GGGGTTTAGG
*
26974630 GTTAGGGGTTAGGGGTTAAGAGTTAAGA
1 GTTAGGGGTTAGAGGTTAAGA-TTAAGA
*
26974658 GTTAGGGGTTTA-AGGTTTAGATTAA
1 GTTAGGGG-TTAGAGGTTAAGATTAA
26974683 TTAGTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 4 0.18
28 15 0.68
29 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (27 bp):
GTTAGGGGTTAGAGGTTAAGATTAAGA
Found at i:26974799 original size:16 final size:16
Alignment explanation
Indices: 26974780--26974850 Score: 74
Period size: 16 Copynumber: 4.3 Consensus size: 16
26974770 ATAGTTTAAA
*
26974780 TTATTTATAAATAATT
1 TTATATATAAATAATT
26974796 TTATAT-TAAATAA-T
1 TTATATATAAATAATT
26974810 TTATATATTAAATAATT
1 TTATATA-TAAATAATT
*
26974827 TAATATATTAACATAATT
1 TTATATA-TAA-ATAATT
26974845 ATTATA
1 -TTATA
26974851 ATGTTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
14 7 0.15
15 7 0.15
16 12 0.26
17 11 0.23
18 6 0.13
19 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (16 bp):
TTATATATAAATAATT
Found at i:26974807 original size:15 final size:16
Alignment explanation
Indices: 26974787--26974844 Score: 91
Period size: 16 Copynumber: 3.6 Consensus size: 16
26974777 AAATTATTTA
26974787 TAAATAATTT-TATAT
1 TAAATAATTTATATAT
26974802 TAAATAATTTATATAT
1 TAAATAATTTATATAT
26974818 TAAATAATTTAATATAT
1 TAAATAATTT-ATATAT
26974835 TAACATAATT
1 TAA-ATAATT
26974845 ATTATAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.25
16 15 0.38
17 9 0.22
18 6 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATAATTTATATAT
Found at i:26974979 original size:14 final size:14
Alignment explanation
Indices: 26974957--26975066 Score: 53
Period size: 14 Copynumber: 7.7 Consensus size: 14
26974947 TTAATTATGA
* *
26974957 TTATAGTTTTGGGT
1 TTATGGTTTAGGGT
26974971 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
26974985 ATATGGTGTAAGGT
1 TTATGGTTTAGGGT
* *
26974999 TTAAGGTTTAAGAGTT
1 TTATGGTTT-AG-GGT
*
26975015 ATTAT--TTTAAGGT
1 -TTATGGTTTAGGGT
*
26975028 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * **
26975043 TTAGGGATTACAGT
1 TTATGGTTTAGGGT
26975057 TTATGGTTTA
1 TTATGGTTTA
26975067 TTGTTTAAGG
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
12 4 0.06
13 2 0.03
14 43 0.61
15 16 0.23
16 2 0.03
17 3 0.04
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:26975092 original size:21 final size:22
Alignment explanation
Indices: 26975063--26975110 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
26975053 CAGTTTATGG
*
26975063 TTTATTGTTTAAGGGTT-GGGA
1 TTTAATGTTTAAGGGTTAGGGA
* *
26975084 TTTAATGTTTAGGGGTTAGGGG
1 TTTAATGTTTAAGGGTTAGGGA
26975106 TTTAA
1 TTTAA
26975111 GATTTCAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (22 bp):
TTTAATGTTTAAGGGTTAGGGA
Found at i:26977126 original size:3 final size:3
Alignment explanation
Indices: 26977118--26977150 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
26977108 TTTTCTCCTC
26977118 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26977151 TAATTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26977231 original size:20 final size:20
Alignment explanation
Indices: 26977186--26977234 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
26977176 ACATTTTTTA
*
26977186 ATATATATTATACTTTCTAT
1 ATATATATTATAATTTCTAT
** *
26977206 CCATATTTTATAATTTCTAT
1 ATATATATTATAATTTCTAT
26977226 ATATATATT
1 ATATATATT
26977235 TTTCTTTATT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATATTATAATTTCTAT
Found at i:26978082 original size:16 final size:16
Alignment explanation
Indices: 26978061--26978091 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26978051 GGGCGTTACA
26978061 ACATTAATTAATTAAG
1 ACATTAATTAATTAAG
26978077 ACATTAATTAATTAA
1 ACATTAATTAATTAA
26978092 CTAGGTACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ACATTAATTAATTAAG
Found at i:26982879 original size:22 final size:22
Alignment explanation
Indices: 26982832--26982880 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
26982822 AAATAGCTTA
* *
26982832 TTTTTACAGATAAAAATCTAGG
1 TTTTTACAGAGAAAAATATAGG
26982854 TTTTTACAG-GAAAAATAT-GAG
1 TTTTTACAGAGAAAAATATAG-G
26982875 TTTTTA
1 TTTTTA
26982881 TAGGGAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.58
22 9 0.38
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (22 bp):
TTTTTACAGAGAAAAATATAGG
Found at i:26984467 original size:21 final size:21
Alignment explanation
Indices: 26984441--26984492 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
26984431 GTGCATTTTG
26984441 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCAT-ACTCCAATCTC
*
26984462 AGCTTCTCATTCTCCAATCTC
1 AGCTTCTCATACTCCAATCTC
26984483 AGCTTCTCAT
1 AGCTTCTCAT
26984493 TCTCTAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.37, G:0.06, T:0.37
Consensus pattern (21 bp):
AGCTTCTCATACTCCAATCTC
Found at i:26984493 original size:21 final size:21
Alignment explanation
Indices: 26984452--26984496 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
26984442 GCTTCTCTAA
26984452 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCTTCTCATT
26984473 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCTTCTCATT
26984494 CTC
1 CTC
26984497 TAACTCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.40, G:0.04, T:0.38
Consensus pattern (21 bp):
CTCCAATCTCAGCTTCTCATT
Found at i:26984495 original size:27 final size:27
Alignment explanation
Indices: 26984444--26984522 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
26984434 CATTTTGAGC
*
26984444 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
*
26984471 ---T-T--CTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26984492 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
26984519 TTCT
1 TTCT
26984523 GGTGCAACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
