Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 73 of 141
Found at i:23960326 original size:25 final size:22
Alignment explanation
Indices: 23960084--23960630 Score: 156
Period size: 23 Copynumber: 23.3 Consensus size: 22
23960074 CATGCTGTTA
23960084 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
* *
23960107 AA-ATTGGTGTATGTATGCTGCC
1 AATTTTGGTGTAT-AATGCTGCC
* *
23960129 TAATTTTTGGTGAATCAATGCTGTCT
1 -AA-TTTTGGTGTAT-AATGCTG-CC
* * **
23960155 AATTTT-GTATACACATGCTGTTA
1 AATTTTGGTGTATA-ATGCTG-CC
23960178 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
* *
23960201 AA-ATTGGTGTATGTATGCTGCC
1 AATTTTGGTGTAT-AATGCTGCC
*
23960223 TAATTTTTGGTGAATCAATGCTGTCC
1 -AA-TTTTGGTGTAT-AATGCTG-CC
* **
23960249 AATTTT-GTATATACATGCTGTTA
1 AATTTTGGTGTATA-ATGCTG-CC
23960272 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
*
23960295 AA-ATTGGTGTATATATGCTGCC
1 AATTTTGGTGTATA-ATGCTGCC
*
23960317 GAATTTTTGGTGAATCAATGCTGTCC
1 -AA-TTTTGGTGTAT-AATGCTG-CC
* * **
23960343 AA-TTTCGTATATACATGCTGTTA
1 AATTTTGGTGTATA-ATGCTG-CC
23960366 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
* * *
23960389 AAATTT-GTGTATGTATGCTTCC
1 AATTTTGGTGTAT-AATGCTGCC
* *
23960411 TAATTTTTGGTGAATCAATGGTGTCC
1 -AA-TTTTGGTGTAT-AATGCTG-CC
* **
23960437 AATTTT-GTATATACATGCTGTTA
1 AATTTTGGTGTATA-ATGCTG-CC
23960460 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
* *
23960483 AA-ATTGGTGTATGTATGCTGCC
1 AATTTTGGTGTAT-AATGCTGCC
*
23960505 TAATTTTTGGTGAATCAATGCTGTCC
1 -AA-TTTTGGTGTAT-AATGCTG-CC
* **
23960531 AATTTT-GTATATACATGCTGTTA
1 AATTTTGGTGTATA-ATGCTG-CC
23960554 AATTTT-GTGTATAAGTGCTGTCC
1 AATTTTGGTGTATAA-TGCTG-CC
* * * *
23960577 AA-ATTGGTATATGTATGTTGCC
1 AATTTTGGTGTAT-AATGCTGCC
*
23960599 TAATTTTTGGTGAATCAATGCTGTCC
1 -AA-TTTTGGTGTAT-AATGCTG-CC
23960625 AATTTT
1 AATTTT
23960631 ATATACACAT
Statistics
Matches: 397, Mismatches: 80, Indels: 93
0.70 0.14 0.16
Matches are distributed among these distances:
22 32 0.08
23 232 0.58
24 32 0.08
25 89 0.22
26 12 0.03
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (22 bp):
AATTTTGGTGTATAATGCTGCC
Found at i:23962716 original size:23 final size:22
Alignment explanation
Indices: 23962652--23963063 Score: 397
Period size: 23 Copynumber: 18.0 Consensus size: 22
23962642 TATATATATA
*
23962652 TATATACAAAATTGGACAGCATT
1 TATACACAAAATTGGACAGCA-T
*
23962675 TATACACCAAAATTTGACAGCAT
1 TATACA-CAAAATTGGACAGCAT
*
23962698 ATATATACAAAATTGGACAGCATT
1 -TATACACAAAATTGGACAGCA-T
* *
23962722 TATACCCTAAAATTGGGCAGCAT
1 TATACAC-AAAATTGGACAGCAT
* *
23962745 ATATATATC-AATTTGGACAGCACT
1 -TATACA-CAAAATTGGACAGCA-T
*
23962769 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTGGACAGCAT
*
23962791 GTATATACAAAATTGGACAGCACT
1 -TATACACAAAATTGGACAGCA-T
23962815 TATACACAAAATTGGACAGCACT
1 TATACACAAAATTGGACAGCA-T
*
23962838 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTGGACAGCAT
*
23962860 GTATATACAAAATTGGACAGCACT
1 -TATACACAAAATTGGACAGCA-T
23962884 TATACACAAAATTGGACAGCACT
1 TATACACAAAATTGGACAGCA-T
*
23962907 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTGGACAGCAT
*
23962929 GTATATACAAAATTGGACAGCACT
1 -TATACACAAAATTGGACAGCA-T
23962953 TATACACAAAA--GG-CAGCATAT
1 TATACACAAAATTGGACAGC--AT
*
23962974 TATAC-C-AATTTGGACAGCACT
1 TATACACAAAATTGGACAGCA-T
*
23962995 TATACACAAAATTTGG-TAGCAT
1 TATACACAAAA-TTGGACAGCAT
* * *
23963017 ATATATACAAAATTAGACAACATT
1 -TATACACAAAATTGGACAGCA-T
*
23963041 TATACACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTGGACAGCAT
23963064 ATATTCGATT
Statistics
Matches: 326, Mismatches: 36, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.01
20 6 0.02
21 16 0.05
22 14 0.04
23 229 0.70
24 58 0.18
25 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (22 bp):
TATACACAAAATTGGACAGCAT
Found at i:23962797 original size:46 final size:46
Alignment explanation
Indices: 23962649--23963067 Score: 514
Period size: 46 Copynumber: 9.1 Consensus size: 46
23962639 ATATATATAT
* *
23962649 ATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGC
1 ATATATATACAAAATTGGACAGCACTTATACA-CAAAATTGGACAGC
* * *
23962696 ATATATATACAAAATTGGACAGCATTTATACCCTAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCACTTATACAC-AAAATTGGACAGC
* *
23962743 ATATATATATC-AATTTGGACAGCACTTATACACAAAATTTGACAGC
1 ATATATATA-CAAAATTGGACAGCACTTATACACAAAATTGGACAGC
*
23962789 ATGTATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGC
1 ATATATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGC
* * *
23962835 ACT-TATACACAAAATTTGACAGCA-TGTATATACAAAATTGGACAGC
1 A-TATATATACAAAATTGGACAGCACT-TATACACAAAATTGGACAGC
* *
23962881 ACT-TATACACAAAATTGGACAGCACTTATACACAAAATTTGACAGC
1 A-TATATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGC
*
23962927 ATGTATATACAAAATTGGACAGCACTTATACACAAAA--GG-CAGC
1 ATATATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGC
* * *
23962970 ATAT-TATACCAATTTGGACAGCACTTATACACAAAATTTGG-TAGC
1 ATATATATACAAAATTGGACAGCACTTATACACAAAA-TTGGACAGC
* * * *
23963015 ATATATATACAAAATTAGACAACATTTATACACCAAAATTGGGCAGC
1 ATATATATACAAAATTGGACAGCACTTATACA-CAAAATTGGACAGC
23963062 ATATAT
1 ATATAT
23963068 TCGATTTTTG
Statistics
Matches: 330, Mismatches: 29, Indels: 26
0.86 0.08 0.07
Matches are distributed among these distances:
42 30 0.09
43 7 0.02
44 1 0.00
45 12 0.04
46 193 0.58
47 86 0.26
48 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (46 bp):
ATATATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGC
Found at i:23962835 original size:69 final size:69
Alignment explanation
Indices: 23962652--23963063 Score: 470
Period size: 69 Copynumber: 6.0 Consensus size: 69
23962642 TATATATATA
* * * *
23962652 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCA-TATATATACAAAATTGGAC
1 TATATACAAAATTGGACAGCACTTATACA-CAAAATTGGACAGCACT-TATACACAAAATTTGAC
*
23962716 AGCATT
64 AGCATG
** * * *
23962722 TATACCCTAAAATTGGGCAGCA-TATATATATC-AATTTGGACAGCACTTATACACAAAATTTGA
1 TATATAC-AAAATTGGACAGCACT-TATACA-CAAAATTGGACAGCACTTATACACAAAATTTGA
23962785 CAGCATG
63 CAGCATG
23962792 TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCACTTATACACAAAATTTGACAG
1 TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCACTTATACACAAAATTTGACAG
