Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 78 of 222
Found at i:24041329 original size:27 final size:27
Alignment explanation
Indices: 24041299--24041360 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
24041289 ACCTAAATCC
24041299 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
* *
24041326 AAATGGAAAACCCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
24041353 AAATGTAA
1 AAATGTAA
24041361 TACCTACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGTTTCATTA
Found at i:24042292 original size:22 final size:21
Alignment explanation
Indices: 24042241--24042292 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
24042231 AGGTCCAAAC
**
24042241 TTTATTTTAAAAATTTAAAATT
1 TTTATTTT-AAAATGAAAAATT
*
24042263 TTT-CTTTAAAATGAATAAATT
1 TTTATTTTAAAATGAA-AAATT
24042284 TTTATTTTA
1 TTTATTTTA
24042293 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATTTTAAAATGAAAAATT
Found at i:24042511 original size:148 final size:144
Alignment explanation
Indices: 24042176--24042594 Score: 496
Period size: 148 Copynumber: 2.9 Consensus size: 144
24042166 CGATTTCTTT
* * * * * * *
24042176 AAAAAAATCACAACTTTTCTTAAAAAACAAAACTTTATTTCGAAATAATTGAAACAGGTCCAAAC
1 AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
* * * **** *
24042241 TTTATTTTAAAAATTTAAAATTTTTCTTTAAAATGAATAAATTTTTATTTTATTTTTAAAAATCT
66 TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAAATCT
24042306 AAACTTTTTTTTAA
131 AAACTTTTTTTTAA
* * * *
24042320 AAAACAAATCACTATTTTTCTTAAAAGTTAAAGCTTTATTTCGAAATGGTTGAAAAAGATCAAAA
1 AAAA-AAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAA
* * * *
24042385 CATTGTTGTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAAAAGATTTTTTTTTTGAAAAA
65 CTTTGTT-TTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTT-AAAAA
**
24042450 TCTAAACTTTCTTATTTTT
128 TCTAAACTTT-TT-TTTAA
*** * *
24042469 TTTAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATTGTTGAAAAAGATTAAAAC
1 AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
* * *
24042534 TTTGTTTTAAAAATTTAAAATTTTCCTTTAATATGACTAAAAACATATTTTTATTTTAAAA
66 TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAA
24042595 CTTAAAAAAA
Statistics
Matches: 230, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
144 4 0.02
145 54 0.23
146 45 0.20
147 60 0.26
148 63 0.27
149 4 0.02
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (144 bp):
AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAAATCT
AAACTTTTTTTTAA
Found at i:24042896 original size:20 final size:20
Alignment explanation
Indices: 24042870--24043015 Score: 63
Period size: 20 Copynumber: 7.5 Consensus size: 20
24042860 TTATACTTCG
24042870 GTACCCCTGACTGCACTTAT
1 GTACCCCTGACTGCACTTAT
* * *
24042890 GTGCCCCTG-TTGTACTT-T
1 GTACCCCTGACTGCACTTAT
*
24042908 GGTACCCCTGA-TCGCACTTAC
1 -GTACCCCTGACT-GCACTTAT
* * * **
24042929 GTGCCCCTG-TTGTACTTCG
1 GTACCCCTGACTGCACTTAT
*
24042948 GTACCCCTGATCAG-ACTTAT
1 GTACCCCTGA-CTGCACTTAT
* * * *
24042968 GTTCCCTTG-TTGTACTT-T
1 GTACCCCTGACTGCACTTAT
*
24042986 GGTACCCCTGACTGCACTTAG
1 -GTACCCCTGACTGCACTTAT
*
24043007 GTGCCCCTG
1 GTACCCCTG
24043016 TTGTACTTCA
Statistics
Matches: 90, Mismatches: 25, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
18 3 0.03
19 39 0.43
20 47 0.52
21 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.34
Consensus pattern (20 bp):
GTACCCCTGACTGCACTTAT
Found at i:24042912 original size:39 final size:39
Alignment explanation
Indices: 24042857--24043058 Score: 248
Period size: 39 Copynumber: 5.2 Consensus size: 39
24042847 TAGTAGATAA
*
24042857 CTGTTATACTTCGGTACCCCTGACTGCACTTATGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACTGCACTTATGTGCCC
* *
24042896 CTGTTGTACTTTGGTACCCCTGA-TCGCACTTACGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACT-GCACTTATGTGCCC
* *
24042935 CTGTTGTACTTCGGTACCCCTGATCAG-ACTTATGTTCCC
1 CTGTTGTACTTCGGTACCCCTGA-CTGCACTTATGTGCCC
* * *
24042974 TTGTTGTACTTTGGTACCCCTGACTGCACTTAGGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACTGCACTTATGTGCCC
* * * *
24043013 CTGTTGTACTTCAGTA-CCCTTATTTGCACTCATGTGCCC
1 CTGTTGTACTTCGGTACCCCTGA-CTGCACTTATGTGCCC
24043052 CTGTTGT
1 CTGTTGT
24043059 TCGGTATGCC
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 8 0.06
39 130 0.94
40 1 0.01
ACGTcount: A:0.14, C:0.31, G:0.19, T:0.36
Consensus pattern (39 bp):
CTGTTGTACTTCGGTACCCCTGACTGCACTTATGTGCCC
Found at i:24060261 original size:21 final size:21
Alignment explanation
Indices: 24060235--24060277 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24060225 CATGGGTGAG
** *
24060235 CACACGGGTGTGTGGAGTAGC
1 CACACGGGCATGTGGAATAGC
24060256 CACACGGGCATGTGGAATAGC
1 CACACGGGCATGTGGAATAGC
24060277 C
1 C
24060278 CCATGGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.16
Consensus pattern (21 bp):
CACACGGGCATGTGGAATAGC
Found at i:24061466 original size:15 final size:15
Alignment explanation
Indices: 24061448--24061492 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
24061438 ACATATTGAG
* *
24061448 ATTAAACATCATTTC
1 ATTAAAGATCATGTC
24061463 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
24061478 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
24061493 CAAAAAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (15 bp):
ATTAAAGATCATGTC
Found at i:24062080 original size:20 final size:21
Alignment explanation
Indices: 24062057--24062098 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
24062047 ACAATTTTAG
*
24062057 CGATACTT-TTTAAAAATTAT
1 CGATACTTGTTTAAAAAGTAT
24062077 CGATACTTGTTTAAAAAGTAT
1 CGATACTTGTTTAAAAAGTAT
24062098 C
1 C
24062099 AGTACTCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
CGATACTTGTTTAAAAAGTAT
Found at i:24076721 original size:31 final size:30
Alignment explanation
Indices: 24076686--24076813 Score: 91
Period size: 31 Copynumber: 4.2 Consensus size: 30
24076676 AGAGGATAAA
*
24076686 AAGTAACACATTAAACATTTTATAAAAATAC
1 AAGTATCACATTAAACATTTTAT-AAAATAC
* * * * **
24076717 AAGTACCATAATAAAACAAATATTGAT--AATTT
1 AAGTATCA-CATTAAAC--AT-TTTATAAAATAC
*
24076749 AAGTATCACATTAAACATTTT-TAATATAC
1 AAGTATCACATTAAACATTTTATAAAATAC
* *
24076778 AAGTATCACATGAAATATTTTATTAAAATAC
1 AAGTATCACATTAAACATTTTA-TAAAATAC
24076809 AAGTA
1 AAGTA
24076814 CCAAATGTGA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 23 0.32
31 25 0.34
32 16 0.22
34 2 0.03
35 4 0.05
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
AAGTATCACATTAAACATTTTATAAAATAC
Found at i:24076782 original size:29 final size:31
Alignment explanation
Indices: 24076749--24076813 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
24076739 TTGATAATTT
* *
24076749 AAGTATCACATTAAACA-TTT-TTAATATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
*
24076778 AAGTATCACATGAAATATTTTATTAAAATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
24076809 AAGTA
1 AAGTA
24076814 CCAAATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.48
30 3 0.10
31 13 0.42
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
AAGTATCACATGAAACATTTTATTAAAATAC
Found at i:24081288 original size:2 final size:2
Alignment explanation
Indices: 24081281--24081313 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24081271 TTTCGTTGTT
24081281 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
24081314 TTTTCCGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24081651 original size:14 final size:14
Alignment explanation
Indices: 24081634--24081673 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
24081624 ACCTCATATA
24081634 AATTTTCTATAAAT
1 AATTTTCTATAAAT
* *
24081648 AATTTTTTAAAAAT
1 AATTTTCTATAAAT
24081662 AATTTTCTATAA
1 AATTTTCTATAA
24081674 TTATTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTCTATAAAT
Found at i:24081800 original size:19 final size:20
Alignment explanation
Indices: 24081778--24081834 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
24081768 CATTTTCAAC
24081778 ATTATTTTTAATAATTT-TT
1 ATTATTTTTAATAATTTCTT
* *
24081797 ATTAATTTTAACAATTTCTT
1 ATTATTTTTAATAATTTCTT
* *
24081817 ATCATTTTAAATAATTTC
1 ATTATTTTTAATAATTTC
24081835 CTTTTTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTTTAATAATTTCTT
Found at i:24081832 original size:20 final size:20
Alignment explanation
Indices: 24081778--24081834 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
24081768 CATTTTCAAC
*
24081778 ATTATTTTTAATAATTT-TT
1 ATTAATTTTAATAATTTCTT
*
24081797 ATTAATTTTAACAATTTCTT
1 ATTAATTTTAATAATTTCTT
*
24081817 A-TCATTTTAAATAATTTC
1 ATTAATTTT-AATAATTTC
24081835 CTTTTTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAATTTTAATAATTTCTT
Found at i:24082536 original size:38 final size:38
Alignment explanation
Indices: 24082487--24082564 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
24082477 TAAGTGAAAG
24082487 ATAAATTTTAATGATAATTATTTATTATTATAAATAGT
1 ATAAATTTTAATGATAATTATTTATTATTATAAATAGT
24082525 ATAAATTTTAATGATAATTATTTATTATTATAAATAGT