21 19 0.42
23 1 0.02
24 2 0.04
25 1 0.02
27 22 0.49
ACGTcount: A:0.20, C:0.38, G:0.04, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:26990975 original size:39 final size:39
Alignment explanation
Indices: 26990879--26990977 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
26990869 ATTCACTTTT
* * * *
26990879 AAGCCTATATCACATTACACATATAAGTACATAACGTTC
1 AAGCATATATCACAATACTCATATAAGTACATAACATTC
* * *
26990918 AAGCACATATCGCAATACTCATATAA-TCACATAATATTC
1 AAGCATATATCACAATACTCATATAAGT-ACATAACATTC
*
26990957 AAGCATATAACACAATACTCA
1 AAGCATATATCACAATACTCA
26990978 AAAACATGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.26
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAAGTACATAACATTC
Found at i:26994176 original size:22 final size:23
Alignment explanation
Indices: 26994131--26994176 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
26994121 ACCAAAATGG
*
26994131 TACCAAACAACAACATATATACA
1 TACCAAACAACAACATATAAACA
* *
26994154 TACCAAA-ATCAACATCTAAACA
1 TACCAAACAACAACATATAAACA
26994176 T
1 T
26994177 TCAACTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (23 bp):
TACCAAACAACAACATATAAACA
Found at i:27004129 original size:6 final size:6
Alignment explanation
Indices: 27004118--27004165 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
27004108 AATTTAGCCA
**
27004118 TTTAAT TTTAAT TTTAAT TTTAATATT TTTGTT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTT-A-A-T TTTAAT TTTAAT TTTAAT TTT
27004166 CTTTTATTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 29 0.83
7 1 0.03
8 1 0.03
9 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTAAT
Found at i:27013447 original size:22 final size:23
Alignment explanation
Indices: 27013417--27013479 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
27013407 TTAGATTTTA
*
27013417 TTTAGTTTTATGTTTTATT-TATT
1 TTTACTTTTAT-TTTTATTCTATT
*
27013440 TTT-CTTTT-TCTTTTTTTCTATT
1 TTTACTTTTAT-TTTTATTCTATT
27013462 TTTACTTTTATTTTTATT
1 TTTACTTTTATTTTTATT
27013480 ATTAGTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 11 0.33
23 14 0.42
24 1 0.03
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (23 bp):
TTTACTTTTATTTTTATTCTATT
Found at i:27013453 original size:21 final size:20
Alignment explanation
Indices: 27013429--27013501 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 20
27013419 TAGTTTTATG
27013429 TTTTATTTATTTTTCTTTTT
1 TTTTATTTATTTTTCTTTTT
*
27013449 CTTTTTTTCTATTTTTACTTTTAT
1 -TTTTATT-TATTTTT-CTTTT-T
* *
27013473 TTTTA-TTATTAGTTATTTTT
1 TTTTATTTATT-TTTCTTTTT
27013493 ATTTTATTT
1 -TTTTATTT
27013502 TTTAGACTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.02
21 19 0.45
22 12 0.29
23 9 0.21
24 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (20 bp):
TTTTATTTATTTTTCTTTTT
Found at i:27013478 original size:6 final size:6
Alignment explanation
Indices: 27013417--27013503 Score: 53
Period size: 6 Copynumber: 15.5 Consensus size: 6
27013407 TTAGATTTTA
* * * *
27013417 TTTAGT TTTATGT TTTA-- TTTATT TTTCTT TTT-CT TTT-TT TCTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
27013462 TTTACT TTTATT TTTATT ATTA-- GTTATT TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
27013504 TAGACTTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 7 0.11
5 12 0.19
6 39 0.62
7 5 0.08
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:27013519 original size:27 final size:27
Alignment explanation
Indices: 27013485--27013557 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
27013475 TTATTATTAG
27013485 TTATTTTTATTTTATTTTTTA-G-ACT
1 TTATTTTTATTTTATTTTTTATGCACT
*
27013510 TATATGTTTTGTTTTATTTTATTATGCACT
1 T-TAT-TTTTATTTTATTTT-TTATGCACT
27013540 TTATTTTTA--TTATTTTTT
1 TTATTTTTATTTTATTTTTT
27013558 CGGTTGTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 3 0.07
26 10 0.24
27 13 0.32
28 7 0.17
29 4 0.10
30 4 0.10
ACGTcount: A:0.19, C:0.04, G:0.05, T:0.71
Consensus pattern (27 bp):
TTATTTTTATTTTATTTTTTATGCACT
Found at i:27023167 original size:16 final size:16
Alignment explanation
Indices: 27023143--27023173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27023133 TCATAAACTT
27023143 TTTAATATTTATTTTA
1 TTTAATATTTATTTTA
*
27023159 TTTATTATTTATTTT
1 TTTAATATTTATTTT
27023174 TAAATTTTTA
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATATTTATTTTA
Found at i:27023268 original size:19 final size:19
Alignment explanation
Indices: 27023231--27023271 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27023221 AGCATCGTTA
*
27023231 AAATTTTAATAATTTAATT
1 AAATTTTAATAATTAAATT
27023250 AAATTTTAA-AATTAAAATT
1 AAATTTTAATAATT-AAATT
27023269 AAA
1 AAA
27023272 AGTGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTAATAATTAAATT
Found at i:27030331 original size:20 final size:20
Alignment explanation
Indices: 27030306--27030354 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
27030296 AAAACATAAA
27030306 ATTTTAAAAACTATAATTTT
1 ATTTTAAAAACTATAATTTT
* *
27030326 ATTTTAAAAATTTTAATTTT
1 ATTTTAAAAACTATAATTTT
*
27030346 TTTTTAAAA
1 ATTTTAAAA
27030355 CAAAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAAAACTATAATTTT
Found at i:27030423 original size:27 final size:29
Alignment explanation
Indices: 27030359--27030428 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 29
27030349 TTAAAACAAA
*
27030359 AAATTAT-GAAAAATAATAAAAGATCTTT
1 AAATTATAAAAAAATAATAAAAGATCTTT
* *
27030387 AAATTTTAAAAAAATAA-AAATGAT-TTT
1 AAATTATAAAAAAATAATAAAAGATCTTT
27030414 GAAA-TATAAATAAAA
1 -AAATTATAAA-AAAA
27030429 ATTGCAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 8 0.23
28 19 0.54
29 8 0.23
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (29 bp):
AAATTATAAAAAAATAATAAAAGATCTTT
Found at i:27035084 original size:13 final size:13