23962857 CATG
66 CATG
23962861 TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCACTTATACACAAAATTTGACAG
1 TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCACTTATACACAAAATTTGACAG
23962926 CATG
66 CATG
*
23962930 TATATACAAAATTGGACAGCACTTATACACAAAA--GG-CAGCATATTATAC-C--AATTTGGAC
1 TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCA-CTTATACACAAAATTT-GAC
23962989 AGCACT-
64 AGCA-TG
* * * * * * * *
23962995 TATACACAAAATTTGG-TAGCA-TATATATACAAAATTAGACAACATTTATACACCAAAATTGGG
1 TATATACAAAA-TTGGACAGCACT-TATACACAAAATTGGACAGCACTTATACA-CAAAATTTGA
23963058 CAGCAT
63 CAGCAT
23963064 ATATTCGATT
Statistics
Matches: 301, Mismatches: 24, Indels: 35
0.84 0.07 0.10
Matches are distributed among these distances:
64 6 0.02
65 31 0.10
66 11 0.04
67 15 0.05
68 5 0.02
69 160 0.53
70 49 0.16
71 24 0.08
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (69 bp):
TATATACAAAATTGGACAGCACTTATACACAAAATTGGACAGCACTTATACACAAAATTTGACAG
CATG
Found at i:23964035 original size:43 final size:43
Alignment explanation
Indices: 23963946--23964057 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
23963936 AACTCGTACA
* *
23963946 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATAG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATAG
*
23963989 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TAG
*
23964032 ATGCCAACGTCCCAAACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
23964058 AACGATAGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
42 4 0.07
43 53 0.88
44 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATAG
Found at i:23965933 original size:50 final size:50
Alignment explanation
Indices: 23965861--23966005 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
23965851 CATTGAGATT
*
23965861 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * *
23965911 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * * *
23965961 ATGAGAACTCCCATGTAAGACTATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23966006 GTAAAGAAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:23971055 original size:124 final size:125
Alignment explanation
Indices: 23970908--23971156 Score: 491
Period size: 124 Copynumber: 2.0 Consensus size: 125
23970898 ATTTATATGA
23970908 TAAATTACAAGTTTATTTAGAATTTATACTTATTCAATTAAAAAATATTATATTAATTATTTTAA
1 TAAATTACAAGTTTATTTAGAATTTATACTTATTCAATTAAAAAATATTATATTAATTATTTTAA
23970973 TATATTTCTTTTATGAGGGAAGTACTAATAAAGATTATTATTTGGAAATAATATATTAGT
66 TATATTTCTTTTATGAGGGAAGTACTAATAAAGATTATTATTTGGAAATAATATATTAGT
23971033 TAAATTACAA-TTTATTTAGAATTTATACTTATTCAATTAAAAAATATTATATTAATTATTTTAA
1 TAAATTACAAGTTTATTTAGAATTTATACTTATTCAATTAAAAAATATTATATTAATTATTTTAA
23971097 TATATTTCTTTTATGAGGGAAGTACTAATAAAGATTATTATTTGGAAATAATATATTAGT
66 TATATTTCTTTTATGAGGGAAGTACTAATAAAGATTATTATTTGGAAATAATATATTAGT
23971157 CAGGTGTTCA
Statistics
Matches: 124, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 114 0.92
125 10 0.08
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (125 bp):
TAAATTACAAGTTTATTTAGAATTTATACTTATTCAATTAAAAAATATTATATTAATTATTTTAA
TATATTTCTTTTATGAGGGAAGTACTAATAAAGATTATTATTTGGAAATAATATATTAGT
Found at i:23971844 original size:30 final size:30
Alignment explanation
Indices: 23971810--23971872 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
23971800 ACTTAACAAG
23971810 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
23971840 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
23971870 CAA
1 CAA
23971873 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:23973220 original size:43 final size:42
Alignment explanation
Indices: 23973173--23973299 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 42
23973163 AGAACATAAC
* * *
23973173 CTTTAGCGGCGTTTTTAGGGAAAGCACCACTAAATGTCATGTT
1 CTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAATGTCATGTT
** * **
23973216 CTTTAAAGGCGTTTGTGGGGAAAGCGCCGTTAAAAATCATGTT
1 CTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAATGTCATGTT
23973259 CTTTAGCGGCGTTTGTGGGATAAGCGCCGCTAAATGTCATG
1 CTTTAGCGGCGTTTGTGGGA-AAGCGCCGCTAAATGTCATG
23973300 CTCTATAACA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 4 0.06
43 65 0.94
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
CTTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAATGTCATGTT
Found at i:23973315 original size:43 final size:43
Alignment explanation
Indices: 23973181--23973315 Score: 130
Period size: 43 Copynumber: 3.1 Consensus size: 43
23973171 ACCTTTAGCG
* * * *
23973181 GCGTTTTTAGGGAAAGCACCACTAAATGTCATGTTCTTTAA-A
1 GCGTTTGTGGGGAAAGCGCCGCTAAATGTCATGTTCTTTAACA
* ** * *
23973223 GGCGTTTGTGGGGAAAGCGCCGTTAAAAATCATGTTCTTTAGCG
1 -GCGTTTGTGGGGAAAGCGCCGCTAAATGTCATGTTCTTTAACA
* *
23973267 GCGTTTGT-GGGATAAGCGCCGCTAAATGTCATGCTCTATAACA
1 GCGTTTGTGGGGA-AAGCGCCGCTAAATGTCATGTTCTTTAACA
*
23973310 ACGTTT
1 GCGTTT
23973316 TTCCACATAA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 4 0.05
43 69 0.95
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GCGTTTGTGGGGAAAGCGCCGCTAAATGTCATGTTCTTTAACA
Found at i:23979630 original size:20 final size:20
Alignment explanation
Indices: 23979607--23979644 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23979597 TGTTATTGGA
* *
23979607 TTATGAAATGTGATATTAAG
1 TTATGAAAAGTAATATTAAG
23979627 TTATGAAAAGTAATATTA
1 TTATGAAAAGTAATATTA
23979645 TGGACTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (20 bp):
TTATGAAAAGTAATATTAAG
Found at i:23979920 original size:75 final size:75
Alignment explanation
Indices: 23979683--23979951 Score: 306
Period size: 75 Copynumber: 3.6 Consensus size: 75
23979673 TCGATTCATT
* * * * *
23979683 CGACTAGCACTGGGTGCAACTTCTGTCAGTTTATCTGACTAGCGTTGGGCACATTATTATAATTG
1 CGACTAGCGCTGGGCGCAACTTCTATCAGTTTATCTGACTAGTGTTGGGCACATTATTATAATCG
* *
23979748 TTGTTATATC
66 TCGGTATATC
* * * ** *
23979758 CGACTGGCGATGGGCGCATCTTCTGCCAGTTTATCTTG-CTAGTGCTGGGCACATTATTATAATC
1 CGACTAGCGCTGGGCGCAACTTCTATCAGTTTATC-TGACTAGTGTTGGGCACATTATTATAATC
*
23979822 ATCGGTATATC
65 GTCGGTATATC
* * * *
23979833 CGACTAGCGCTGGGTGCAACTTCTATCAGTTTATTTGACTAATGTTGGGCACATAATTATAATCG
1 CGACTAGCGCTGGGCGCAACTTCTATCAGTTTATCTGACTAGTGTTGGGCACATTATTATAATCG