1 ATAAATTTTAATGATAATTATTTATTATTATAAATAGT
24082563 AT
1 AT
24082565 CTATACTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (38 bp):
ATAAATTTTAATGATAATTATTTATTATTATAAATAGT
Found at i:24082707 original size:21 final size:21
Alignment explanation
Indices: 24082678--24082718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24082668 TGCTTTTGTT
* *
24082678 CTTTTATACTTTTATATAATC
1 CTTTCATACTTTAATATAATC
24082699 CTTTCATACTTTAATATAAT
1 CTTTCATACTTTAATATAAT
24082719 TTCTATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.54
Consensus pattern (21 bp):
CTTTCATACTTTAATATAATC
Found at i:24084766 original size:37 final size:37
Alignment explanation
Indices: 24084716--24084794 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
24084706 TTATTACGAA
* * *
24084716 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24084753 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24084790 GTCTT
1 GTCTT
24084795 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24084991 original size:47 final size:47
Alignment explanation
Indices: 24084913--24085182 Score: 416
Period size: 47 Copynumber: 5.7 Consensus size: 47
24084903 CCCTTCGGGA
* * * * * *
24084913 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24084960 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24085007 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24085054 CGTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24085101 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24085148 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
24085183 AGAATCCTAA
Statistics
Matches: 207, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 206 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24090735 original size:30 final size:29
Alignment explanation
Indices: 24090646--24090834 Score: 148
Period size: 29 Copynumber: 6.5 Consensus size: 29
24090636 TGTATAAGTG
* *
24090646 AGCCTTTGTGGCTATCTCTGTTAAATGGA
1 AGCCTTTGTGGCAATCTATGTTAAATGGA
* * *
24090675 AACCTTTGTGGCCATCTATGTTCAATGGA
1 AGCCTTTGTGGCAATCTATGTTAAATGGA
24090704 AGCCTTTGTGGCAATCTATGTTAATATGGA
1 AGCCTTTGTGGCAATCTATGTTAA-ATGGA
** * * *
24090734 AGCCTTTGTGGTGATATCTGTTATAA-GAA
1 AGCCTTTGTGGCAATCTATGTTA-AATGGA
** * ** *
24090763 AGTGTTTATGGTGATCTATGTTATAA-GAA
1 AGCCTTTGTGGCAATCTATGTTA-AATGGA
** * *
24090792 AGCCTTTGTGGTGATCTCTGTTAAAAGGA
1 AGCCTTTGTGGCAATCTATGTTAAATGGA
*
24090821 AGCCTTTATGGCAA
1 AGCCTTTGTGGCAA
24090835 CCTTTGCTGA
Statistics
Matches: 132, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
28 2 0.02
29 104 0.79
30 25 0.19
31 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (29 bp):
AGCCTTTGTGGCAATCTATGTTAAATGGA
Found at i:24090829 original size:58 final size:59
Alignment explanation
Indices: 24090646--24090834 Score: 177
Period size: 58 Copynumber: 3.2 Consensus size: 59
24090636 TGTATAAGTG
* * * * ** * * *
24090646 AGCCTTTGTGGCTATCTCTGTTAA-ATGGAAA-CCTTTGTGGCCATCTATGTTCAATGGA
1 AGCCTTTATGGCAATCTATGTTAATA-AGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
* * * * * *
24090704 AGCCTTTGTGGCAATCTATGTTAATATGGAAGCCTTTGTGGTGATATCTGTTATAAGAA
1 AGCCTTTATGGCAATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
** **
24090763 AGTGTTTATGGTGATCTATGTT-ATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
1 AGCCTTTATGGCAATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
24090821 AGCCTTTATGGCAA
1 AGCCTTTATGGCAA
24090835 CCTTTGCTGA
Statistics
Matches: 103, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
58 66 0.64
59 37 0.36
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (59 bp):
AGCCTTTATGGCAATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
Found at i:24109615 original size:184 final size:184
Alignment explanation
Indices: 24109306--24109668 Score: 577
Period size: 184 Copynumber: 2.0 Consensus size: 184
24109296 CTTGCGACAA
* * *
24109306 CCATCACATACCATCAACCCTATTGATCATATATCAGCTGCCTCTTTCAGGATCAATCGAGTCCT
1 CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
* *
24109371 AGCAAGCTCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGTG
66 AGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
* * *
24109436 CCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTTGGAGAGGCAG
131 CCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGAGGCAG
* * *
24109490 CCATCACATACCATTGATCCCTATTGATCACATA-CAGCGGCCTCTTTCGGGCA-CAATCGAGTC
1 CCATCACATACCA-TCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGG-ATCAATCGAGTC
*
24109553 CCAGCAAGCCCTGTCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
64 CCAGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
*
24109618 CGCCACCAGCCAACGGCAACAACAGAATTTTTTCAATAGTTTCCTTAGAGA
129 CGCCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGA
24109669 TTGTGGCTAA
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 146 0.89
185 18 0.11
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (184 bp):
CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
AGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
CCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGAGGCAG
Found at i:24111847 original size:19 final size:17
Alignment explanation
Indices: 24111803--24111853 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
24111793 TGTCGTTTGT
*
24111803 TTTCAAAATATTCTTCA
1 TTTCAAAATATTATTCA
24111820 TTT-ACAAATCATTATTCAA
1 TTTCA-AAAT-ATTATTC-A
*
24111839 TTTCAAAATTTTATT
1 TTTCAAAATATTATT
24111854 TTTATTGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.25
18 11 0.39
19 8 0.29
20 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:24120409 original size:40 final size:40
Alignment explanation
Indices: 24120343--24120432 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
24120333 TGAATTATGG
* *
24120343 AATT-CTGAATATTGTTTTTGATTACTGAATTGAATTGTGA
1 AATTACTGAATATTGTTTGTGA-TACTGAATTGAACTGTGA
* *
24120383 AGTTACTGAATATTGTTATGTG-TACTGCATTGAACTGTGA
1 AATTACTGAATATTGTT-TGTGATACTGAATTGAACTGTGA
*
24120423 AATTATTGAA
1 AATTACTGAA
24120433 GTAATGAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 27 0.64
41 12 0.29
42 3 0.07
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (40 bp):
AATTACTGAATATTGTTTGTGATACTGAATTGAACTGTGA
Found at i:24120675 original size:39 final size:39
Alignment explanation
Indices: 24120623--24120732 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 39
24120613 CAGACACTTA
* **
24120623 TGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGATTCAACACTTTG
*
24120662 TGTGTCGAATACTGTTACCGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATAC---T---GTTACTGTTACTGATTCAACACTTTG
*
24120707 TGTGTTGAATACTGTTACTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTG
24120733 TTACTGCCAC
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
39 23 0.39
42 2 0.03
45 34 0.58
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACTGATTCAACACTTTG
Found at i:24120704 original size:45 final size:45
Alignment explanation
Indices: 24120636--24120736 Score: 157
Period size: 45 Copynumber: 2.2 Consensus size: 45
24120626 GTCGACTACT
* **
24120636 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
* *
24120681 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
24120726 GTTACTGTTAC
1 GTTACTGTTAC
24120737 TGCCACCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTGTTACC
Found at i:24128120 original size:28 final size:28
Alignment explanation
Indices: 24128055--24128152 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
24128045 TTATTAAGTC
*
24128055 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
24128082 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * * *
24128110 CGCACAGTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
24128139 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24128153 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24133804 original size:20 final size:19
Alignment explanation
Indices: 24133766--24133834 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
24133756 TACAATTTGG
*
24133766 TATCGATACCATTTAAAAAC
1 TATCGATA-CATTTAAAAAA
*
24133786 TATCGATACTTTTATAAAAA
1 TATCGATACATTTA-AAAAA
* **
24133806 TATTGATACATAAAAGAAAA
1 TATCGATACATTTAA-AAAA
24133826 TATCGATAC
1 TATCGATAC
24133835 CTGTGGGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.15
20 34 0.85
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (19 bp):
TATCGATACATTTAAAAAA
Found at i:24137859 original size:317 final size:318
Alignment explanation
Indices: 24137276--24137900 Score: 1173
Period size: 317 Copynumber: 2.0 Consensus size: 318
24137266 CAATCTCTTC
24137276 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
1 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
*
24137341 GGATACAGTCTAAATCTGGAGGCGGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
66 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
* *
24137406 TGATATGGCCTAATGAACCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
131 TCATATGCCCTAATGAACCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
24137471 AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
196 AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
24137536 AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
261 AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
24137594 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
1 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
*
24137659 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACTGATCCCACACGTTTCAAAAT-
66 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
*
24137723 TCA-ATGTCCCTAATGAATCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCC
131 TCATATG-CCCTAATGAACCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCC
*
24137787 AAGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTTGATGTCCCTTCTTTTCAGATCT
195 AAGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCT
24137852 AAATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCA
260 AAATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCA
24137901 ATCTAACTTT
Statistics
Matches: 300, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
316 3 0.01
317 170 0.57
318 127 0.42
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (318 bp):
AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
TCATATGCCCTAATGAACCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
Found at i:24147087 original size:131 final size:131
Alignment explanation
Indices: 24146846--24147088 Score: 310
Period size: 131 Copynumber: 1.9 Consensus size: 131
24146836 ATTTTTAAAA
* * *
24146846 TAAATATTAATATTATAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATTATTC
1 TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
* *** * *
24146911 TTGTTGTCATCTTCCATATTGGATCTTCTTCTTCAATCTATATCATCATCTGAAATATATATTTT
66 TCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTATATCATCATCTGAAATATATATTTT
24146976 T
131 T
* * * * *
24146977 TAAATATTAATATTACAAGTATATTT-AATTTCTCTATTTTGATCTTTTGCTTTAACCCATCAAT
1 TAAATATTAATATTACAAGTATATTTAAATTT-TCTATCTTCATCTTCTACTTCAACCCATCAAT
* *
24147041 CTCGACATCATCTTTCATCGT-GATCTTCTTCTACAATCTATCATCATC
65 CTCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTAT-ATCATC
24147089 TAGACCTACT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
130 24 0.26
131 70 0.74
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (131 bp):
TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
TCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTATATCATCATCTGAAATATATATTTT
T
Found at i:24156221 original size:23 final size:23
Alignment explanation
Indices: 24156191--24156236 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24156181 TCAAGTAACA
24156191 ACACTTACTTCTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
24156214 ACACTTACTTCTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
24156237 TAGATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (23 bp):
ACACTTACTTCTAGGAATTAGAT
Found at i:24156493 original size:22 final size:23
Alignment explanation
Indices: 24156460--24156502 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24156450 GATTAAATCA
24156460 CTCTAAAATCTCAAAACCAAAGC
1 CTCTAAAATCTCAAAACCAAAGC
* *
24156483 CTCT-AAATCTCTATACCAAA
1 CTCTAAAATCTCAAAACCAAA
24156503 AACTTAGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (23 bp):
CTCTAAAATCTCAAAACCAAAGC
Found at i:24158409 original size:17 final size:17
Alignment explanation
Indices: 24158383--24158424 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
24158373 AGTGAATCGA
*
24158383 AAGCTCGTTCGGGTTGG
1 AAGCTTGTTCGGGTTGG
24158400 AAGCTTGTTCGGGTTGG
1 AAGCTTGTTCGGGTTGG
24158417 AAGCTTGT
1 AAGCTTGT
24158425 CAAAGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.33
Consensus pattern (17 bp):
AAGCTTGTTCGGGTTGG
Found at i:24166067 original size:27 final size:27
Alignment explanation
Indices: 24166029--24166084 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
24166019 TTATCACACT
24166029 ATCCATCAACTATATC-GATACTTTTGG
1 ATCCATCAACTATATCAG-TACTTTTGG
*
24166056 ATCCATCGACTATATCAGTACTTTTGG
1 ATCCATCAACTATATCAGTACTTTTGG
24166083 AT
1 AT
24166085 GTTTTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (27 bp):
ATCCATCAACTATATCAGTACTTTTGG
Found at i:24174177 original size:165 final size:161
Alignment explanation
Indices: 24173728--24174231 Score: 717
Period size: 165 Copynumber: 3.1 Consensus size: 161
24173718 TAATTTCATA
* * * * *
24173728 AAAAATCCCTTTACAAAATTTGTTTATTTTACAACAAGAACTCATAATATTTCATTAAATTTAAA
1 AAAAAT-CATTTACAAAACTTGTTTA-TTTAC-ACAAGGACTCATAATCTTTCATTAAATTTCAA
* * * *
24173793 GAATCATGCAAAACATGCTCATGGAAAAACCCTAAAACTTCACCA-AGTTTGCAAATTAGTCCTT
63 GAATCATGC-AAACATTCTCATGGAAAAACCCTAAAACTTTA--ATATTTTGCAAAATAGTCC-T
*
24173857 AGGCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
124 GGGCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
24173895 AAAAATCATTTA-AAAATCTTGTTTATTTA-ACAAGGACTCATAATCTTTCATTAAATTTCAAGA
1 AAAAATCATTTACAAAA-CTTGTTTATTTACACAAGGACTCATAATCTTTCATTAAATTTCAAGA
* *
24173958 ATCATCCAAACATTCTCATGGAAAAACCCTAAAAATTTAATAGTTTTGCAAAATAGTCTCTGGGC
65 ATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATA-TTTTGCAAAATAGTC-CTGGGC
24174023 TAGCTAGATTAAGCTACAACGACTTCAAAAACAT
128 TAGCTAGATTAAGCTACAACGACTTCAAAAACAT
24174057 AAAAATCATTTACAAAACTTGTTTATTTAACACCAAGGACTCATAATCTTTCATTAAATTTCAAG
1 AAAAATCATTTACAAAACTTGTTTATTT-ACA-CAAGGACTCATAATCTTTCATTAAATTTCAAG
* * * *
24174122 AATCATGCAAACGTTCTCATGGGAAAGCCCTAAAACTTTAATATTTCTACAAAATAGTCCCTGGG
64 AATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATATTT-TGCAAAATAGT-CCTGGG
24174187 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
127 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
24174222 AAAAATCATT
1 AAAAATCATT
24174232 AAAAACGGGA
Statistics
Matches: 309, Mismatches: 18, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
160 1 0.00
161 1 0.00
162 103 0.33
163 43 0.14
164 4 0.01
165 138 0.45
166 13 0.04
167 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (161 bp):
AAAAATCATTTACAAAACTTGTTTATTTACACAAGGACTCATAATCTTTCATTAAATTTCAAGAA
TCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATATTTTGCAAAATAGTCCTGGGCTAG
CTAGATTAAGCTACAACGACTTCAAAAACAT
Found at i:24177272 original size:154 final size:154
Alignment explanation
Indices: 24176992--24177296 Score: 495
Period size: 154 Copynumber: 2.0 Consensus size: 154
24176982 TGGAAAATCT
* * *
24176992 ATTTCAGAAAATATATTTTTTAACTATTGTAGAAAATACGTAATATATTTTATGTTACTGTGTAT
1 ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACGAAATATATTTTATATTACTGTGTAT
24177057 TTACCATTTTGCCCCTTAAGAAAATCCTATAAATAACATACCATTCTCCTCATTTTACACAACAA
66 TTACCATTTTGCCCCTTAAGAAAATCCTATAAATAACATACCATTCTCCTCATTTTACACAACAA
24177122 GGAAAACAACAATATTTTCTCCTC
131 GGAAAACAACAATATTTTCTCCTC
* * * * *
24177146 ATTTCAGAAAATA-AATTTTTAATTGTTGTAGAATATACGAAAATATATTTTCTATTATTGTGTA
1 ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACG-AAATATATTTTATATTACTGTGTA
* *
24177210 TTTACCATTTTTCCCCTTAAGAAAATCCTATAAATAGCATACCATTCTCCTCATTTTACACAACA
65 TTTACCATTTTGCCCCTTAAGAAAATCCTATAAATAACATACCATTCTCCTCATTTTACACAACA
*
24177275 AGGAAAACAACAATTTTTTCTC
130 AGGAAAACAACAATATTTTCTC
24177297 TCACAACTCA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
153 22 0.16
154 117 0.84
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.38
Consensus pattern (154 bp):
ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACGAAATATATTTTATATTACTGTGTAT
TTACCATTTTGCCCCTTAAGAAAATCCTATAAATAACATACCATTCTCCTCATTTTACACAACAA
GGAAAACAACAATATTTTCTCCTC
Found at i:24179094 original size:16 final size:16
Alignment explanation
Indices: 24179064--24179093 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24179054 ACAATTGTTG
24179064 TTCTATTACTATTTTA
1 TTCTATTACTATTTTA
24179080 TTCTATTACT-TTTT
1 TTCTATTACTATTTT
24179094 TTATCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTACTATTTTA
Found at i:24185385 original size:5 final size:5
Alignment explanation
Indices: 24185361--24185394 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
24185351 CCGATTCGTC
24185361 AGGAGA AGGAA AGAGAA AGGAA AGGAA AGGAA AG
1 AGGA-A AGGAA AG-GAA AGGAA AGGAA AGGAA AG
24185395 AGAAGTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.67
6 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
AGGAA
Found at i:24189276 original size:12 final size:13
Alignment explanation
Indices: 24189257--24189282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24189247 GATTGAGTAC
24189257 CAAAAAAATTAAG
1 CAAAAAAATTAAG
24189270 CAAAAAAATTAAG
1 CAAAAAAATTAAG
24189283 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:24189622 original size:12 final size:12
Alignment explanation
Indices: 24189605--24189636 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24189595 CTTGGAACCG
24189605 CCGATTTTTTTA