Alignment explanation
Indices: 27035066--27035099 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
27035056 CTCAGTCAAT
27035066 TTTTTTCATTTAA
1 TTTTTTCATTTAA
*
27035079 TTTTTTGATTTAA
1 TTTTTTCATTTAA
27035092 TTCTTTTC
1 TT-TTTTC
27035100 CTTTTCTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (13 bp):
TTTTTTCATTTAA
Found at i:27036114 original size:24 final size:22
Alignment explanation
Indices: 27036060--27036124 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 22
27036050 ACATATAAGT
*
27036060 CTAAAAATTAAAATAAAAACAA
1 CTAAAAAATAAAATAAAAACAA
*
27036082 CTAACAAATAAAATAAAAGTACAA
1 CTAAAAAATAAAATAAAA--ACAA
27036106 CTAAAAAATATAAATAAAA
1 CTAAAAAATA-AAATAAAA
27036125 TAATTAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.43
24 13 0.35
25 8 0.22
ACGTcount: A:0.71, C:0.09, G:0.02, T:0.18
Consensus pattern (22 bp):
CTAAAAAATAAAATAAAAACAA
Found at i:27037721 original size:30 final size:30
Alignment explanation
Indices: 27037687--27037745 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
27037677 CTAAAATCAT
* *
27037687 TAATACTAATAATGAACAGAATAAGAATAC
1 TAATACTAATAATAAACAAAATAAGAATAC
* *
27037717 TAATATTAATAATAAACAAAATAATAATA
1 TAATACTAATAATAAACAAAATAAGAATA
27037746 ATACAACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (30 bp):
TAATACTAATAATAAACAAAATAAGAATAC
Found at i:27037739 original size:18 final size:19
Alignment explanation
Indices: 27037718--27037755 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27037708 TAAGAATACT
*
27037718 AATATTAATAATA-AACAA
1 AATAATAATAATACAACAA
27037736 AATAATAATAATACAACAA
1 AATAATAATAATACAACAA
27037755 A
1 A
27037756 TAAACAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (19 bp):
AATAATAATAATACAACAA
Found at i:27037783 original size:12 final size:12
Alignment explanation
Indices: 27037768--27037797 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27037758 AACAAAGTAA
*
27037768 TAATATTAATAG
1 TAATAGTAATAG
27037780 TAATAGTAATAG
1 TAATAGTAATAG
27037792 TAATAG
1 TAATAG
27037798 AAACTAATAT
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:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (12 bp):
TAATAGTAATAG
Found at i:27044918 original size:21 final size:21
Alignment explanation
Indices: 27044894--27044936 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27044884 ACACTTTTTT
27044894 CCATC-CATCTTCTCACTCTCC
1 CCATCTCATCTTCTCAC-CTCC
* *
27044915 CCATCTCATTTTTTCACCTCC
1 CCATCTCATCTTCTCACCTCC
27044936 C
1 C
27044937 TAAAACTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.14, C:0.49, G:0.00, T:0.37
Consensus pattern (21 bp):
CCATCTCATCTTCTCACCTCC
Found at i:27046139 original size:18 final size:18
Alignment explanation
Indices: 27046104--27046139 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
27046094 TCACATGCCA
*
27046104 AAGTGAAAAGTTATTTTT
1 AAGTGAAAAGTGATTTTT
27046122 AAGTGAAAAAGTGATTTT
1 AAGTG-AAAAGTGATTTT
27046140 GTGGCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (18 bp):
AAGTGAAAAGTGATTTTT
Found at i:27065087 original size:44 final size:44
Alignment explanation
Indices: 27065039--27065123 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
27065029 GAAGATTTTG
* *
27065039 CCAAAATAAAAA-AAACAC-AATAAAAAGAAAGAAAAACAATAAAA
1 CCAAAAAAAAAAGAAAC-CAAAAAAAAAGAAAGAAAAA-AATAAAA
27065083 CCAAAAAAAAAAGAAACCAAAAAAAAAGAAAGAAAAAAATA
1 CCAAAAAAAAAAGAAACCAAAAAAAAAGAAAGAAAAAAATA
27065124 GAGAGAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.79, C:0.11, G:0.06, T:0.05
Consensus pattern (44 bp):
CCAAAAAAAAAAGAAACCAAAAAAAAAGAAAGAAAAAAATAAAA
Found at i:27065092 original size:19 final size:19
Alignment explanation
Indices: 27065046--27065109 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 19
27065036 TTGCCAAAAT
**
27065046 AAAAAAAACACAATAAAAAG
1 AAAAAAAA-ACAATAAAACC
*
27065066 AAAGAAAAACAATAAAACC
1 AAAAAAAAACAATAAAACC
*
27065085 -AAAAAAAA-AA-GAAACC
1 AAAAAAAAACAATAAAACC
27065101 AAAAAAAAA
1 AAAAAAAAA
27065110 GAAAGAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 5 0.13
17 10 0.26
18 7 0.18
19 9 0.24
20 7 0.18
ACGTcount: A:0.81, C:0.11, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAAAAAACAATAAAACC
Found at i:27065104 original size:15 final size:16
Alignment explanation
Indices: 27065080--27065113 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
27065070 AAAAACAATA
27065080 AAACCAAAAAAAAAAG
1 AAACCAAAAAAAAAAG
27065096 AAACC-AAAAAAAAAG
1 AAACCAAAAAAAAAAG
27065111 AAA
1 AAA
27065114 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (16 bp):
AAACCAAAAAAAAAAG
Found at i:27065584 original size:42 final size:42
Alignment explanation
Indices: 27065525--27065997 Score: 586
Period size: 42 Copynumber: 11.3 Consensus size: 42
27065515 AAGGAAAACA
**
27065525 TTCATTGCATTTAGAGGCATAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
27065567 TTCATTACATTTAGAGGCCTAGGCGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * **
27065609 TTTATTGCATTTAAAGACCCAAGTGTGGAGGTCTGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
27065651 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
27065693 TTTATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
27065735 TTTATTGCATTTAGAGGCCCAGGTGTGGAGTTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
27065777 TTCATTGCATTTAGAAGTCTATGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
27065819 TTTATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * * *
27065861 TTCATTGTATTTAGAGACTCAGGTGTGGAGGTTCATTCATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * **
27065903 TTCATTGCATTTAGAGACCCAGGTGTGGAAGTCTGTTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * *
27065945 TCCATTGCATTTAAAAGCCCAAGTATGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