*
23979898 CCGGTATATC
66 TCGGTATATC
* * * * *
23979908 CGACTAGTGCTGGGCCCAACCTCTATTAGTTTGTCTGACTAGTG
1 CGACTAGCGCTGGGCGCAACTTCTATCAGTTTATCTGACTAGTG
23979952 CTCGGCATAC
Statistics
Matches: 160, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
74 2 0.01
75 156 0.98
76 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (75 bp):
CGACTAGCGCTGGGCGCAACTTCTATCAGTTTATCTGACTAGTGTTGGGCACATTATTATAATCG
TCGGTATATC
Found at i:23985340 original size:53 final size:51
Alignment explanation
Indices: 23985279--23985389 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 51
23985269 GGTGTCATTA
23985279 GGTATGTTGATTCTGATTTTGCTGGAGACCTTAATAAAAGAAGATCTTTCACAT
1 GGTATGTTGATTCTGATTTTGCTGGAGACCTTAAT--AA-AAGATCTTTCACAT
23985333 GG-ATGTTGATTCTGATTTTGCTGGAGACCTTAATAAAAGATCTTTCACAT
1 GGTATGTTGATTCTGATTTTGCTGGAGACCTTAATAAAAGATCTTTCACAT
23985383 GGTATGT
1 GGTATGT
23985390 CTTTACTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
50 16 0.29
51 6 0.11
53 32 0.57
54 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (51 bp):
GGTATGTTGATTCTGATTTTGCTGGAGACCTTAATAAAAGATCTTTCACAT
Found at i:23987116 original size:16 final size:16
Alignment explanation
Indices: 23987095--23987152 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
23987085 CCCTTCAAGA
23987095 ATTTTATTAATAAATG
1 ATTTTATTAATAAATG
* ***
23987111 ATTTTATTTTATTTTTTG
1 ATTTTA--TTAATAAATG
23987129 ATTTTATTAATAAATG
1 ATTTTATTAATAAATG
23987145 ATTTTATT
1 ATTTTATT
23987153 TGTATGACAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 20 0.62
18 12 0.38
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTATTAATAAATG
Found at i:23987520 original size:25 final size:23
Alignment explanation
Indices: 23987485--23987534 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
23987475 AAGATTGTTA
* *
23987485 AAAAAATTTATATATTTTATTTT
1 AAAAAATTTATAAATTTAATTTT
23987508 AAAAAATCATTATAAATTTAATTTT
1 AAAAAAT--TTATAAATTTAATTTT
23987533 AA
1 AA
23987535 TAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 7 0.30
25 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAAATTTATAAATTTAATTTT
Found at i:23995107 original size:16 final size:17
Alignment explanation
Indices: 23995080--23995114 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23995070 TCATTATGGG
23995080 TTTGGATAATTTCAAAT
1 TTTGGATAATTTCAAAT
*
23995097 TTTGG-TAATTTTAAAT
1 TTTGGATAATTTCAAAT
23995113 TT
1 TT
23995115 AAGTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (17 bp):
TTTGGATAATTTCAAAT
Found at i:23996552 original size:14 final size:14
Alignment explanation
Indices: 23996533--23996564 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23996523 ATAGTTTGCA
23996533 TATAAAGCAAACGG
1 TATAAAGCAAACGG
*
23996547 TATAAAGCAAATGG
1 TATAAAGCAAACGG
23996561 TATA
1 TATA
23996565 GGCAAACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.19, T:0.22
Consensus pattern (14 bp):
TATAAAGCAAACGG
Found at i:24007491 original size:30 final size:29
Alignment explanation
Indices: 24007457--24007519 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
24007447 AATTTACAAG
*
24007457 AATTGGATC-AAATCAAAATTTTATGTATAA
1 AATTGGA-CAAAATC-AAAGTTTATGTATAA
* *
24007487 AATTGTACAAAATCAAAGTTTATGTATAC
1 AATTGGACAAAATCAAAGTTTATGTATAA
24007516 AATT
1 AATT
24007520 ACACATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.37
Consensus pattern (29 bp):
AATTGGACAAAATCAAAGTTTATGTATAA
Found at i:24022342 original size:24 final size:24
Alignment explanation
Indices: 24022315--24022408 Score: 68
Period size: 24 Copynumber: 3.9 Consensus size: 24
24022305 AAAAAAAATA
*
24022315 AAATAATAATGCATAACAAATTTG
1 AAATAATAATACATAACAAATTTG
* **
24022339 AAATGATAATACATAATGAATTTG
1 AAATAATAATACATAACAAATTTG
* *
24022363 AAA-ACA-AATACATAATAAATCT-
1 AAATA-ATAATACATAACAAATTTG
* *
24022385 AAGCTAATAATACATGAAAAAATT
1 AA-ATAATAATACAT-AACAAATT
24022409 ATGATGCTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
22 2 0.04
23 15 0.27
24 32 0.58
25 6 0.11
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (24 bp):
AAATAATAATACATAACAAATTTG
Found at i:24024402 original size:5 final size:5
Alignment explanation
Indices: 24024392--24024417 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24024382 CTCAAAAATT
24024392 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
24024418 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:24024746 original size:81 final size:81
Alignment explanation
Indices: 24024611--24024772 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
24024601 AGGTGGGCGG
*
24024611 CGATCATGTGAAATATATCCCTAAAGAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTG
1 CGATCATGTGAAATATACCCCTAAAGAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTG
24024676 CTTGTGTAAAATAAAC
66 CTTGTGTAAAATAAAC
24024692 CGATCATGTGAAATATACCCCTAAAGAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTG
1 CGATCATGTGAAATATACCCCTAAAGAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTG
24024757 CTTGTGTAAAATAAAC
66 CTTGTGTAAAATAAAC
24024773 TGGTGTTGAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (81 bp):
CGATCATGTGAAATATACCCCTAAAGAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTG
CTTGTGTAAAATAAAC
Found at i:24024789 original size:63 final size:63
Alignment explanation
Indices: 24024717--24024901 Score: 210
Period size: 63 Copynumber: 2.9 Consensus size: 63
24024707 TACCCCTAAA
* * * * *
24024717 GAAGATGTTGATGCAGGGAATTATTGTGTGTGTTATGGTGCTTGTGTAAAATAAACTGGTGTT
1 GAAGGTGTTGATGCAGGGAATGATTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCT
* * ** * * *
24024780 GAATGTGTTGATGTAAAGAATGGTTGTGTGTGCTGTGGTACTTGTGTAAAATAAACTGGAGCT
1 GAAGGTGTTGATGCAGGGAATGATTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCT
* * * *
24024843 GAAGGTGTTGATGC-GAGGAATGAGTGTGCGTGTTGTGATGCTTGTGTCAAATAAACTGG
1 GAAGGTGTTGATGCAG-GGAATGATTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGG
24024902 GTTAGAACCA
Statistics
Matches: 98, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
63 98 1.00
ACGTcount: A:0.25, C:0.06, G:0.34, T:0.35
Consensus pattern (63 bp):
GAAGGTGTTGATGCAGGGAATGATTGTGTGTGTTGTGGTGCTTGTGTAAAATAAACTGGAGCT