1 CCGATTTTTTTA
24189617 CCGATTTTTTTA
1 CCGATTTTTTTA
*
24189629 CCAATTTT
1 CCGATTTT
24189637 AGTGAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (12 bp):
CCGATTTTTTTA
Found at i:24189803 original size:25 final size:26
Alignment explanation
Indices: 24189775--24189834 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
24189765 GAATATGCTG
24189775 AGAAGAGAAG-ATGAAGAACGGAAGA
1 AGAAGAGAAGAATGAAGAACGGAAGA
*
24189800 AGAA-A-AAGGAATGAAGAACGGATGA
1 AGAAGAGAA-GAATGAAGAACGGAAGA
24189825 AG--GAGAAGAA
1 AGAAGAGAAGAA
24189835 GCCTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 22 0.73
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACGGAAGA
Found at i:24191386 original size:13 final size:13
Alignment explanation
Indices: 24191368--24191392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24191358 CTAGGATCTA
24191368 AAACACAAGCAAC
1 AAACACAAGCAAC
24191381 AAACACAAGCAA
1 AAACACAAGCAA
24191393 TTTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:24192166 original size:26 final size:26
Alignment explanation
Indices: 24192113--24192173 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
24192103 TATCCCAGTT
** **
24192113 AAATTTTGAAAATTTTACCCCTGGTA
1 AAATTTTGACGATTTTACCCCTAATA
*
24192139 AATTTTTGACGATTTTACCCCTAATA
1 AAATTTTGACGATTTTACCCCTAATA
24192165 AAATTTTGA
1 AAATTTTGA
24192174 GAAAATTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (26 bp):
AAATTTTGACGATTTTACCCCTAATA
Found at i:24207185 original size:30 final size:30
Alignment explanation
Indices: 24207126--24207185 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
24207116 AGAAAGGGTG
* *
24207126 CAATGGAAGATAGAAGCCAACCTCTAAACA
1 CAATGGAAGATAGAAGCCAACCGCCAAACA
24207156 CAATGGAAGATAGAAGCCAACCGCCAAACA
1 CAATGGAAGATAGAAGCCAACCGCCAAACA
24207186 ACATTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (30 bp):
CAATGGAAGATAGAAGCCAACCGCCAAACA
Found at i:24209621 original size:28 final size:28
Alignment explanation
Indices: 24209581--24209637 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24209571 TACTTCTGTT
24209581 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
24209609 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
24209637 T
1 T
24209638 CACTACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTGACTGAGCTCTCCCCAATTATGTA
Found at i:24212680 original size:23 final size:23
Alignment explanation
Indices: 24212654--24212715 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24212644 TACACCGAAA
* *
24212654 TGTCATTAACACTTGCACCGTAG
1 TGTCATTATCACTTGCACCATAG
* *
24212677 TGTCGTTTTCACTTGCACCATAG
1 TGTCATTATCACTTGCACCATAG
* *
24212700 TGCCACTATCACTTGC
1 TGTCATTATCACTTGC
24212716 GCACATAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (23 bp):
TGTCATTATCACTTGCACCATAG
Found at i:24229247 original size:22 final size:22
Alignment explanation
Indices: 24229217--24229259 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24229207 ACACTAAAAC
* *
24229217 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
24229239 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
24229260 AGCGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:24229440 original size:42 final size:43
Alignment explanation
Indices: 24229301--24229513 Score: 315
Period size: 43 Copynumber: 5.0 Consensus size: 43
24229291 GAAGCGCCGG
24229301 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
*
24229345 -ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
** *
24229387 TGAAAATGCCGCTAAAGACCAAGACCTTTAGC-GCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
*
24229429 AAAAAACGCCGCTAAAGACCAAGACCTTT-GCAGCGCTTTTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* * * *
24229471 AAAAAACGCCGCAAAATACCGAGACCTTTAGCGGCACTTTTCC
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
24229514 CGCAAACACC
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
41 2 0.01
42 73 0.47
43 79 0.51
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
Found at i:24229526 original size:85 final size:86
Alignment explanation
Indices: 24229301--24229529 Score: 327
Period size: 85 Copynumber: 2.7 Consensus size: 86
24229291 GAAGCGCCGG
*
24229301 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAA
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
*
24229366 GACCTTTAGCGGCGCTTTTCC
66 GACCTTTAGCAGCGCTTTTCC
** * * *
24229387 TGAAAATGCCGCTAAAGACCAAGACCTTTAGC-GCGCTTTTCCAAAAAACGCCGCTAAAGACCAA
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
24229451 GACCTTT-GCAGCGCTTTTCC
66 GACCTTTAGCAGCGCTTTTCC
* * * * * *
24229471 AAAAAACGCCGCAAAATACCGAGACCTTTAGCGGCACTTTTCCCGCAAACACCGCTAAA
1 AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
24229530 AACATGACTT
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 38 0.31
85 57 0.46
86 29 0.23
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.19
Consensus pattern (86 bp):
AAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAA
GACCTTTAGCAGCGCTTTTCC
Found at i:24229726 original size:18 final size:18
Alignment explanation
Indices: 24229703--24229762 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
24229693 ATAAAACAAG
24229703 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
24229721 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
24229738 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
24229756 TTACATT
1 TTACATT
24229763 AGAATACATA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:24234311 original size:40 final size:39
Alignment explanation
Indices: 24234259--24234357 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 39
24234249 TTGCGGAGTG
24234259 TTTTAAAAAGCGCCGCTAATGCTTGATCTATATCGGCGT
1 TTTTAAAAAGCGCCGCTAATGCTTGATCTATATCGGCGT
* * *
24234298 TTTTCAAAAAGCGCTGCTAATG-TCTCATCTATAACGGCGT
1 TTTT-AAAAAGCGCCGCTAATGCT-TGATCTATATCGGCGT
*
24234338 TTTTATAAAAGTGCCGCTAA
1 TTTTA-AAAAGCGCCGCTAA
24234358 GGCCATCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 6 0.12
40 46 0.88
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (39 bp):
TTTTAAAAAGCGCCGCTAATGCTTGATCTATATCGGCGT
Found at i:24234449 original size:40 final size:39
Alignment explanation
Indices: 24234391--24234553 Score: 175
Period size: 40 Copynumber: 4.1 Consensus size: 39
24234381 TTTGCGGCAT
* * * *
24234391 TTTTCAAAAAGCGTCGCTAATGCTCGACCTATAGTGGCG
1 TTTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG
* * *
24234430 CTTTCCAAAAAACGCCGCTAATGCTAGTTCTATAGCGGCG
1 -TTTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG
* *
24234470 TTTTTTAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG
1 -TTTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG
* * *
24234510 TTTTTAAAGAAGCGCCGCTAATG-TGATATCTATAGTGGCG
1 TTTTCAAA-AAGCGCCGCTAATGCT-AGATCTATAGCGGCG
24234550 TTTT
1 TTTT
24234554 TTATCCAAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 9 0.09
40 96 0.91
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
TTTTCAAAAAGCGCCGCTAATGCTAGATCTATAGCGGCG
Found at i:24234526 original size:80 final size:80
Alignment explanation
Indices: 24234384--24234556 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 80
24234374 CGGTTCTTTT
* * * *
24234384 GCGGCATTTTTCAAAAAGCGTCGCTAATGCTCGACCTATAGTGGCGCTTTCCAAAAAACGCCGCT
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
24234449 AATGCT-AGT-TCTATA
66 AATG-TGA-TATCTATA
* * ** *
24234464 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TTTTTAAAGAAGCGCCGC
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAA-AAACGCCGC
24234528 TAATGTGATATCTATA
65 TAATGTGATATCTATA
*
24234544 GTGGCGTTTTTTA
1 GCGGCGTTTTTTA
24234557 TCCAAACGTC
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
79 8 0.10
80 72 0.90
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (80 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTCCAAAAAACGCCGCT
AATGTGATATCTATA
Found at i:24234905 original size:41 final size:41
Alignment explanation
Indices: 24234831--24234922 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
24234821 ACCAGCTCTT
*
24234831 AGCCTGCTAGACTTATAGTCCGAAATATATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
* * *
24234872 AGCCTGCTAGACGTA-AGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTATA-GTCCGAAATATATCACCGGCATTA
24234913 AGCCTGCTAG
1 AGCCTGCTAG
24234923 GCACATAGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAAATATATCACCGGCATTA
Found at i:24235560 original size:21 final size:21
Alignment explanation
Indices: 24235534--24235575 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24235524 TCATAAAATC
24235534 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
24235555 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
24235576 TATATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:24242546 original size:41 final size:41
Alignment explanation
Indices: 24242472--24242563 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
24242462 ACCAGCTCTT