27065987 TTTATTGCATT
1 TTCATTGCATT
27065998 GTATATGAAG
Statistics
Matches: 369, Mismatches: 62, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 369 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:27068289 original size:32 final size:31
Alignment explanation
Indices: 27068253--27068321 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 31
27068243 ATTTCAAAGA
27068253 TATTTTTCCAGATTTTAATGAGATCTCAAAC
1 TATTTTTCCAGATTTTAATGAGATCTCAAAC
*
27068284 TTATTTTTCCATATTTTAATGAGATCTCAAAC
1 -TATTTTTCCAGATTTTAATGAGATCTCAAAC
27068316 TATTTT
1 TATTTT
27068322 AAAATTCAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 6 0.17
32 30 0.83
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.48
Consensus pattern (31 bp):
TATTTTTCCAGATTTTAATGAGATCTCAAAC
Found at i:27074646 original size:19 final size:19
Alignment explanation
Indices: 27074619--27074662 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
27074609 CACAAGCATA
*
27074619 TACATACCAAATCAACCAT
1 TACACACCAAATCAACCAT
27074638 TACACACCAAATCAACCAT
1 TACACACCAAATCAACCAT
27074657 TACACA
1 TACACA
27074663 TTCAAGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (19 bp):
TACACACCAAATCAACCAT
Found at i:27077517 original size:21 final size:21
Alignment explanation
Indices: 27077493--27077537 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27077483 TCTACGATCA
*
27077493 AACTGTAAGTTCTACCGATAC
1 AACTCTAAGTTCTACCGATAC
** *
27077514 AACTCTGGGTTCTATCGATAC
1 AACTCTAAGTTCTACCGATAC
27077535 AAC
1 AAC
27077538 CCGGACTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (21 bp):
AACTCTAAGTTCTACCGATAC
Found at i:27080610 original size:4 final size:4
Alignment explanation
Indices: 27080603--27080627 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27080593 ATTAACCATT
27080603 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
27080628 GACATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:27086165 original size:53 final size:53
Alignment explanation
Indices: 27086107--27086213 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
27086097 TTTATGTTGG
27086107 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
1 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
27086160 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
1 GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
27086213 G
1 G
27086214 ATGGAATAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (53 bp):
GCTGCTATACCTATTGCATTTGATTTTAGGTTGAATGCTTTGATTTAAGTAAA
Found at i:27098467 original size:498 final size:498
Alignment explanation
Indices: 27097530--27098527 Score: 1960
Period size: 498 Copynumber: 2.0 Consensus size: 498
27097520 TATGGGTATG
27097530 TATTCTACACAGGTATTGCCCATTTTTTCCATGTTTTTCCATTTATTTGGAGGGGCATATTCCCA
1 TATTCTACACAGGTATTGCCCATTTTTTCCATGTTTTTCCATTTATTTGGAGGGGCATATTCCCA
27097595 TACCCTTGTTCTTATATGCATCAGACACGATCTTGAACACAGGTATATCAAGAAAAATAGAGAGT
66 TACCCTTGTTCTTATATGCATCAGACACGATCTTGAACACAGGTATATCAAGAAAAATAGAGAGT
27097660 TGTAGCAATAGAGGTTTGAGGTATAGAAAAACATGGTAGCTGTTTATTTAGAAAGGCATCTGGTC
131 TGTAGCAATAGAGGTTTGAGGTATAGAAAAACATGGTAGCTGTTTATTTAGAAAGGCATCTGGTC
27097725 GATACTGTGATTGAAATCATTTTAAGATATTTCAATAGGAGTTAGAGCTACATATTCATTCCTCC
196 GATACTGTGATTGAAATCATTTTAAGATATTTCAATAGGAGTTAGAGCTACATATTCATTCCTCC
*
27097790 TAAACGCTAATAAAGGATGACATAACCAGAGATGCAAACTGCAGAAATATGGCTAGGAGAATTAC
261 TAAACGCTAATAAAGGATGACATAACCAGAGATGCAAACTGCAGAAATATGACTAGGAGAATTAC
27097855 TGAGCTTTATTAAGTTCATTTGTGAGAATACTCTTGGATTTGCAGACTTGCAGTTTTGCAAATGC
326 TGAGCTTTATTAAGTTCATTTGTGAGAATACTCTTGGATTTGCAGACTTGCAGTTTTGCAAATGC
27097920 ATTATGGGCTCTGAAAACATGTTTATTCAACAACTTTGTTGATAGTTTCGATAATGTTGATAAAC
391 ATTATGGGCTCTGAAAACATGTTTATTCAACAACTTTGTTGATAGTTTCGATAATGTTGATAAAC
27097985 TTATTGAACTGAGTGACCTGAATGGTTCTGATATGGAAGAAAA
456 TTATTGAACTGAGTGACCTGAATGGTTCTGATATGGAAGAAAA
27098028 TATTCTACACAGGTATTGCCCATTTTTTCCATGTTTTTCCATTTATTTGGAGGGGCATATTCCCA
1 TATTCTACACAGGTATTGCCCATTTTTTCCATGTTTTTCCATTTATTTGGAGGGGCATATTCCCA
27098093 TACCCTTGTTCTTATATGCATCAGACACGATCTTGAACACAGGTATATCAAGAAAAATAGAGAGT
66 TACCCTTGTTCTTATATGCATCAGACACGATCTTGAACACAGGTATATCAAGAAAAATAGAGAGT
*
27098158 TGTAGCAATAGAGGTTTGAGGTATAGAAAAACATGGTAGCTGTTTATTTAGAAAGGCGTCTGGTC
131 TGTAGCAATAGAGGTTTGAGGTATAGAAAAACATGGTAGCTGTTTATTTAGAAAGGCATCTGGTC
27098223 GATACTGTGATTGAAATCATTTTAAGATATTTCAATAGGAGTTAGAGCTACATATTCATTCCTCC
196 GATACTGTGATTGAAATCATTTTAAGATATTTCAATAGGAGTTAGAGCTACATATTCATTCCTCC
27098288 TAAACGCTAATAAAGGATGACATAACCAGAGATGCAAACTGCAGAAATATGACTAGGAGAATTAC
261 TAAACGCTAATAAAGGATGACATAACCAGAGATGCAAACTGCAGAAATATGACTAGGAGAATTAC
27098353 TGAGCTTTATTAAGTTCATTTGTGAGAATACTCTTGGATTTGCAGACTTGCAGTTTTGCAAATGC
326 TGAGCTTTATTAAGTTCATTTGTGAGAATACTCTTGGATTTGCAGACTTGCAGTTTTGCAAATGC
*
27098418 ATTATGGGCTCTGAAAACATGTTTCTTCAACAACTTTGTTGATAGTTTCGATAATGTTGATAAAC
391 ATTATGGGCTCTGAAAACATGTTTATTCAACAACTTTGTTGATAGTTTCGATAATGTTGATAAAC
*
27098483 TTATTGAACTGAGTGACCTGAATGTTTCTGATATGGAAGAAAA
456 TTATTGAACTGAGTGACCTGAATGGTTCTGATATGGAAGAAAA
27098526 TA
1 TA
27098528 CTCTTTAGTT
Statistics
Matches: 496, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
498 496 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (498 bp):
TATTCTACACAGGTATTGCCCATTTTTTCCATGTTTTTCCATTTATTTGGAGGGGCATATTCCCA
TACCCTTGTTCTTATATGCATCAGACACGATCTTGAACACAGGTATATCAAGAAAAATAGAGAGT
TGTAGCAATAGAGGTTTGAGGTATAGAAAAACATGGTAGCTGTTTATTTAGAAAGGCATCTGGTC
GATACTGTGATTGAAATCATTTTAAGATATTTCAATAGGAGTTAGAGCTACATATTCATTCCTCC
TAAACGCTAATAAAGGATGACATAACCAGAGATGCAAACTGCAGAAATATGACTAGGAGAATTAC
TGAGCTTTATTAAGTTCATTTGTGAGAATACTCTTGGATTTGCAGACTTGCAGTTTTGCAAATGC
ATTATGGGCTCTGAAAACATGTTTATTCAACAACTTTGTTGATAGTTTCGATAATGTTGATAAAC
TTATTGAACTGAGTGACCTGAATGGTTCTGATATGGAAGAAAA