Found at i:24026914 original size:25 final size:27
Alignment explanation
Indices: 24026852--24026917 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
24026842 ACAGATAAAC
*
24026852 GAAATAATTATATGAATTGGTTATATG
1 GAAATAATTATATGAAGTGGTTATATG
*
24026879 GAAATAATTATATGACGTGGTT-TAT-
1 GAAATAATTATATGAAGTGGTTATATG
**
24026904 GAAATGCTTATATG
1 GAAATAATTATATG
24026918 GATAGATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 12 0.34
26 3 0.09
27 20 0.57
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (27 bp):
GAAATAATTATATGAAGTGGTTATATG
Found at i:24028517 original size:7 final size:7
Alignment explanation
Indices: 24028507--24028551 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
24028497 ATAATTGAGG
24028507 ATTGAAA
1 ATTGAAA
24028514 ATTGAAA
1 ATTGAAA
24028521 ATTGAAA
1 ATTGAAA
24028528 ATTGAAA
1 ATTGAAA
24028535 ATTGAAA
1 ATTGAAA
*
24028542 ATTGGAA
1 ATTGAAA
24028549 ATT
1 ATT
24028552 TAGGATAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (7 bp):
ATTGAAA
Found at i:24029496 original size:102 final size:102
Alignment explanation
Indices: 24029388--24029590 Score: 343
Period size: 102 Copynumber: 2.0 Consensus size: 102
24029378 TTCCACTCAT
24029388 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTTCTTTTTTTAATGAATGTTTTTAACATATCAG
1 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTTCTTTTTTTAATGAATGTTTTTAACATATCAG
* *
24029453 CTTCCTTAGTTAAATGATTAAATAATAATTATTTCAC
66 CTTCCTTAATTAAATGATTAAATAATAATAATTTCAC
* * * *
24029490 ATTTATATTTTTTATTTCATGTTGTTTTAAGTTTCTTTTTTTTATGAATGTTTTTAGCATATTAG
1 ATTTATATTTTTTATTTCATGTTGTTTTAAGCTTCTTTTTTTAATGAATGTTTTTAACATATCAG
*
24029555 CTTCCTTAATTAAATTATTAAATAATAATAATTTCA
66 CTTCCTTAATTAAATGATTAAATAATAATAATTTCA
24029591 TCCCAATTTC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (102 bp):
ATTTATATTTTTTATTTCATGTTGTTTTAAGCTTCTTTTTTTAATGAATGTTTTTAACATATCAG
CTTCCTTAATTAAATGATTAAATAATAATAATTTCAC
Found at i:24036374 original size:30 final size:31
Alignment explanation
Indices: 24036320--24036400 Score: 110
Period size: 30 Copynumber: 2.6 Consensus size: 31
24036310 ATTTCTTTAA
* *
24036320 ATGTGTATAATTAAATCAAAATCAAAGTTTC
1 ATGTGTATGATTGAATCAAAATCAAAGTTTC
*
24036351 ATGTGTATGATTGCATC-AAATCAAAGTTTC
1 ATGTGTATGATTGAATCAAAATCAAAGTTTC
* *
24036381 ATGTATATGATTGAACCAAA
1 ATGTGTATGATTGAATCAAA
24036401 TTAGAGTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 27 0.63
31 16 0.37
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (31 bp):
ATGTGTATGATTGAATCAAAATCAAAGTTTC
Found at i:24037783 original size:242 final size:243
Alignment explanation
Indices: 24037357--24037845 Score: 971
Period size: 242 Copynumber: 2.0 Consensus size: 243
24037347 TGTCGACTTT
24037357 AAAAAAAAATTGGAAGTCGCCACCAATCTTTTATTAAGGTGTGATTGGATCACCTAAAATTATTT
1 AAAAAAAAATTGGAAGTCGCCACCAATCTTTTATTAAGGTGTGATTGGATCACCTAAAATTATTT
24037422 TGGGTCTACGAGTTTTAGAAAAACAGGTTCGGGAGTCAGTTACGTACGAGGAAGGATTAGCACCC
66 TGGGTCTACGAGTTTTAGAAAAACAGGTTCGGGAGTCAGTTACGTACGAGGAAGGATTAGCACCC
24037487 TTGTAACGCCCAAAATTTGGTACCAAGTTGATTAATTAGTGTCTTAATGTCGAGAGTTAATAAAT
131 TTGTAACGCCCAAAATTTGGTACCAAGTTGATTAATTAGTGTCTTAATGTCGAGAGTTAATAAAT
24037552 ATGATCCTTAGTTAAATTATTTATTAAGATGCCCTCATTTTGAAACAG
196 ATGATCCTTAGTTAAATTATTTATTAAGATGCCCTCATTTTGAAACAG
24037600 AAAAAAAAA-TGGAAGTCGCCACCAATCTTTTATTAAGGTGTGATTGGATCACCTAAAATTATTT
1 AAAAAAAAATTGGAAGTCGCCACCAATCTTTTATTAAGGTGTGATTGGATCACCTAAAATTATTT
24037664 TGGGTCTACGAGTTTTAGAAAAACAGGTTCGGGAGTCAGTTACGTACGAGGAAGGATTAGCACCC
66 TGGGTCTACGAGTTTTAGAAAAACAGGTTCGGGAGTCAGTTACGTACGAGGAAGGATTAGCACCC
24037729 TTGTAACGCCCAAAATTTGGTACCAAGTTGATTAATTAGTGTCTTAATGTCGAGAGTTAATAAAT
131 TTGTAACGCCCAAAATTTGGTACCAAGTTGATTAATTAGTGTCTTAATGTCGAGAGTTAATAAAT
24037794 ATGATCCTTAGTTAAATTATTTATTAAGATGCCCTCATTTTGAAACAG
196 ATGATCCTTAGTTAAATTATTTATTAAGATGCCCTCATTTTGAAACAG
24037842 AAAA
1 AAAA
24037846 CATCACACCC
Statistics
Matches: 246, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
242 237 0.96
243 9 0.04
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (243 bp):
AAAAAAAAATTGGAAGTCGCCACCAATCTTTTATTAAGGTGTGATTGGATCACCTAAAATTATTT
TGGGTCTACGAGTTTTAGAAAAACAGGTTCGGGAGTCAGTTACGTACGAGGAAGGATTAGCACCC
TTGTAACGCCCAAAATTTGGTACCAAGTTGATTAATTAGTGTCTTAATGTCGAGAGTTAATAAAT
ATGATCCTTAGTTAAATTATTTATTAAGATGCCCTCATTTTGAAACAG
Found at i:24040449 original size:24 final size:24
Alignment explanation
Indices: 24040412--24040462 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24040402 ATGAGATAAG
24040412 ACTAGATGCAATCTGCTCTCTGCA
1 ACTAGATGCAATCTGCTCTCTGCA
** *
24040436 ACTAGATGTGATCTGCTCTCTGTA
1 ACTAGATGCAATCTGCTCTCTGCA
24040460 ACT
1 ACT
24040463 TCAGAGAGAT
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:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (24 bp):
ACTAGATGCAATCTGCTCTCTGCA
Found at i:24040640 original size:44 final size:45
Alignment explanation
Indices: 24040534--24040655 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 45
24040524 TTGGCTTTAA
* *
24040534 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCTTCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCTTCTTCAG
*
24040579 TCTAC-CTCACTGCAACTTCA-AGAGGATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGAGA-GATAAGACTTGCCTT-CTTCAG
* *
24040623 TCTGCTCCACTGCAACTTTAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACT
24040656 AGATGCGATC
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
44 33 0.50
45 33 0.50
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCCTTCTTCAG
Found at i:24040773 original size:24 final size:24
Alignment explanation
Indices: 24040739--24040787 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
24040729 GAGATAAGAT
24040739 TAGATGAGATCTGCTCTCTGCAAC
1 TAGATGAGATCTGCTCTCTGCAAC
* *
24040763 TAGATGCGATCTGCTCTCTGTAAC
1 TAGATGAGATCTGCTCTCTGCAAC
24040787 T
1 T
24040788 TCAGAGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (24 bp):
TAGATGAGATCTGCTCTCTGCAAC
Found at i:24040924 original size:45 final size:44
Alignment explanation
Indices: 24040860--24041418 Score: 287
Period size: 44 Copynumber: 12.7 Consensus size: 44
24040850 GGCTTTAATA
* * *