*
24242472 AGCCTGCTGGACCTAAAGTCCGAAATATATCACCGACATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGACATTA
* * * * * *
24242513 AGCCTGCTAGACGTAAGGTCTGAATTATTTCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGACATTA
*
24242554 AGCCTACTAG
1 AGCCTGCTAG
24242564 GCACATAGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCCGAAATATATCACCGACATTA
Found at i:24243201 original size:21 final size:21
Alignment explanation
Indices: 24243175--24243216 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24243165 TCATAAAATC
24243175 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
24243196 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
24243217 TATATTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:24250102 original size:22 final size:22
Alignment explanation
Indices: 24250077--24250119 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24250067 TAATAAAAAG
24250077 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
24250099 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
24250120 CACTCCCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:24253817 original size:22 final size:22
Alignment explanation
Indices: 24253792--24253834 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24253782 TAATAAAAAG
24253792 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
24253814 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
24253835 CACCAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:24265610 original size:26 final size:26
Alignment explanation
Indices: 24265581--24265641 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
24265571 ACGAATTTTC
**
24265581 TCAAAATTTTATTAGGGGTAAAATCG
1 TCAAAATTTTACCAGGGGTAAAATCG
* **
24265607 TCAAAAATTTACCAGGGGTAAAATTT
1 TCAAAATTTTACCAGGGGTAAAATCG
24265633 TCAAAATTT
1 TCAAAATTT
24265642 AACTGGGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCG
Found at i:24266381 original size:13 final size:13
Alignment explanation
Indices: 24266363--24266387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24266353 TAAGATGAAA
24266363 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
24266376 TTGCTTGTGTTT
1 TTGCTTGTGTTT
24266388 TAGATCCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:24268154 original size:15 final size:12
Alignment explanation
Indices: 24268119--24268150 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24268109 CGTTCTCACT
*
24268119 AAAATTGGTAAA
1 AAAATCGGTAAA
24268131 AAAATCGGTAAA
1 AAAATCGGTAAA
24268143 AAAATCGG
1 AAAATCGG
24268151 CGGTTCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAATCGGTAAA
Found at i:24268496 original size:12 final size:13
Alignment explanation
Indices: 24268473--24268498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24268463 TCAATGAACC
24268473 CTTAATTTTTTTG
1 CTTAATTTTTTTG
24268486 CTTAATTTTTTTG
1 CTTAATTTTTTTG
24268499 GTACTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (13 bp):
CTTAATTTTTTTG
Found at i:24271910 original size:21 final size:21
Alignment explanation
Indices: 24271884--24271934 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24271874 CGCTGTTTCT
*
24271884 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* *
24271905 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
24271926 AATCTCACC
1 AATCTCACC
24271935 ACCACCGCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.37, G:0.06, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:24274762 original size:18 final size:17
Alignment explanation
Indices: 24274729--24274767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24274719 TTGTATAAAT
24274729 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
24274747 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
24274764 TGTG
1 TGTG
24274768 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:24274862 original size:75 final size:75
Alignment explanation
Indices: 24274772--24274919 Score: 296
Period size: 75 Copynumber: 2.0 Consensus size: 75
24274762 AATGTGGAAG
24274772 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
24274837 GGTTGAACAT
66 GGTTGAACAT
24274847 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
1 GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
24274912 GGTTGAAC
66 GGTTGAAC
24274920 TTAGGAATAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (75 bp):
GAAAGTTGTTCATGAATTATTCAAGTGATAAAGTGTTGAAAATAAAGTGTTAAGTGTAAATTCCC
GGTTGAACAT
Found at i:24275095 original size:23 final size:23
Alignment explanation
Indices: 24275068--24275143 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
24275058 AGTGTTATTG
24275068 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
24275091 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24275114 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
24275137 ATCAGTG
1 ATCAGTG
24275144 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:24277054 original size:22 final size:22
Alignment explanation
Indices: 24277026--24277070 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24277016 AATTTACGAA
24277026 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
24277048 TATGTAATTCACTAACACATTC
1 TATGTAATTCACTAACACATTC
24277070 T
1 T
24277071 GGTATACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TATGTAATTCACTAACACATTC
Found at i:24279650 original size:51 final size:51
Alignment explanation
Indices: 24279592--24279782 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
24279582 GATACGGGTT
* * *
24279592 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* *
24279643 CACATAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * *** *
24279694 CGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
* *
24279744 CACGTAGTAGCCTGCATATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
24279783 GACTTTCACT
Statistics
Matches: 115, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 72 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:24279671 original size:12 final size:13
Alignment explanation
Indices: 24279592--24279672 Score: 50
Period size: 12 Copynumber: 6.3 Consensus size: 13
24279582 GATACGGGTT
*
24279592 CACATAGTAGCCTG
1 CACATAGTA-CCTA
24279606 CACATAGTA-CTA
1 CACATAGTACCTA
24279618 CACAT-GTGACC-A
1 CACATAGT-ACCTA
24279630 TCAC-TA-T-CCGATA
1 -CACATAGTACC--TA
24279643 CACATAGTAGCCTA
1 CACATAGTA-CCTA
24279657 CACATAGTA-CTA
1 CACATAGTACCTA
24279669 CACA
1 CACA
24279673 CGTGATCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 24
0.69 0.01 0.30
Matches are distributed among these distances:
10 2 0.04
11 2 0.04
12 21 0.38
13 7 0.13
14 21 0.38
16 2 0.04
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (13 bp):
CACATAGTACCTA
Found at i:24279801 original size:101 final size:102
Alignment explanation
Indices: 24279589--24279812 Score: 238
Period size: 101 Copynumber: 2.2 Consensus size: 102
24279579 AATGATACGG
* **
24279589 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
* **
24279654 CTACACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * ** * *
24279691 GTACGCATAGTAGCCTGCACATAGTACTACAAATACGACCTATCA-T-TTTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACC-ATCACTATCCGATACACATAGTAG
* * * *
24279754 CCTGCATATAGTACTACACACGTGA-CCATGACTTTCAC
65 CCTACACATAGTACTACACACGTGATCCAAG-CTATCAC
* * *
24279792 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
24279813 CAATCCATGC
Statistics
Matches: 99, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
100 3 0.03
101 56 0.57
102 36 0.36
103 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACAAATACGACCATCACTATCCGATACACATAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:24292161 original size:24 final size:24
Alignment explanation
Indices: 24292134--24292192 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
24292124 CCTATTTATG
*
24292134 TAAGGGTTTGCATACTAGATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
24292158 TAAGGGTTCGCATACTAAATCACA
1 TAAGGGTTTGCATACTAAATCACA
*
24292182 TAAGGTTTTGC
1 TAAGGGTTTGC
24292193 TTGAAGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (24 bp):
TAAGGGTTTGCATACTAAATCACA
Found at i:24292202 original size:130 final size:129
Alignment explanation
Indices: 24292008--24292271 Score: 350
Period size: 130 Copynumber: 2.0 Consensus size: 129
24291998 GCACATACAA
** *
24292008 GGTTCGCATAATAGATCACATAAGGCTTCGTGTACTAAATTACATAAGGTTTTACATGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* ** *
24292073 -TCATATCGGCTACAGTTCGTCTATCAATTTATAACAGAGTTAGTATGTATACCTATTTATGTAA
66 GT-ATATCAGCTACAGTTCACCTATCAATTTAT-ACAGAGTTAGTATGTATACATATTTATGTAA
24292137 G
129 G
* * * * *
24292138 GGTTTGCATACTAGATCACATAAGGGTTCGCATACTAAATCACATAAGGTTTTGCTTGAAGGTTC
1 GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
* * * * *
24292203 GTATATCAGCTACAGTTTACCTATCAATTTATACAGATTTTGTGTGTATACATGTTTATGTAAG
66 GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
24292267 GGTTC