Found at i:27103445 original size:38 final size:38
Alignment explanation
Indices: 27103381--27103458 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
27103371 AGGTAATGGC
* *
27103381 TTTACACCTCTTCGATCATTACCCTGTAAGTAAATTCA
1 TTTACACCTCTTCAATCATTACCCTGTAAGTAAACTCA
* *
27103419 TTTACACCTCTTCAATTATTATCCTGTAAGTAAACTCA
1 TTTACACCTCTTCAATCATTACCCTGTAAGTAAACTCA
27103457 TT
1 TT
27103459 CGGCTTCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (38 bp):
TTTACACCTCTTCAATCATTACCCTGTAAGTAAACTCA
Found at i:27104076 original size:210 final size:206
Alignment explanation
Indices: 27103584--27104171 Score: 669
Period size: 207 Copynumber: 2.8 Consensus size: 206
27103574 CTTCAGCAAC
* * * * * * *
27103584 CATCTTACTAAGCAAGCTTGTTGCTTCTCCACAT-TGTCCTGAATTGCATAATCCATGTATTAAA
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATATAT-CTGAATTGCACAATCCAAGTATTAAA
* * * * * * *** *
27103648 CTACTGTAGGTGACGATGTCTGGTTTCAGATCTCTCTGAATCATTAATTTGTACAAGGTAATGGC
65 CAACTGTAGGTGACAATGTCAGGTTT-ACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGC
* * *
27103713 TTCTTCAATCTTTTTTTCTTTGCACAAAGCATTGATTAAAGAGCTTAAGGTTTCCACATCAGGCT
129 TTCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGCT
27103778 GGACTCCATTCAA
194 GGACTCCATTCAA
* * * * * * *
27103791 CATCCTACTAAACAAGCTAGCCACTTCTGCACA-ACTACCTAAACTCCACAATCCAAGTATTAAA
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATA-TATCTGAATTGCACAATCCAAGTATTAAA
* * *
27103855 -AAGCAGTAGGTGACAATGTCAGGTATTACATTTCTCTGACTCATTAGTTCCAACATGCTAATGG
65 CAA-CTGTAGGTGACAATGTCAGGT-TTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGG
* * * * * *
27103919 CTTCTTCATTCTTGTTTTCCTTGTACAAAGCAATGATTAAAGATCTTAAAGTTTCCATATCAGGC
128 CTTCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGC
27103984 TGGACTCCTCCATTCAA
193 TGGA---CTCCATTCAA
* *
27104001 CATCCTACTAAACAAGCTTGTGGCTTCTGCACATATATCTGAATTGCACAATCCACGTATTAAAC
1 CATCCTACTAAACAAGCTTGTCGCTTCTGCACATATATCTGAATTGCACAATCCAAGTATTAAAC
* * *
27104066 AATTGTAGGTGACAATGTCGGGTTTTACACCTCTCTGACTCATTAGTTCCAACATGGTAATGGCT
66 AACTGTAGGTGACAATGTCAGG-TTTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGCT
* * * *
27104131 TCTTCAGTCCTCTTTTCCTTGCACAAGGCATTGATTGAAGA
130 TCTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGA
27104172 ATTGAAAGTT
Statistics
Matches: 314, Mismatches: 57, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
206 1 0.00
207 154 0.49
208 3 0.01
210 152 0.48
211 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (206 bp):
CATCCTACTAAACAAGCTTGTCGCTTCTGCACATATATCTGAATTGCACAATCCAAGTATTAAAC
AACTGTAGGTGACAATGTCAGGTTTACATCTCTCTGACTCATTAGTTCCAACATGGTAATGGCTT
CTTCAATCTTCTTTTCCTTGCACAAAGCATTGATTAAAGAGCTTAAAGTTTCCACATCAGGCTGG
ACTCCATTCAA
Found at i:27104342 original size:209 final size:210
Alignment explanation
Indices: 27104058--27104442 Score: 522
Period size: 209 Copynumber: 1.8 Consensus size: 210
27104048 ACAATCCACG
* * * **
27104058 TATTAAACAATTGTAGGTGACAATGTCGGGTTTTACACCTCTCTGACTCATTAGTTCCAACATGG
1 TATTAAACAATTGTAGGTGACAACGTCAGGTTTTACACCTCTCTGACTCATTAATTCCAACACAG
* ** * * * *
27104123 TAATGGCTTCTTCAGTCCTCTTTTCCTTGCACAAGGCATTGATTGAAGAATTGAAAGTTACTACA
66 TAAAGGCTTCTGAAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTCACAACA
* *
27104188 TCAAGAT-GACTCCTGCATTCATCATTCTATTGAGCACGGTTGTTGCTTCCGTCCATTTGCCCGA
131 TCAAGATGGACTCCTGCATTCATCATTCTATTGAGCAAGCTTGTTGCTTCCGTCCATTTGCCCGA
27104252 ACTGCAAAACTCATA
196 ACTGCAAAACTCATA
* ** * ** *
27104267 TATTGAACAATTGTTTGTGACAACGTTAGGTTTTACATTTCTCTGTA-TCATTAATTCCAGCACA
1 TATTAAACAATTGTAGGTGACAACGTCAGGTTTTACACCTCTCTG-ACTCATTAATTCCAACACA
*
27104331 GTAAAGGCTTCTGAAGTCCTCTTTTCCTTGCATAAAGCATTGATTAAAGAATTGAAAGTCACAAC
65 GTAAAGGCTTCTGAAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTCACAAC
* * *
27104396 ATCAGGATGGACTCCTTCATTCATCGTTCTATTGAGCAAGCTTGTTG
130 ATCAAGATGGACTCCTGCATTCATCATTCTATTGAGCAAGCTTGTTG
27104443 TTTCTTCCCA
Statistics
Matches: 149, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
209 114 0.77
210 35 0.23
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (210 bp):
TATTAAACAATTGTAGGTGACAACGTCAGGTTTTACACCTCTCTGACTCATTAATTCCAACACAG
TAAAGGCTTCTGAAGTCCTCTTTTCCTTGCACAAAGCATTGATTAAAGAATTGAAAGTCACAACA
TCAAGATGGACTCCTGCATTCATCATTCTATTGAGCAAGCTTGTTGCTTCCGTCCATTTGCCCGA
ACTGCAAAACTCATA
Found at i:27118513 original size:20 final size:17
Alignment explanation
Indices: 27118473--27118515 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 17
27118463 TCCAAAACAA
27118473 ATTTATATATAATTAAT
1 ATTTATATATAATTAAT
27118490 -TTTATATATACATTATTAT
1 ATTTATATATA-ATTA--AT
27118509 ATTTATA
1 ATTTATA
27118516 AAATATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
19 2 0.09
20 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATATATAATTAAT
Found at i:27125201 original size:24 final size:22
Alignment explanation
Indices: 27125154--27125202 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
27125144 TGTGGTCCAG
*
27125154 CAAAATTCCTTTTCATTCTTCT
1 CAAAATTCCTTTTCATTCTCCT
27125176 CAAAATATCCTTTT-ATGTTCTCCT
1 CAAAAT-TCCTTTTCA--TTCTCCT
27125200 CAA
1 CAA
27125203 CAGTACAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.45
Consensus pattern (22 bp):
CAAAATTCCTTTTCATTCTCCT
Found at i:27126015 original size:24 final size:24
Alignment explanation
Indices: 27125988--27126038 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
27125978 CACATGGTCA
*
27125988 TGTCCCAGCCCATGTGTTCGCCCG
1 TGTCCCAGCCCATGTGTCCGCCCG
* * *
27126012 TGTCCCAGCTCGTGTGTCCGCTCG
1 TGTCCCAGCCCATGTGTCCGCCCG
27126036 TGT
1 TGT
27126039 GGGTATTCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.06, C:0.37, G:0.27, T:0.29
Consensus pattern (24 bp):
TGTCCCAGCCCATGTGTCCGCCCG
Found at i:27140843 original size:23 final size:23