24040860 TGCTCTACTGTAACTTTAGGGAGATAAGATTTGTCATCTTCAGTC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTTG-CATCTTCAGTC
* *
24040905 TGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTACTT-AGTT
1 TGCTC-CACTGCAACTTTAGGGA-GATAAGACTTGCAT-CTTCAGTC
* * *
24040949 TGCTCCACTGTAACTTTAGGGAGATAAGACTAG-A--TGC-GATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGCATCTTCAG-TC
* * * ** * * * *
24040990 TGCT-CTCTGTAACTTCAAAGAGATAAGATCTAAG-GT-TTTAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGA-CT-TGCATCTTCAGTC
* * * * ** * * *
24041033 CGCTCCACTGCAACTTCAGGGAGATAGGA-TTATCGGCTTTAATA
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTT-GCATCTTCAGTC
* * * *
24041077 TGCTCTACTGTAACTTTAGGAAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTTG-CATCTTCAGTC
24041122 TGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCCATCTTCAGTC
1 TGCTC-CACTGCAACTTTAGGGA-GATAAGACTTG-CATCTTCAGTC
* * *
24041167 TGCTTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT-AGTC
1 TGCTCCACTGCAACTTTAGGGA-GATAAGACTTGCAT-CTTCAGTC
* * * * *
24041211 TGCTCCACTGCAACTTTAAGGAGATAAGACCTAAG-GT-TTTAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGA-CT-TGCATCTTCAGTC
* * ** * * ** * *
24041255 CGCTCCATTGCAACTACAGGGAGATATGA-TTATCGGCTTTAATC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTT-GCATCTTCAGTC
* *
24041299 TGCTCCACTGCAACTTTAGGAAGATAAGATTTGCCATCTTCAGTC
1 TGCTCCACTGCAACTTTAGGGAGATAAGACTTG-CATCTTCAGTC
* * *
24041344 TGC-CTCACTGCAACTTCA-GGAGGATAAAACTTGCTTACTT-AGTC
1 TGCTC-CACTGCAACTTTAGGGA-GATAAGACTTGCAT-CTTCAGTC
* *
24041388 TGCTCCACTGTAACTTCAGGGAGATAAGACT
1 TGCTCCACTGCAACTTTAGGGAGATAAGACT
24041419 AGACACGATC
Statistics
Matches: 400, Mismatches: 79, Indels: 71
0.73 0.14 0.13
Matches are distributed among these distances:
40 22 0.05
41 7 0.02
42 4 0.01
43 10 0.03
44 202 0.50
45 154 0.38
46 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGACTTGCATCTTCAGTC
Found at i:24040976 original size:324 final size:325
Alignment explanation
Indices: 24040404--24041064 Score: 1092
Period size: 324 Copynumber: 2.0 Consensus size: 325
24040394 TGACTTCAAT
* *
24040404 GAGATAAGACTAGATGCAATCTGCTCTCTGCAACTAGATGTGATCTGCTCTCTGTAACTTCAGAG
1 GAGATAAGATTAGATGCAATCTGCTCTCTGCAACTAGATGCGATCTGCTCTCTGTAACTTCAGAG
* * * *
24040469 AGATAAGATCTAAGGTTTTAATCCGCTCCATTGCAACTTTAGGGAGATAGGATTATTGGCTTTAA
66 AGATAAGATCTAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
* *
24040534 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCTTCTTCAGTCTACCTCACTGCAACTTCA
131 TATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
24040599 AGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGA
196 AGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGA
* * *
24040664 TCTGCTCTTTGTAACTTCAGAGAGATAATATCTAAGGTTTTAATCCGCTCCACTACAACTTCAGG
261 TCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTACAACTTCAGG
24040729 GAGATAAGATTAGATG-AGATCTGCTCTCTGCAACTAGATGCGATCTGCTCTCTGTAACTTCAGA
1 GAGATAAGATTAGATGCA-ATCTGCTCTCTGCAACTAGATGCGATCTGCTCTCTGTAACTTCAGA
*
24040793 GAGATAAGATCTAA-ATTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
65 GAGATAAGATCTAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTA
* * * * * *
24040857 ATATGCTCTACTGTAACTTTAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTT
130 ATATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTC
* * *
24040922 AGGAGGATAAGACTTGCTTACTTAGTTTGCTCCACTGTAACTTTAGGGAGATAAGACTAGATGCG
195 AAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCG
*
24040987 ATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAG
260 ATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTACAACTTCAG
24041052 G
325 G
*
24041053 GAGATAGGATTA
1 GAGATAAGATTA
24041065 TCGGCTTTAA
Statistics
Matches: 312, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
324 238 0.76
325 74 0.24
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (325 bp):
GAGATAAGATTAGATGCAATCTGCTCTCTGCAACTAGATGCGATCTGCTCTCTGTAACTTCAGAG
AGATAAGATCTAAGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
TATGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
AGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGA
TCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACTACAACTTCAGG
Found at i:24041135 original size:217 final size:217
Alignment explanation
Indices: 24040761--24041504 Score: 1116
Period size: 217 Copynumber: 3.4 Consensus size: 217
24040751 GCTCTCTGCA
* * * * *
24040761 ACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAA-ATTTTAATCCGCTCTACT
1 ACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
*
24040825 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGGAGATAAGAT
66 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGAAGATAAGAT
* *
24040890 TTGTCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTTTGCTCC
131 TTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCC
*
24040955 ACTGTAACTTTAGGGAGATAAG
196 ACTGTAACTTCAGGGAGATAAG
* *
24040977 ACTAGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
1 ACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
24041042 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGAAGATAAGAT
66 GCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGAAGATAAGAT
*
24041107 TTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGC-CATCTTCAGTCTGCT
131 TTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTA-CTT-AGTCTGCT
* *
24041171 TCACTGCAACTTCA-GGAGGATAAG
194 CCACTGTAACTTCAGGGA-GATAAG
* * * * * * *
24041195 ACTTGCTTACTTAGTCTGCTCCACTGCAACTTTAAGGAGATAAGACCTAAGGTTTTAATCCGCTC
1 ACTAG-ATAC-GA-TCTGCT-CTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTC
* * * * * *
24041260 CATTGCAACTACAGGGAGATATGATTATCGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATA
62 CACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGAAGATA
* *
24041325 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAAACTTGCTTACTTAGTCTG
127 AGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTG
24041390 CTCCACTGTAACTTCAGGGAGATAAG
192 CTCCACTGTAACTTCAGGGAGATAAG
* *
24041416 ACTAGACACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
1 ACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
*
24041481 ACAACTTCAGGGAGATAGGATTAT
66 GCAACTTCAGGGAGATAGGATTAT