1 GGTTC
24292272 TAATGAAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 31 0.27
130 83 0.72
131 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (129 bp):
GGTTCGCATAATAGATCACATAAGGCTTCGCATACTAAATCACATAAGGTTTTACATGAAGGTTC
GTATATCAGCTACAGTTCACCTATCAATTTATACAGAGTTAGTATGTATACATATTTATGTAAG
Found at i:24294928 original size:17 final size:17
Alignment explanation
Indices: 24294903--24294952 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
24294893 TTTCGAATGC
*
24294903 CTCTGTTTCTTTCTTTT
1 CTCTTTTTCTTTCTTTT
24294920 CTCTTTTTCTTT-TGTTT
1 CTCTTTTTCTTTCT-TTT
* *
24294937 -TGTTTTTATTTCTTTT
1 CTCTTTTTCTTTCTTTT
24294953 TATTATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
CTCTTTTTCTTTCTTTT
Found at i:24299428 original size:24 final size:24
Alignment explanation
Indices: 24299401--24299451 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24299391 CAACATGATA
*
24299401 GTTTGCATACTAATTCACATGAGG
1 GTTTGCATACTAAATCACATGAGG
* *
24299425 GTTTGCATATTAAATCATATGAGG
1 GTTTGCATACTAAATCACATGAGG
24299449 GTT
1 GTT
24299452 CGCACAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (24 bp):
GTTTGCATACTAAATCACATGAGG
Found at i:24299555 original size:16 final size:16
Alignment explanation
Indices: 24299534--24299597 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
24299524 ATAATAAATC
* * *
24299534 CATAAGTGTTTGCATT
1 CATAAGGGTTCGCATA
24299550 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
* * *
24299566 CATAATGGTTCTCATG
1 CATAAGGGTTCGCATA
24299582 CATAAGGGTTCGCATA
1 CATAAGGGTTCGCATA
24299598 ACTTATTACC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (16 bp):
CATAAGGGTTCGCATA
Found at i:24301763 original size:45 final size:45
Alignment explanation
Indices: 24301711--24301804 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
24301701 AAAATCCATT
24301711 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
24301756 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
1 TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
24301801 TCCC
1 TCCC
24301805 TCTCACTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.32, C:0.31, G:0.02, T:0.35
Consensus pattern (45 bp):
TCCCAAAAACCCTGAAAACCTTTTATTTTCTCCCAAAATTTTTAC
Found at i:24303752 original size:31 final size:29
Alignment explanation
Indices: 24303676--24303757 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
24303666 AAAATAAGAT
* * *
24303676 AAAATCAAAATTTCTTATATAAAATTATAC
1 AAAATAAAAATTT-ATATATAAAATTACAC
24303706 AAAATAAAAATTTATATATAAAATTACAC
1 AAAATAAAAATTTATATATAAAATTACAC
* *
24303735 ATTAAATTATAATTTATATATAA
1 A--AAATAAAAATTTATATATAA
24303758 TTTTGAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.33
30 12 0.27
31 18 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATAAAAATTTATATATAAAATTACAC
Found at i:24306015 original size:18 final size:18
Alignment explanation
Indices: 24305992--24306034 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24305982 TGCCAGGTGG
* *
24305992 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
24306010 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
24306028 GTTTCCT
1 GTATCCT
24306035 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:24306506 original size:49 final size:49
Alignment explanation
Indices: 24306452--24306620 Score: 295
Period size: 49 Copynumber: 3.5 Consensus size: 49
24306442 ATTTATATTA
24306452 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
24306501 ATGTAATAAAATACAAAATATTTTATTTTAAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
24306550 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
24306599 ATTTAATAAAATAC-AAATAGTT
1 ATGTAATAAAATACAAAATAGTT
24306621 AATATTCTTA
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
48 8 0.07
49 106 0.93
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:24308902 original size:14 final size:14
Alignment explanation
Indices: 24308883--24308911 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24308873 TCAACATTAT
24308883 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
24308897 GCATGTGGGCTGGA
1 GCATGTGGGCTGGA
24308911 G
1 G
24308912 GTGAGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.52, T:0.21
Consensus pattern (14 bp):
GCATGTGGGCTGGA
Found at i:24310026 original size:124 final size:125
Alignment explanation
Indices: 24309806--24310215 Score: 614
Period size: 124 Copynumber: 3.3 Consensus size: 125
24309796 CCCAAACATG
* * * *
24309806 CTACTGTAGCAAAAACACGTCCACGTGGGAGCGATTTCA-ATATTTCTTCTCATAAAG-ATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGA-AATTCTTCTAATAAAGCATCCTG
* * ** *
24309869 CTTAAAGCATTTTACACACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
24309930 CTACTGTAGCAAAAGCGCGTCTA-GAT-GGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACG-TGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTG
* *
24309993 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
24310054 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTATAATAAAGCATCATGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
24310119 TTGAAGCG-TTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
24310178 CTACTGTACCAAAAGCGCGTCCACGTAGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
24310216 CTTAATAAAT
Statistics
Matches: 261, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
123 27 0.10
124 190 0.73
125 44 0.17
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:24314139 original size:31 final size:32
Alignment explanation
Indices: 24314104--24314175 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
24314094 TTTGGGTTAG
24314104 GACTAAAATT-TCATAATTCAAAAAGTA-AAGA
1 GACTAAAATTGTC-TAATTCAAAAAGTATAAGA
*
24314135 GACTAAAATTGTCTAATTCGAAAAGTATAAGA
1 GACTAAAATTGTCTAATTCAAAAAGTATAAGA
*
24314167 -ACCAAAATT
1 GACTAAAATT
24314176 AACGGTCGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (32 bp):
GACTAAAATTGTCTAATTCAAAAAGTATAAGA
Found at i:24317491 original size:35 final size:35
Alignment explanation
Indices: 24317419--24317499 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
24317409 GTTATCGACT
** *
24317419 GGTCCTTCAGGGCGACACTGTGTAAATGGTATATA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
* * * *
24317454 GGTCCTTCAGGGTGGCACCATGTGAATGATATTTA
1 GGTCCTTCAGGGCGACACCATGTAAATGATATATA
24317489 GGTCCTT-AGGG
1 GGTCCTTCAGGG
24317500 GCAACACCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 4 0.10
35 35 0.90
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (35 bp):
GGTCCTTCAGGGCGACACCATGTAAATGATATATA
Found at i:24318559 original size:35 final size:35
Alignment explanation
Indices: 24318520--24318627 Score: 84
Period size: 35 Copynumber: 3.2 Consensus size: 35
24318510 TACACAAACA
24318520 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
1 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
* *** * * *
24318555 TGCCATTCATAGAAACC-ACAGT--ACACAAAC-A--
1 TGCCATT-TTAGTGTCCTAAAATCAAC-CAACCAATG
*
24318586 TGCCGTTTTAGTGTCCTAAAATCAACCAACCAATG
1 TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
24318621 TGCCATT
1 TGCCATT
24318628 CATAGAAACC
Statistics
Matches: 49, Mismatches: 16, Indels: 16
0.60 0.20 0.20
Matches are distributed among these distances:
30 5 0.10
31 9 0.18
32 4 0.08
33 6 0.12
34 4 0.08
35 16 0.33
36 5 0.10
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (35 bp):
TGCCATTTTAGTGTCCTAAAATCAACCAACCAATG
Found at i:24318595 original size:66 final size:66
Alignment explanation
Indices: 24318507--24318640 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
24318497 CATCATTCAC
24318507 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
24318572 A
66 A
*
24318573 CAGTACACAAACATGCCGTTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
1 CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
24318638 A
66 A
24318639 CA
1 CA
24318641 ATTATATCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (66 bp):
CAGTACACAAACATGCCATTTTAGTGTCCTAAAATCAACCAACCAATGTGCCATTCATAGAAACC
A
Found at i:24319187 original size:29 final size:29
Alignment explanation
Indices: 24319145--24319203 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24319135 AAAATACAAG
24319145 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
24319174 TAGAAATTTATTTACATATTGAAACACTA
1 TAGAAATTTATTTACATATTGAAACACTA
24319203 T
1 T
24319204 GAACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (29 bp):
TAGAAATTTATTTACATATTGAAACACTA
Found at i:24327056 original size:33 final size:33
Alignment explanation
Indices: 24327011--24327073 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
24327001 TATGTAGAAG
*
24327011 AAAGGGTGCAATGGAAGATAGAAGCCAACCTCT
1 AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
24327044 AAAGGGTACAATGGAAGATAGAAGCCAACC
1 AAAGGGTACAATGGAAGATAGAAGCCAACC
24327074 GCCAAACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.13
Consensus pattern (33 bp):
AAAGGGTACAATGGAAGATAGAAGCCAACCTCT