Alignment explanation
Indices: 27140811--27140855 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
27140801 TTGAATTTTT
* *
27140811 TTTGAATTTCGAGTTCGAATTTA
1 TTTGAATTTCGAATTCAAATTTA
*
27140834 TTTGATTTTCGAATTCAAATTT
1 TTTGAATTTCGAATTCAAATTT
27140856 GAATAACTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (23 bp):
TTTGAATTTCGAATTCAAATTTA
Found at i:27140962 original size:28 final size:29
Alignment explanation
Indices: 27140930--27140987 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
27140920 CCACCAACTC
27140930 TTCTCTTCAA-TTTTTCTTTACTTTCCCT
1 TTCTCTTCAATTTTTTCTTTACTTTCCCT
*
27140958 TTCTCTTCAATTTTTTTTTTTACTTTCCCT
1 TTCTCTTCAA-TTTTTTCTTTACTTTCCCT
27140988 CCTCTTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.37
30 17 0.63
ACGTcount: A:0.10, C:0.26, G:0.00, T:0.64
Consensus pattern (29 bp):
TTCTCTTCAATTTTTTCTTTACTTTCCCT
Found at i:27141248 original size:26 final size:25
Alignment explanation
Indices: 27141200--27141251 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27141190 TTCAATGACC
*
27141200 ATTTTTAAAAACTTTAAAGAAAAAT
1 ATTTTTAAAAAATTTAAAGAAAAAT
* *
27141225 ATTTTTAAAAAATATTACATAAAAAT
1 ATTTTTAAAAAAT-TTAAAGAAAAAT
27141251 A
1 A
27141252 AATAAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (25 bp):
ATTTTTAAAAAATTTAAAGAAAAAT
Found at i:27143294 original size:15 final size:15
Alignment explanation
Indices: 27143268--27143306 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
27143258 ACAAGAGAAG
*
27143268 AAAGAAAGAAAATTGA
1 AAAGAAA-AAAATTAA
27143284 AAAGAAAAAAATTAA
1 AAAGAAAAAAATTAA
27143299 AAAGAAAA
1 AAAGAAAA
27143307 TAGGAGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAGAAAAAAATTAA
Found at i:27144111 original size:18 final size:18
Alignment explanation
Indices: 27144088--27144123 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27144078 CTTAAGTGTG
27144088 TAACCATCAACTCAACAC
1 TAACCATCAACTCAACAC
*
27144106 TAACCATCAACTTAACAC
1 TAACCATCAACTCAACAC
27144124 CTATAGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.19
Consensus pattern (18 bp):
TAACCATCAACTCAACAC
Found at i:27151756 original size:46 final size:44
Alignment explanation
Indices: 27151686--27151788 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 44
27151676 CTCTTAATAA
* *
27151686 TATAAAAATACATATTGATAATTCAAGTACAATATTAACCATTT
1 TATAAAAATACATATTGATAATTCAAGTACAACATTAAACATTT
* * * * *
27151730 TATAAAAATATATGTATTGATGATTCAATTACCACATTAAATATTT
1 TATAAAAATACA--TATTGATAATTCAAGTACAACATTAAACATTT
*
27151776 TATAAAACTACAT
1 TATAAAAATACAT
27151789 CTGTTCAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
44 12 0.25
46 36 0.75
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (44 bp):
TATAAAAATACATATTGATAATTCAAGTACAACATTAAACATTT
Found at i:27157365 original size:29 final size:31
Alignment explanation
Indices: 27157332--27157398 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
27157322 TTTAAAAATT
* *
27157332 TTGAGTGATTAAATTAAAA-AAAAT-AATAG
1 TTGAGTGATCAAAATAAAACAAAATAAATAG
*
27157361 TTGAGTGATCAAAATAAAACAAATTAAATAG
1 TTGAGTGATCAAAATAAAACAAAATAAATAG
27157392 TTGAGTG
1 TTGAGTG
27157399 GCTATTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.52
30 4 0.12
31 12 0.36
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (31 bp):
TTGAGTGATCAAAATAAAACAAAATAAATAG
Found at i:27157624 original size:76 final size:77
Alignment explanation
Indices: 27157505--27157653 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 77
27157495 GACGAAATTG
* * * *
27157505 TTTTTCTATAATATTACTAAATGTGACATTTAAATATATTTATAATTTAATTTAAAATAATTATT
1 TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
27157570 TAACATTTGCCC
66 TAACATTTGCCC
* *
27157582 TTTTTCTATCATATTATTAAA-GTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
1 TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
*
27157646 TAATATTT
66 TAACATTT
27157654 AAATAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 46 0.71
77 19 0.29
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (77 bp):
TTTTTCTATAATATTACTAAATGTGAAATTTAAATATAATTATAAATTAATTTAAAATAATTAGT
TAACATTTGCCC
Found at i:27158230 original size:26 final size:26
Alignment explanation
Indices: 27158201--27158252 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27158191 ATTTAGTAAT
27158201 TATTATTTAATTTTACATAAT-TTTAC
1 TATTATTTAATTTTA-ATAATATTTAC
*
27158227 TATTATTTGATTTTAATAATATTTAC
1 TATTATTTAATTTTAATAATATTTAC
27158253 ATAATTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (26 bp):
TATTATTTAATTTTAATAATATTTAC
Found at i:27168307 original size:14 final size:14
Alignment explanation
Indices: 27168285--27168314 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27168275 TAGGAATTTG
*
27168285 TTTATTTTATTTTA
1 TTTAGTTTATTTTA
27168299 TTTAGTTTATTTTA
1 TTTAGTTTATTTTA
27168313 TT
1 TT
27168315 AATTTTTGAA
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:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTAGTTTATTTTA
Found at i:27177225 original size:18 final size:18
Alignment explanation
Indices: 27177202--27177255 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
27177192 CTTCTAGGGC
27177202 TCGCATACATATAAAGGT
1 TCGCATACATATAAAGGT
* *
27177220 TCGCATACATATGAGGGT
1 TCGCATACATATAAAGGT
*
27177238 TCGTATACATATAAAGGT
1 TCGCATACATATAAAGGT
27177256 AATAAGTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (18 bp):
TCGCATACATATAAAGGT
Found at i:27182681 original size:29 final size:29
Alignment explanation
Indices: 27182649--27182876 Score: 243
Period size: 29 Copynumber: 7.9 Consensus size: 29
27182639 TAAGTGAGCA
*
27182649 TTTGTGGCTATCTCTGTTATAAGGAAGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* * * *
27182678 TTTGTGGTTATCTCTGTTATAAGAAAGCA