24041505 TGGCCAACGA
Statistics
Matches: 475, Mismatches: 43, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
216 46 0.10
217 197 0.41
218 34 0.07
219 3 0.01
220 3 0.01
221 36 0.08
222 155 0.33
223 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (217 bp):
ACTAGATACGATCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCCACT
GCAACTTCAGGGAGATAGGATTATCGGCTTTAATATGCTCTACTGTAACTTTAGGAAGATAAGAT
TTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGTCTGCTCC
ACTGTAACTTCAGGGAGATAAG
Found at i:24052837 original size:20 final size:21
Alignment explanation
Indices: 24052814--24052856 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
24052804 AATTTTTTAC
24052814 TAGAAAAAT-TAAAATTAATT
1 TAGAAAAATATAAAATTAATT
24052834 TAGAAAAATAATAAAATTAATT
1 TAGAAAAAT-ATAAAATTAATT
24052856 T
1 T
24052857 TTAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
TAGAAAAATATAAAATTAATT
Found at i:24052870 original size:21 final size:21
Alignment explanation
Indices: 24052824--24052889 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
24052814 TAGAAAAATT
**
24052824 AAAATTAATTTAGAAAAAT-AA
1 AAAATTAATTT-TTAAAATGAA
24052845 TAAAATTAATTTTTAAAATGAA
1 -AAAATTAATTTTTAAAATGAA
* *
24052867 AAAATAAATTATTAAAATGAA
1 AAAATTAATTTTTAAAATGAA
24052888 AA
1 AA
24052890 CTTATTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAATTAATTTTTAAAATGAA
Found at i:24056935 original size:29 final size:31
Alignment explanation
Indices: 24056893--24056969 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
24056883 TTTACCTCAG
*
24056893 GTTACATTTTAGTCACTTATGTT-T-GAAAT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
* *
24056922 GTTACATTTTAGTCACTTACGTTATCGTATT
1 GTTACATTTTAGTCACTTACGTTATCGAAAT
*
24056953 GTAACATTTTAGTCACT
1 GTTACATTTTAGTCACT
24056970 GAGCTGTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.26, C:0.14, G:0.13, T:0.47
Consensus pattern (31 bp):
GTTACATTTTAGTCACTTACGTTATCGAAAT
Found at i:24057134 original size:20 final size:20
Alignment explanation
Indices: 24057092--24057134 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
24057082 TTTTGAGTAA
* ** *
24057092 TTTAATTTTTTTTTGTTTTT
1 TTTAACTTTTTTTTCCTTAT
24057112 TTTAACTTTTTTTTCCTTAT
1 TTTAACTTTTTTTTCCTTAT
24057132 TTT
1 TTT
24057135 CATTCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTAACTTTTTTTTCCTTAT
Found at i:24057321 original size:21 final size:21
Alignment explanation
Indices: 24057295--24057338 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24057285 AAAAAAAATA
24057295 TTAAAAAATCTTTATTTTGGG
1 TTAAAAAATCTTTATTTTGGG
24057316 TTAAAAAATCTTTATTTTGGG
1 TTAAAAAATCTTTATTTTGGG
24057337 TT
1 TT
24057339 TTCGTTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (21 bp):
TTAAAAAATCTTTATTTTGGG
Found at i:24059518 original size:39 final size:40
Alignment explanation
Indices: 24059475--24059565 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
24059465 TTGAATTTTC
* *
24059475 ATAGGAATTTGAA-TTTTTGGTTACAAAATTAAGTTTCTA
1 ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
* * * * *
24059514 ATAGGAGTTTTAAGTATTTGGATATAAAATTGAGTTTTTA
1 ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
*
24059554 ATAGAAATTTGA
1 ATAGGAATTTGA
24059566 GTAAAAGTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
39 11 0.27
40 30 0.73
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (40 bp):
ATAGGAATTTGAAGTATTTGGATACAAAATTAAGTTTCTA
Found at i:24060026 original size:22 final size:22
Alignment explanation
Indices: 24059960--24060005 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24059950 AAAAAAAATT
*
24059960 AAAATTAACAATAATTGTAAAA
1 AAAATTAAAAATAATTGTAAAA
24059982 AAAATTAAAAATAATTGTAAAA
1 AAAATTAAAAATAATTGTAAAA
24060004 AA
1 AA
24060006 TGTTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAATTAAAAATAATTGTAAAA
Found at i:24060091 original size:23 final size:23
Alignment explanation
Indices: 24060064--24060109 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24060054 TTAAATTAAC
*
24060064 AATTTTTACCA-TTTTTAATGAAT
1 AATTTTTACAACTTTTTAA-GAAT
24060087 AATTTTTACAACTTTTTAAGAAT
1 AATTTTTACAACTTTTTAAGAAT
24060110 TTTCATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTTTTACAACTTTTTAAGAAT
Found at i:24060519 original size:16 final size:17
Alignment explanation
Indices: 24060498--24060536 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
24060488 TAATAATGAA
24060498 ATATT-ATAGACCCAAT
1 ATATTAATAGACCCAAT
*
24060514 ATATTAAATAGGCCCAAT
1 ATATT-AATAGACCCAAT
24060532 ATATT
1 ATATT
24060537 CTGTAAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (17 bp):
ATATTAATAGACCCAAT
Found at i:24061170 original size:99 final size:99
Alignment explanation
Indices: 24060999--24061194 Score: 320
Period size: 99 Copynumber: 2.0 Consensus size: 99
24060989 TCCCTTTTGC
*
24060999 CTTTCCGAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACTTTC
1 CTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACTTTC
* ** *
24061064 AAGAGATAGGTTGACTTGGGCAGATTTGAAGTGT
66 AAGAGATAAGTTGACTTAAGCAGATTTAAAGTGT
* *
24061098 CTTTCCAAGTTACTTCCGTTTTATTTCGGTGGCTTAGAGAATTTCCCTTGAGAATTCTCACTTTC
1 CTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACTTTC
*
24061163 AAGAGATAAGTTGTCTTAAGCAGATTTAAAGT
66 AAGAGATAAGTTGACTTAAGCAGATTTAAAGT
24061195 AAAGATATCT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (99 bp):
CTTTCCAAGTTACTTCCGCTTTATTTCGGTGCCTTAGAGAATTTCCCTTGAGAATTCTCACTTTC
AAGAGATAAGTTGACTTAAGCAGATTTAAAGTGT
Found at i:24061438 original size:26 final size:25
Alignment explanation
Indices: 24061393--24061442 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
24061383 TAACACTGGC
* *
24061393 TATGTTTTTAATGTAGTGTTTGTTAT
1 TATGATTTTAATGTAATG-TTGTTAT
*
24061419 TATGATTTTAATTTAATGTTGTTA
1 TATGATTTTAATGTAATGTTGTTA
24061443 GTGTTATTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (25 bp):
TATGATTTTAATGTAATGTTGTTAT
Found at i:24064240 original size:16 final size:16
Alignment explanation
Indices: 24064219--24064263 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
24064209 TTTTAAAACT
24064219 TATATTTAGATATAAA
1 TATATTTAGATATAAA
*
24064235 TATATTT--ATATGAA
1 TATATTTAGATATAAA