Found at i:24329517 original size:28 final size:28
Alignment explanation
Indices: 24329477--24329533 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24329467 TACTTCTGTT
24329477 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
24329505 TAGTGACTGAGCTCTCCCCAATTATGTA
1 TAGTGACTGAGCTCTCCCCAATTATGTA
24329533 T
1 T
24329534 CACTACAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
TAGTGACTGAGCTCTCCCCAATTATGTA
Found at i:24330168 original size:44 final size:43
Alignment explanation
Indices: 24330101--24330186 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
24330091 ATCTGCTCCG
*
24330101 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGTTCATTTCC
1 GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
*
24330144 GTGCTTAAGGAAAAAACATCTCCTCAATCGGGTTGCTCATTTC
1 GTGCTCAAGG-AAAAACATCTCCTCAATCGGGTTGCTCATTTC
24330187 TGATTAGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 9 0.22
44 31 0.77
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
GTGCTCAAGGAAAAACATCTCCTCAATCGGGTTGCTCATTTCC
Found at i:24332616 original size:23 final size:23
Alignment explanation
Indices: 24332590--24332651 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24332580 TACACCGAAA
* *
24332590 TGTCATTAACACTTGCACCGTAG
1 TGTCATTATCACTTGCACCATAG
* *
24332613 TGTCGTTTTCACTTGCACCATAG
1 TGTCATTATCACTTGCACCATAG
* *
24332636 TGCCACTATCACTTGC
1 TGTCATTATCACTTGC
24332652 GCACATAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (23 bp):
TGTCATTATCACTTGCACCATAG
Found at i:24343413 original size:21 final size:21
Alignment explanation
Indices: 24343389--24343465 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
24343379 AGTACATATT
*
24343389 AACATGTAATTAAACAACTTA
1 AACATATAATTAAACAACTTA
* *
24343410 AACATACATTTTAAATACATA-TT-
1 AACATATA-ATT-AA-ACA-ACTTA
24343433 AACATATAATTAAACAACTTA
1 AACATATAATTAAACAACTTA
24343454 AACATAATAATT
1 AACAT-ATAATT
24343466 TGTACATACG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 13 0.30
22 10 0.23
23 9 0.20
24 5 0.11
25 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (21 bp):
AACATATAATTAAACAACTTA
Found at i:24343435 original size:44 final size:44
Alignment explanation
Indices: 24343372--24343459 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
24343362 TATTCAATAG
* *
24343372 CATTTTAAGTACATATTAACATGTAATTAAACAACTTAAACATA
1 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
24343416 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
1 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
24343460 ATAATTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (44 bp):
CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
Found at i:24343463 original size:22 final size:22
Alignment explanation
Indices: 24343395--24343465 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
24343385 TATTAACATG
24343395 TAATTAAACAACTTAAACATACA
1 TAATTAAACAACTTAAACATA-A
*
24343418 T-TTTAAATACATA-TT-AACAT-A
1 TAATT-AA-ACA-ACTTAAACATAA
24343439 TAATTAAACAACTTAAACATAA
1 TAATTAAACAACTTAAACATAA
24343461 TAATT
1 TAATT
24343466 TGTACATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 15
0.70 0.04 0.27
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 9 0.23
22 10 0.26
23 8 0.21
24 5 0.13
25 1 0.03
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
TAATTAAACAACTTAAACATAA
Found at i:24372806 original size:24 final size:24
Alignment explanation
Indices: 24372771--24372829 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
24372761 GAACCTTCAA
* *
24372771 GCAAAACCTTATGTGATTTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
*
24372795 GCGAACCCTTATGTGATCTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
24372819 GCAAACCCTTA
1 GCAAACCCTTA
24372830 CATAAATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
GCAAACCCTTATGTGATCTAGTAT
Found at i:24372935 original size:130 final size:129
Alignment explanation
Indices: 24372693--24372955 Score: 348
Period size: 130 Copynumber: 2.0 Consensus size: 129
24372683 ATTTCATTAG
* ** *
24372693 AACCCTTACATAAACATGTATACACACAAAATCTGTATAAATTGATAGGTAAACTGTAGCTGATA
1 AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCCGATA
* **
24372758 TACGAACCTTCAAGCAAAACCTTATGTGATTTAGTATGCGAACCCTTATGTGATCTAGTATGCA
66 TACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGCA
* * * * *
24372822 AACCCTTACATAAATAGGTATACATACTAACTCTGTTATAAATTGATAGACGAACTGTAGCCGAT
1 AACCCTTACATAAACAGGTATACACACAAAATCTG-TATAAATTGATAGACAAACTGTAGCCGAT
* * * *
24372887 ATGA-GAACCTTCATGTAAAACCTTATGTAATTTAGTACACGAAGCCTTATGTGATCTATTATGC
65 AT-ACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGC
*
24372951 G
129 A
24372952 AACC
1 AACC
24372956 TTGTATGTGC
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 30 0.26
130 84 0.73
131 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (129 bp):
AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCCGATA
TACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGCA
Found at i:24378999 original size:29 final size:29
Alignment explanation
Indices: 24378938--24379000 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
24378928 ATACTTTTAT
* * * *
24378938 AAAATATCTAATGTGGTACATGTACTTTG
1 AAAATATCTAATGTAGTACATGAACTGTC
* *
24378967 AAAATTTCTAATGTAGTACTTGAACTGTC
1 AAAATATCTAATGTAGTACATGAACTGTC
24378996 AAAAT
1 AAAAT
24379001 GATTTTTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (29 bp):
AAAATATCTAATGTAGTACATGAACTGTC
Found at i:24385295 original size:51 final size:50
Alignment explanation
Indices: 24385108--24385296 Score: 186
Period size: 51 Copynumber: 3.7 Consensus size: 50
24385098 TGAAAGTCAT
* * * * * *
24385108 GGTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAAAATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGTGATA
** * * *
24385158 GGTCGTATTTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT--TC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GATAG-TGATA
* * *
24385209 GATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATAGTGAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GATAGTGATA
24385260 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
24385297 AACCCGTATC
Statistics
Matches: 111, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
50 33 0.30
51 74 0.67
52 3 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGTGATA
Found at i:24387843 original size:22 final size:22
Alignment explanation
Indices: 24387815--24387859 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24387805 TGTGTATACC
24387815 AGAATGTGTTAGTGAATTACAT
1 AGAATGTGTTAGTGAATTACAT
24387837 AGAATGTGTTAGTGAATTACAT
1 AGAATGTGTTAGTGAATTACAT
24387859 A
1 A
24387860 TTCGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (22 bp):
AGAATGTGTTAGTGAATTACAT
Found at i:24390329 original size:21 final size:21
Alignment explanation
Indices: 24390303--24390356 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
24390293 CAGCGGTGGT
*
24390303 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
* *
24390324 GGTGAGATTGGATATTGTAGC
1 GGTGAGATTAGATACTGTAGC
24390345 GGTGAGATTAGA
1 GGTGAGATTAGA
24390357 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.06, G:0.37, T:0.31
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:24393750 original size:12 final size:13
Alignment explanation
Indices: 24393731--24393756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24393721 GATTGAGTAC
24393731 CAAAAAAATTAAG
1 CAAAAAAATTAAG
24393744 CAAAAAAATTAAG
1 CAAAAAAATTAAG
24393757 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:24394096 original size:12 final size:12
Alignment explanation
Indices: 24394079--24394110 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24394069 CTTGGAACCG
24394079 CCGATTTTTTTA
1 CCGATTTTTTTA
24394091 CCGATTTTTTTA
1 CCGATTTTTTTA
*
24394103 CCAATTTT
1 CCGATTTT
24394111 AGTGAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (12 bp):
CCGATTTTTTTA
Found at i:24394277 original size:25 final size:26
Alignment explanation
Indices: 24394249--24394308 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
24394239 GAATATGCTG
24394249 AGAAGAGAAG-ATGAAGAACGGAAGA
1 AGAAGAGAAGAATGAAGAACGGAAGA
*
24394274 AGAA-A-AAGGAATGAAGAACGGATGA
1 AGAAGAGAA-GAATGAAGAACGGAAGA
24394299 AG--GAGAAGAA
1 AGAAGAGAAGAA
24394309 GCCTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 22 0.73
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACGGAAGA
Found at i:24395862 original size:13 final size:13
Alignment explanation
Indices: 24395844--24395868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24395834 CTAGGATCTA
24395844 AAACACAAGCAAC
1 AAACACAAGCAAC
24395857 AAACACAAGCAA
1 AAACACAAGCAA
24395869 TTTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:24396643 original size:26 final size:26
Alignment explanation
Indices: 24396590--24396650 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
24396580 TATCCCAGTT