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
27182707 TTTGTGGCTATCTCTGTTAAAA-GAATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAA-GCC
* *
27182736 TTTGTGGCGATCTCTATTATAAA-GAAGCC
1 TTTGTGGCTATCTCTGTTA-AAAGGAAGCC
*
27182765 TTTGTGGCTATCTCTGTTAAAAGGATGCC
1 TTTGTGGCTATCTCTGTTAAAAGGAAGCC
* **
27182794 TTTATGGCTATCTCTGTTAAAAACATAG-C
1 TTTGTGGCTATCTCTGTTAAAAGGA-AGCC
*
27182823 TTTGTGGCTATCT-TAGTT-AAATGAATGCC
1 TTTGTGGCTATCTCT-GTTAAAAGGAA-GCC
* *
27182852 -TTGTGGCAAACTCTGTTAAAAGGAA
1 TTTGTGGCTATCTCTGTTAAAAGGAA
27182877 CACCTTCTTG
Statistics
Matches: 168, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
27 1 0.01
28 24 0.14
29 136 0.81
30 7 0.04
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTGTGGCTATCTCTGTTAAAAGGAAGCC
Found at i:27182737 original size:58 final size:58
Alignment explanation
Indices: 27182645--27182869 Score: 271
Period size: 58 Copynumber: 3.9 Consensus size: 58
27182635 CGTATAAGTG
* *
27182645 AGCATTTGTGGCTATCTCTGTTATAAGGAA-GCCTTTGTGGTTATCTCTGTTATAAGA-A
1 AGCATTTGTGGCTATCTCTGTTA-AAAGAATGCCTTTGTGGCTATCTCTGTTATAA-ACA
* * *
27182703 AGCATTTGTGGCTATCTCTGTTAAAAGAATGCCTTTGTGGCGATCTCTATTATAAAGA
1 AGCATTTGTGGCTATCTCTGTTAAAAGAATGCCTTTGTGGCTATCTCTGTTATAAACA
* * * *
27182761 AGCCTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTATGGCTATCTCTGTTAAAAACA
1 AGCATTTGTGGCTATCTCTGTTAAAAGAATGCCTTTGTGGCTATCTCTGTTATAAACA
* * *
27182819 TAGC-TTTGTGGCTATCT-TAGTTAAATGAATGCC-TTGTGGCAAACTCTGTTA
1 -AGCATTTGTGGCTATCTCT-GTTAAAAGAATGCCTTTGTGGCTATCTCTGTTA
27182870 AAAGGAACAC
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
57 22 0.15
58 122 0.83
59 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (58 bp):
AGCATTTGTGGCTATCTCTGTTAAAAGAATGCCTTTGTGGCTATCTCTGTTATAAACA
Found at i:27182802 original size:87 final size:87
Alignment explanation
Indices: 27182649--27182876 Score: 277
Period size: 87 Copynumber: 2.6 Consensus size: 87
27182639 TAAGTGAGCA
* * * * * *
27182649 TTTGTGGCTATCTCTGTTATAAGGAAGCCTTTGTGGTTATCTCTGTTATAAGAAAGCATTTGTGG
1 TTTGTGGCTATCTCTATTATAAAGAAGCCTTTGTGGCTATCTCTGTTAAAAGGAAGCATTTATGG
27182714 CTATCTCTGTTAAAAGA-AT-GCC
66 CTATCTCTGTTAAAA-ACATAG-C
* * *
27182736 TTTGTGGCGATCTCTATTATAAAGAAGCCTTTGTGGCTATCTCTGTTAAAAGGATGCCTTTATGG
1 TTTGTGGCTATCTCTATTATAAAGAAGCCTTTGTGGCTATCTCTGTTAAAAGGAAGCATTTATGG
27182801 CTATCTCTGTTAAAAACATAGC
66 CTATCTCTGTTAAAAACATAGC
* * *
27182823 TTTGTGGCTATCT-TAGTTA-AATGAATGCC-TTGTGGCAAACTCTGTTAAAAGGAA
1 TTTGTGGCTATCTCTA-TTATAAAGAA-GCCTTTGTGGCTATCTCTGTTAAAAGGAA
27182877 CACCTTCTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
86 30 0.24
87 92 0.75
88 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (87 bp):
TTTGTGGCTATCTCTATTATAAAGAAGCCTTTGTGGCTATCTCTGTTAAAAGGAAGCATTTATGG
CTATCTCTGTTAAAAACATAGC
Found at i:27196287 original size:40 final size:40
Alignment explanation
Indices: 27196178--27196379 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
27196168 AAGGAGAGCG
* * *
27196178 AAAGAAAGAAAGGAA-AAGAAAGAAAAGGAGAGGAG-AG--G
1 AAAGAAAGAAA--AAGAGGAAAGAAAAGGAAAGGAGAAGAAA
*
27196216 AAAGAAAGAAAAAGAATGAAAGAAAAGGAAAGGAGAAGAAA
1 AAAGAAAGAAAAAG-AGGAAAGAAAAGGAAAGGAGAAGAAA
27196257 AAAGAAAGAAAAAGAGGAAAGAAAAGGAAAGGAGAAG-AA
1 AAAGAAAGAAAAAGAGGAAAGAAAAGGAAAGGAGAAGAAA
27196296 AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAA
1 AAAGAAAGAAAAAG-AGGAAAGAAAAGGAAAGGAG-A-AGAAA
* * * * *
27196339 AAAAAAAGAAGAAGAGGGAAG-GAAGGAAA-GAAAAGAAA
1 AAAGAAAGAAAAAGAGGAAAGAAAAGGAAAGGAGAAGAAA
27196377 AAA
1 AAA
27196380 AATATTTTTA
Statistics
Matches: 146, Mismatches: 9, Indels: 18
0.84 0.05 0.10
Matches are distributed among these distances:
36 2 0.01
38 37 0.25
39 19 0.13
40 44 0.30
41 22 0.15
42 8 0.05
43 14 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (40 bp):
AAAGAAAGAAAAAGAGGAAAGAAAAGGAAAGGAGAAGAAA
Found at i:27196327 original size:10 final size:10
Alignment explanation
Indices: 27196177--27196327 Score: 72
Period size: 10 Copynumber: 15.5 Consensus size: 10
27196167 GAAGGAGAGC
27196177 GAAAG-AAA-
1 GAAAGAAAAG
27196185 GAAAGGAAAA-
1 GAAA-GAAAAG
27196195 GAAAGAAAAG
1 GAAAGAAAAG
* * *
27196205 GAGAGGAGAG
1 GAAAGAAAAG
27196215 GAAAG-AAA-
1 GAAAGAAAAG
*
27196223 GAAA-AAGAAT
1 GAAAGAA-AAG
27196233 GAAAGAAAAG
1 GAAAGAAAAG
*
27196243 GAAAGGAGAA-
1 GAAA-GAAAAG
* *
27196253 GAAAAAAGAAA
1 GAAAGAA-AAG
*
27196264 GAAA-AAGAG
1 GAAAGAAAAG
27196273 GAAAGAAAAG
1 GAAAGAAAAG
*
27196283 GAAAGGAGAA-
1 GAAA-GAAAAG
*
27196293 GAAA-AAGAAA
1 GAAAGAA-AAG
27196303 GAAA-AAGAAG
1 GAAAGAA-AAG
27196313 GAAAGAAAAG
1 GAAAGAAAAG
27196323 GAAAG
1 GAAAG
27196328 GAGAAGAGAA
Statistics
Matches: 113, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
8 10 0.09
9 18 0.16
10 69 0.61
11 16 0.14
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:27196334 original size:24 final size:25
Alignment explanation
Indices: 27196178--27196327 Score: 96
Period size: 24 Copynumber: 5.9 Consensus size: 25
27196168 AAGGAGAGCG
* *
27196178 AAAGAAAGA-AAGGAAAAGAAAGAA
1 AAAGAAGGAGAAGAAAAAGAAAGAA
* *
27196202 AAGGAGAGGAG-AG-GAAAGAAAGAA
1 AAAGA-AGGAGAAGAAAAAGAAAGAA
* *
27196226 AAAGAATGA-AAGAAAAGGAAAGGAGA
1 AAAGAAGGAGAAGAAAAAGAAA-GA-A
* *
27196252 AGAAAAAAGA-AAGAAAAAGAGGAAAGAA
1 A-AAGAAGGAGAAG-AAAA-A-GAAAGAA
*
27196280 AAGGAAAGGAGAAGAAAAAGAAAGAA
1 AAAG-AAGGAGAAGAAAAAGAAAGAA
*
27196306 AAAGAAGGA-AAGAAAAGGAAAG
1 AAAGAAGGAGAAGAAAAAGAAAG
27196328 GAGAAGAGAA
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
23 5 0.05
24 36 0.36
25 12 0.12
26 12 0.12
27 11 0.11
28 14 0.14
29 5 0.05
30 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.01
Consensus pattern (25 bp):
AAAGAAGGAGAAGAAAAAGAAAGAA
Found at i:27197115 original size:27 final size:27
Alignment explanation