24064249 TATATCTTAGATATA
1 TATAT-TTAGATATA
24064264 TTTGCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 11 0.46
15 2 0.08
16 7 0.29
17 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (16 bp):
TATATTTAGATATAAA
Found at i:24064380 original size:65 final size:65
Alignment explanation
Indices: 24064309--24064436 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
24064299 AACCAAAATA
* *
24064309 ATATATAATTTATGAAGAAACTAAAAATTAGATTATAAATAT-ATATGTGAAAAATATTTAAATG
1 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATAT-TGAAAAATATTTAAATG
24064373 T
65 T
24064374 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATGCATATTGAAAAATATTTAAA
1 ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATAT-CATATTGAAAAATATTTAAA
24064437 AACAATGATA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
65 40 0.68
66 15 0.25
67 4 0.07
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (65 bp):
ATATATAATTTATCAAGAAACTAAAAATTAGAGTATAAATATCATATTGAAAAATATTTAAATGT
Found at i:24064688 original size:14 final size:14
Alignment explanation
Indices: 24064671--24064699 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24064661 GTATTTAGTT
24064671 TTGTGCTAGAACCA
1 TTGTGCTAGAACCA
24064685 TTGTGCTAGAACCA
1 TTGTGCTAGAACCA
24064699 T
1 T
24064700 AGAGATTTGT
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:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (14 bp):
TTGTGCTAGAACCA
Found at i:24067338 original size:15 final size:15
Alignment explanation
Indices: 24067299--24067339 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
24067289 CAAGAAATCC
24067299 AAAACAAACCCAAAT
1 AAAACAAACCCAAAT
* *
24067314 AGAACCAACCCAAAT
1 AAAACAAACCCAAAT
*
24067329 AAAAAAAACCC
1 AAAACAAACCC
24067340 CAAGCCCAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.63, C:0.29, G:0.02, T:0.05
Consensus pattern (15 bp):
AAAACAAACCCAAAT
Found at i:24067442 original size:16 final size:18
Alignment explanation
Indices: 24067421--24067456 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
24067411 CCAGAAAGAA
24067421 GGAAAAAGAA-AA-AAAG
1 GGAAAAAGAAGAAGAAAG
24067437 GGAAAAAGAAGAAGAAAG
1 GGAAAAAGAAGAAGAAAG
24067455 GG
1 GG
24067457 GCCCAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAAAGAAGAAGAAAG
Found at i:24067527 original size:5 final size:5
Alignment explanation
Indices: 24067517--24067545 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
24067507 CATGAAAACA
24067517 CCCAC CCCAC CCCAC CCCAC CCCAC CCCA
1 CCCAC CCCAC CCCAC CCCAC CCCAC CCCA
24067546 AATTCTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.79, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCAC
Found at i:24074352 original size:30 final size:28
Alignment explanation
Indices: 24074303--24074358 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
24074293 AAAATAGATC
*
24074303 AATATAAATAAATATTTATATATAATGA
1 AATATAAATAAAAATTTATATATAATGA
*
24074331 AATATAAATAGAACAATTTATATTTAAT
1 AATATAAATA-AA-AATTTATATATAAT
24074359 TTGTGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 12 0.50
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (28 bp):
AATATAAATAAAAATTTATATATAATGA
Found at i:24078634 original size:10 final size:10
Alignment explanation
Indices: 24078617--24078658 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
24078607 AATTTAATTC
24078617 TTTTCTTTTA
1 TTTTCTTTTA
*
24078627 TGTTCTTTTAA
1 TTTTCTTTT-A
24078638 TTTTCTTTT-
1 TTTTCTTTTA
24078647 TTTTCTTTTA
1 TTTTCTTTTA
24078657 TT
1 TT
24078659 CTCCATTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 9 0.32
10 10 0.36
11 9 0.32
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:24079492 original size:21 final size:21
Alignment explanation
Indices: 24079468--24079511 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24079458 CTTCAACGAA
24079468 AACCCAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
*
24079489 AACCTAGAATAAAGATTTTTT
1 AACCCAGAATAAAGATTTTTT
24079510 AA
1 AA
24079512 TCTTTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (21 bp):
AACCCAGAATAAAGATTTTTT
Found at i:24083486 original size:3 final size:3
Alignment explanation
Indices: 24083415--24083475 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
24083405 AGATGGAGGA
24083415 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24083463 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
24083476 CTTTAAGAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24085272 original size:40 final size:40
Alignment explanation
Indices: 24085228--24085436 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
24085218 GTGCTCATGA
* *
24085228 TTGTACTTCGGTACCCCTGAATGCAGATACGTGCCCCTTT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
* * *
24085268 TTGTACTTCGATACCCCTGAATGCACATATGTGCCCCTGA
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
* * * *
24085308 TTGTACTTCAGTA-CCCTAAATGCACATACGTGCCCTTAT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
* * * * *
24085347 TTATACTTTGGTACCCTTGAATGCATATACGTGCCCCTGA
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
* * * *
24085387 TTGTACTTCGGTACCCTTGAATACATATACGTGCCCCTAT
1 TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
24085427 TTGTACTTCG
1 TTGTACTTCG
24085437 AAACTCCTTA
Statistics
Matches: 142, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 31 0.22
40 111 0.78
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (40 bp):
TTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGT
Found at i:24100034 original size:17 final size:17
Alignment explanation
Indices: 24100012--24100048 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
24100002 GATAAGTATA
*
24100012 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
24100029 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
24100046 CAT
1 CAT
24100049 GATTAGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.08, T:0.51
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:24104110 original size:17 final size:18
Alignment explanation
Indices: 24104077--24104110 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24104067 ATGATGTACC
24104077 AAACTATATTCATGCTTG
1 AAACTATATTCATGCTTG