** **
24396590 AAATTTTGAAAATTTTACCCCTGGTA
1 AAATTTTGACGATTTTACCCCTAATA
*
24396616 AATTTTTGACGATTTTACCCCTAATA
1 AAATTTTGACGATTTTACCCCTAATA
24396642 AAATTTTGA
1 AAATTTTGA
24396651 GAAAATTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (26 bp):
AAATTTTGACGATTTTACCCCTAATA
Found at i:24402788 original size:20 final size:20
Alignment explanation
Indices: 24402751--24402789 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24402741 CCCTTGCAGT
** *
24402751 CTAAATTTTTTAACTTTTTC
1 CTAAATTTTCCAAATTTTTC
24402771 CTAAATTTTCCAAATTTTT
1 CTAAATTTTCCAAATTTTT
24402790 TCGATTTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (20 bp):
CTAAATTTTCCAAATTTTTC
Found at i:24408008 original size:30 final size:32
Alignment explanation
Indices: 24407950--24408009 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
24407940 TTGAAAATAT
* *
24407950 TATTATATATTAATTATTAAAATCATATAATG
1 TATTATATATTAATAACTAAAATCATATAATG
24407982 TATTATAT-TTAATAACTAAAAT-ATATAA
1 TATTATATATTAATAACTAAAATCATATAA
24408010 AATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 6 0.23
31 12 0.46
32 8 0.31
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (32 bp):
TATTATATATTAATAACTAAAATCATATAATG
Found at i:24409139 original size:18 final size:18
Alignment explanation
Indices: 24409101--24409141 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24409091 TTAACAATAC
* *
24409101 TTTTATCTCAAAAGTATT
1 TTTTATCCCAAAAGTACT
*
24409119 TTTTATCCCAAAAGTGCT
1 TTTTATCCCAAAAGTACT
24409137 TTTTA
1 TTTTA
24409142 GAAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (18 bp):
TTTTATCCCAAAAGTACT
Found at i:24412678 original size:22 final size:22
Alignment explanation
Indices: 24412653--24412695 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24412643 TAACTTGGTG
24412653 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
24412675 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
24412696 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:24416412 original size:22 final size:22
Alignment explanation
Indices: 24416384--24416426 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
24416374 AGGGGGAGTG
24416384 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
24416406 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
24416427 CTTTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:24424938 original size:21 final size:21
Alignment explanation
Indices: 24424912--24424953 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24424902 AGAATATATA
24424912 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
24424933 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
24424954 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:24425613 original size:41 final size:41
Alignment explanation
Indices: 24425563--24425654 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
24425553 GGCTATGTGC
*
24425563 CTAGTAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
* * * * *
24425604 CTAGCAGGCTTAATGCCGGTGATATATTTCGGACTTTAGGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
*
24425645 CCAGCAGGCT
1 CTAGCAGGCT
24425655 AAGAGCTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
Found at i:24432577 original size:21 final size:21
Alignment explanation
Indices: 24432551--24432592 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24432541 AGAATATATA
24432551 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
24432572 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
24432593 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:24433249 original size:41 final size:41
Alignment explanation
Indices: 24433204--24433295 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
24433194 GGCTATGTGC
*
24433204 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCT-TACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGA-CTATAAGT
* * *
24433245 CTAGCAGGCTTAATGCCGGTGATATATTTCGGACTATAAGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATAAGT
24433286 CTAGCAGGCT
1 CTAGCAGGCT
24433296 AAGAGCTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATAAGT
Found at i:24433626 original size:40 final size:41
Alignment explanation
Indices: 24433570--24433866 Score: 184
Period size: 40 Copynumber: 7.1 Consensus size: 41
24433560 GACGTTTGGA
*
24433570 TAAAAAACGCCACTATAGATATC-A-CATTAGCGGCGCTTCTT
1 TAAAAAACGCCGCTATAGA-ATCAAGCATTAGCGGCGCTT-TT
24433611 T-AAAAACGCCGCTATAG-ATCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGAATCAAGCATTAGCGGCGCTTTT
* *
24433650 TAAAAAACGCCGCTATAGAA-CTAGCATTAGCGGCGTTTTT
1 TAAAAAACGCCGCTATAGAATCAAGCATTAGCGGCGCTTTT
** * * * * *
24433690 TGGAAAGCGCCACTATAG-GTCGAGCATTAGCGACGCTTTT
1 TAAAAAACGCCGCTATAGAATCAAGCATTAGCGGCGCTTTT
* * * * * *
24433730 TGAAAAATGCCGCAAAAGAACCGTCGAGCTTTGATGGCCTTAGCGGCAC-TTT
1 TAAAAAACGCCGCTATAGAA---TC-A------A--GCATTAGCGGCGCTTTT
* * *
24433782 TATAAAAACGCCGTTATAG-AT-GAGACATTAGCAGCGCTTTT
1 TA-AAAAACGCCGCTATAGAATCAAG-CATTAGCGGCGCTTTT
* *
24433823 T-GAAAACGCCGATATAG-ATCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGAATCAAGCATTAGCGGCGCTTTT
24433862 TAAAA
1 TAAAA
24433867 CACTACGCAA
Statistics
Matches: 197, Mismatches: 36, Indels: 47
0.70 0.13 0.17
Matches are distributed among these distances:
38 3 0.02
39 37 0.19
40 119 0.60
41 7 0.04
44 2 0.01
49 1 0.01
51 1 0.01
52 5 0.03
53 22 0.11
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
TAAAAAACGCCGCTATAGAATCAAGCATTAGCGGCGCTTTT
Found at i:24433666 original size:80 final size:80
Alignment explanation
Indices: 24433570--24433742 Score: 208
Period size: 80 Copynumber: 2.2 Consensus size: 80
24433560 GACGTTTGGA
* *
24433570 TAAAAAACGCCACTATAGATA-TCA-CATTAGCGGCGCTTCTTT-AAAAACGCCGCTATAGATCA
1 TAAAAAACGCCGCTATAGA-ACT-AGCATTAGCGGCG-TTCTTTGAAAAACGCCACTATAGATCA
*
24433632 AGCATTAGCGGCGCTTTT
63 AGCATTAGCGACGCTTTT
* * * * *
24433650 TAAAAAACGCCGCTATAGAACTAGCATTAGCGGCGTTTTTTGGAAAGCGCCACTATAGGTCGAGC
1 TAAAAAACGCCGCTATAGAACTAGCATTAGCGGCGTTCTTTGAAAAACGCCACTATAGATCAAGC
24433715 ATTAGCGACGCTTTT
66 ATTAGCGACGCTTTT
* *
24433730 TGAAAAATGCCGC
1 TAAAAAACGCCGC
24433743 AAAAGAACCG
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
79 7 0.09
80 73 0.91
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (80 bp):
TAAAAAACGCCGCTATAGAACTAGCATTAGCGGCGTTCTTTGAAAAACGCCACTATAGATCAAGC
ATTAGCGACGCTTTT
Found at i:24433839 original size:39 final size:38
Alignment explanation
Indices: 24433786--24433867 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 38
24433776 CACTTTTATA
* *
24433786 AAAACGCCGTTATAGAT-GAGACATTAGCAGCGCTTTTT
1 AAAACGCCGATATAGATCAAG-CATTAGCAGCGCTTTTT
*
24433824 GAAAACGCCGATATAGATCAAGCATTAGCGGCGCTTTTT
1 -AAAACGCCGATATAGATCAAGCATTAGCAGCGCTTTTT
24433863 AAAAC
1 AAAAC
24433868 ACTACGCAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
38 5 0.13
39 32 0.82
40 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (38 bp):
AAAACGCCGATATAGATCAAGCATTAGCAGCGCTTTTT
Found at i:24438386 original size:18 final size:18
Alignment explanation
Indices: 24438363--24438422 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
24438353 TATGTATTCT
24438363 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
24438381 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
24438398 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
24438416 AATGTAA
1 AATGTAA
24438423 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:24438674 original size:43 final size:43
Alignment explanation
Indices: 24438613--24438706 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
24438603 GTGTTTGCGA
* *
24438613 GAAAAGTGCCGCTAAAGGTCTCGGTATTTTGCGGCGTTTTTTG
1 GAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGGCGTTTTTTG
* * *
24438656 GAAAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTTG
1 GAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGGCGTTTTTTG
24438699 GAAAAGCG
1 GAAAAGCG
24438707 ATTGTTGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAGGTCTCGGTATTTAGCGGCGTTTTTTG
Found at i:24454830 original size:23 final size:23
Alignment explanation
Indices: 24454769--24454830 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
24454759 TTCTATGTGC
* * *
24454769 GCAAGTGATAGTGGCACTATGGT
1 GCAAGTGATAATGACACTACGGT
* *
24454792 GCAAGTGAAAACGACACTACGGT
1 GCAAGTGATAATGACACTACGGT
*
24454815 GCAAGTGTTAATGACA
1 GCAAGTGATAATGACA
24454831 TTTCGGTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (23 bp):
GCAAGTGATAATGACACTACGGT
Found at i:24457875 original size:28 final size:28
Alignment explanation
Indices: 24457843--24457899 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24457833 TTTTGTAGTG
24457843 ATACATAATTGGGGAGAGCTCAGTCACT
1 ATACATAATTGGGGAGAGCTCAGTCACT
24457871 ATACATAATTGGGGAGAGCTCAGTCACT
1 ATACATAATTGGGGAGAGCTCAGTCACT
24457899 A
1 A
24457900 AACAGAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (28 bp):
ATACATAATTGGGGAGAGCTCAGTCACT
Done.