Indices: 27197085--27197139 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
27197075 AAAGAGGCTG
*
27197085 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGGGGAATAAAAAAGCGGCACCA
27197112 ATGGAGGGGAATAAAAAAGCGGCACCA
1 ATGGAGGGGAATAAAAAAGCGGCACCA
27197139 A
1 A
27197140 AATATGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.35, T:0.07
Consensus pattern (27 bp):
ATGGAGGGGAATAAAAAAGCGGCACCA
Found at i:27199162 original size:12 final size:12
Alignment explanation
Indices: 27199126--27199178 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
27199116 TCCGGAACCA
*
27199126 CCAGAGCCCAAG
1 CCAGAGCCCCAG
*
27199138 CAAGAGCCCCAG
1 CCAGAGCCCCAG
*
27199150 CCAGAGCCACAG
1 CCAGAGCCCCAG
*
27199162 CCAGTGCCCCAG
1 CCAGAGCCCCAG
27199174 CCAGA
1 CCAGA
27199179 TCCGGAACAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.30, C:0.43, G:0.25, T:0.02
Consensus pattern (12 bp):
CCAGAGCCCCAG
Found at i:27199626 original size:15 final size:14
Alignment explanation
Indices: 27199572--27199614 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
27199562 TTTTTGTATA
*
27199572 AATTTAATTATTCC
1 AATTTAATTATTCT
27199586 AATTTAATTATTCT
1 AATTTAATTATTCT
27199600 AATTTAATTATTCT
1 AATTTAATTATTCT
27199614 A
1 A
27199615 GTTTTAGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:27202794 original size:21 final size:21
Alignment explanation
Indices: 27202768--27202807 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27202758 AGGGTTTTTT
27202768 ACCAAAATATTACAAAAAAAA
1 ACCAAAATATTACAAAAAAAA
*
27202789 ACCAAAATATTATAAAAAA
1 ACCAAAATATTACAAAAAA
27202808 TATTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.17
Consensus pattern (21 bp):
ACCAAAATATTACAAAAAAAA
Found at i:27202809 original size:12 final size:12
Alignment explanation
Indices: 27202792--27202820 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27202782 AAAAAAAACC
27202792 AAAATATTATAA
1 AAAATATTATAA
27202804 AAAATATTATAA
1 AAAATATTATAA
27202816 AAAAT
1 AAAAT
27202821 TATTTGGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATTATAA
Found at i:27204151 original size:19 final size:20
Alignment explanation
Indices: 27204127--27204166 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
27204117 ATTTAGGAAA
27204127 TTTTACAATTTTT-TATTTT
1 TTTTACAATTTTTATATTTT
27204146 TTTTACAATTTTTATATTTT
1 TTTTACAATTTTTATATTTT
27204166 T
1 T
27204167 CTAATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTACAATTTTTATATTTT
Found at i:27205832 original size:15 final size:15
Alignment explanation
Indices: 27205809--27205838 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27205799 TGGACATCAC
27205809 CCCCCAAGGTTAACA
1 CCCCCAAGGTTAACA
*
27205824 CCCCTAAGGTTAACA
1 CCCCCAAGGTTAACA
27205839 AAGCACTTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.13, T:0.17
Consensus pattern (15 bp):
CCCCCAAGGTTAACA
Found at i:27219710 original size:20 final size:19
Alignment explanation
Indices: 27219675--27219713 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27219665 TATGTGATGT
*
27219675 CCATATTTTTTCAACATAC
1 CCATATTTTTTAAACATAC
27219694 CCATATTTTTTAAAACATAC
1 CCATATTTTTT-AAACATAC
27219714 ATGAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (19 bp):
CCATATTTTTTAAACATAC
Found at i:27220039 original size:25 final size:23
Alignment explanation
Indices: 27219993--27220055 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 23
27219983 AAAATAAAAA
*
27219993 TTACCAAAATGTTATAATTTTTTTAT
1 TTACCAAAAT-ATAT-A-TTTTTTAT
*
27220019 TTACTAAAATATATATTTTTTAT
1 TTACCAAAATATATATTTTTTAT
27220042 TTACCAAAATATAT
1 TTACCAAAATATAT
27220056 CAAAAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.62
24 1 0.03
25 3 0.09
26 9 0.26
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
TTACCAAAATATATATTTTTTAT
Found at i:27220071 original size:9 final size:9
Alignment explanation
Indices: 27220057--27220098 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
27220047 AAAATATATC
27220057 AAAAAAACA
1 AAAAAAACA
27220066 AAAAAAAC-
1 AAAAAAACA
*
27220074 AAAAAAATA
1 AAAAAAACA
* *
27220083 AAAAACAGA
1 AAAAAAACA
27220092 AAAAAAA
1 AAAAAAA
27220099 ACCTGGACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (9 bp):
AAAAAAACA
Found at i:27220078 original size:17 final size:17
Alignment explanation
Indices: 27220056--27220097 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
27220046 CAAAATATAT
27220056 CAAAAAAACAAAAAAAA
1 CAAAAAAACAAAAAAAA
* *
27220073 CAAAAAAATAAAAAACA
1 CAAAAAAACAAAAAAAA
*
27220090 GAAAAAAA
1 CAAAAAAA
27220098 AACCTGGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (17 bp):
CAAAAAAACAAAAAAAA
Found at i:27220085 original size:15 final size:16
Alignment explanation
Indices: 27220067--27220096 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27220057 AAAAAAACAA
27220067 AAAAAACA-AAAAAAT
1 AAAAAACAGAAAAAAT
27220082 AAAAAACAGAAAAAA
1 AAAAAACAGAAAAAA
27220097 AAACCTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAACAGAAAAAAT
Found at i:27220357 original size:38 final size:35
Alignment explanation
Indices: 27220306--27220419 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 35
27220296 ATAAAATACG
* *
27220306 AAAAAGAATGAAAGAAAAGGAAAGGGGAGGAAAGA
1 AAAAAAAAAGAAAGAAAAGGAAAGGGGAGGAAAGA
27220341 AAGAAAAATAAGGAAAGAAAAGGAAA--GGA-GAAGAGA
1 AA-AAAAA-AA-GAAAGAAAAGGAAAGGGGAGGAA-AGA
* *
27220377 AAAAAAAAAGAAAGAAGAA-GAAGAGGGAAGGAAGGA
1 AAAAAAAAAGAAAGAA-AAGGAA-AGGGGAGGAAAGA
27220413 AAAAAAA
1 AAAAAAA
27220420 GAAAATAATG
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
33 10 0.15
34 5 0.08
35 10 0.15
36 23 0.35
37 4 0.06
38 14 0.21
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.02
Consensus pattern (35 bp):
AAAAAAAAAGAAAGAAAAGGAAAGGGGAGGAAAGA
Done.