*
24104095 AAACTAT-TTGATGCTT
1 AAACTATATTCATGCTT
24104111 ACTATTCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
AAACTATATTCATGCTTG
Found at i:24105840 original size:55 final size:55
Alignment explanation
Indices: 24105781--24105886 Score: 176
Period size: 55 Copynumber: 1.9 Consensus size: 55
24105771 GATTTTTTGG
* * *
24105781 TGAAATTGTAGTTGGGGATTAAATTGTTAAAATTATAAATCCATGGGTTTTTTAA
1 TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTTTTAA
*
24105836 TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTT
1 TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTT
24105887 ACTATGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.42
Consensus pattern (55 bp):
TGAAATTGTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTTTTAA
Found at i:24105894 original size:55 final size:55
Alignment explanation
Indices: 24105781--24105899 Score: 168
Period size: 55 Copynumber: 2.2 Consensus size: 55
24105771 GATTTTTTGG
* * * * *
24105781 TGAAATTGTAGTTGGGGATTAAATTGTTAAAATTATAAATCCATGGGTTTTTTAA
1 TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTTCTAA
24105836 TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTTACT-A
1 TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTT-CTAA
*
24105891 TGAATTTTT
1 TGAAATTTT
24105900 GATAATTATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 56 0.98
56 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (55 bp):
TGAAATTTTAGTTAGGGACTAAATTGTTAAAATTATAAATCCATAGGTTTTCTAA
Found at i:24112863 original size:32 final size:32
Alignment explanation
Indices: 24112822--24112886 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24112812 AATGAAAGCT
24112822 TTTGTTGTATGCCATTATGGTTGAGAGGTCTA
1 TTTGTTGTATGCCATTATGGTTGAGAGGTCTA
24112854 TTTGTTGTATGCCATTATGGTTGAGAGGTCTA
1 TTTGTTGTATGCCATTATGGTTGAGAGGTCTA
24112886 T
1 T
24112887 CAATGTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.09, G:0.28, T:0.45
Consensus pattern (32 bp):
TTTGTTGTATGCCATTATGGTTGAGAGGTCTA
Found at i:24114422 original size:3 final size:3
Alignment explanation
Indices: 24114414--24114469 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
24114404 TATTTGATTC
24114414 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24114462 AAG AAG AA
1 AAG AAG AA
24114470 AATAAAACAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24121110 original size:37 final size:37
Alignment explanation
Indices: 24120997--24121113 Score: 100
Period size: 38 Copynumber: 3.1 Consensus size: 37
24120987 TAGATCTCTT
* *
24120997 TAAATATGGTAACTTGATCACACATAAATTCTTCAAA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCATA
* *
24121034 TAAAATCAT-TGAA--TGAT-ACTCA-ACAATATCATGTCCATA
1 T-AAAT-ATGTTAACTTGATCACACATA-AAT-TC-T-T-CATA
24121073 TAAATATGTTAACTTGATCACACATAAATTCTTCATA
1 TAAATATGTTAACTTGATCACACATAAATTCTTCATA
24121110 TAAA
1 TAAA
24121114 ATCATTGAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
34 1 0.02
35 7 0.11
36 6 0.10
37 12 0.19
38 15 0.24
39 7 0.11
40 6 0.10
41 7 0.11
42 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (37 bp):
TAAATATGTTAACTTGATCACACATAAATTCTTCATA
Found at i:24121123 original size:76 final size:76
Alignment explanation
Indices: 24120997--24121151 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
24120987 TAGATCTCTT
24120997 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
*
24121062 TCATGTCCATA
66 TCATATCCATA
* * *
24121073 TAAATATGTTAACTTGATCACACATAAATTCTTCATATAAAATCATTGAATGATATTCAACAATA
1 TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
24121138 TCATATCCATA
66 TCATATCCATA
24121149 TAA
1 TAA
24121152 TTGTTCCTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (76 bp):
TAAATATGGTAACTTGATCACACATAAATTCTTCAAATAAAATCATTGAATGATACTCAACAATA
TCATATCCATA
Found at i:24123519 original size:511 final size:511
Alignment explanation
Indices: 24122558--24123579 Score: 2035
Period size: 511 Copynumber: 2.0 Consensus size: 511
24122548 GATCCGCATG
24122558 AAGATAATTAGTTGGAGGTGGTGTTTTTAAGTAACAATGTGAACCATTTGAATTAAAAAATAATA
1 AAGATAATTAGTTGGAGGTGGTGTTTTTAAGTAACAATGTGAACCATTTGAATTAAAAAATAATA
*
24122623 TTTTAAAAGTAAATAATAAAATCAGATACAAATTTTAATTATATTAGAAAAATCAAAATACCTTT
66 TTATAAAAGTAAATAATAAAATCAGATACAAATTTTAATTATATTAGAAAAATCAAAATACCTTT
24122688 TAGATTCAACTTTTTCCTTTGGAGCAACGTCAATCCATTAATTATATCAATGTGCATTTATATTC
131 TAGATTCAACTTTTTCCTTTGGAGCAACGTCAATCCATTAATTATATCAATGTGCATTTATATTC
24122753 TATGACATATGGATTAAGAGTGAAATATCGAAGAGAATGAATTTAGAGTATGAGTAGGATACGAT
196 TATGACATATGGATTAAGAGTGAAATATCGAAGAGAATGAATTTAGAGTATGAGTAGGATACGAT
24122818 ATAATTGTGTCTAATGCAGCTACATTATTTATTTAAATTCCTTTTTCCATACTCATGTACATATT
261 ATAATTGTGTCTAATGCAGCTACATTATTTATTTAAATTCCTTTTTCCATACTCATGTACATATT
24122883 ATATATGCAAACTATGCAAGTGAAATAAGCCTATTAAAATTAAACAATAGAGTATGATGAAAGAA
326 ATATATGCAAACTATGCAAGTGAAATAAGCCTATTAAAATTAAACAATAGAGTATGATGAAAGAA
24122948 TAATGAAGGTTATTTGTGAAAGCCTTTGGTCTTGATTTGGTCTACAGATATAGGTCCAGAAAGTC
391 TAATGAAGGTTATTTGTGAAAGCCTTTGGTCTTGATTTGGTCTACAGATATAGGTCCAGAAAGTC
24123013 AAATGATTTGGTTTTTAGGGGTTTGAATTCTATAACTCTGAATGATAGGCGACTTT
456 AAATGATTTGGTTTTTAGGGGTTTGAATTCTATAACTCTGAATGATAGGCGACTTT
24123069 AAGATAATTAGTTGGAGGTGGTGTTTTTAAGTAACAATGTGAACCATTTGAATTAAAAAATAATA
1 AAGATAATTAGTTGGAGGTGGTGTTTTTAAGTAACAATGTGAACCATTTGAATTAAAAAATAATA
24123134 TTATAAAAGTAAATAATAAAATCAGATACAAATTTTAATTATATTAGAAAAATCAAAATACCTTT
66 TTATAAAAGTAAATAATAAAATCAGATACAAATTTTAATTATATTAGAAAAATCAAAATACCTTT
24123199 TAGATTCAACTTTTTCCTTTGGAGCAACGTCAATCCATTAATTATATCAATGTGCATTTATATTC
131 TAGATTCAACTTTTTCCTTTGGAGCAACGTCAATCCATTAATTATATCAATGTGCATTTATATTC
24123264 TATGACATATGGATTAAGAGTGAAATATCGAAGAGAATGAATTTAGAGTATGAGTAGGATACGAT
196 TATGACATATGGATTAAGAGTGAAATATCGAAGAGAATGAATTTAGAGTATGAGTAGGATACGAT
24123329 ATAATTGTGTCTAATGCAGCTACATTATTTATTTAAATTCCTTTTTCCATACTCATGTACATATT
261 ATAATTGTGTCTAATGCAGCTACATTATTTATTTAAATTCCTTTTTCCATACTCATGTACATATT
24123394 ATATATGCAAACTATGCAAGTGAAATAAGCCTATTAAAATTAAACAATAGAGTATGATGAAAGAA
326 ATATATGCAAACTATGCAAGTGAAATAAGCCTATTAAAATTAAACAATAGAGTATGATGAAAGAA
24123459 TAATGAAGGTTATTTGTGAAAGCCTTTGGTCTTGATTTGGTCTACAGATATAGGTCCAGAAAGTC
391 TAATGAAGGTTATTTGTGAAAGCCTTTGGTCTTGATTTGGTCTACAGATATAGGTCCAGAAAGTC
24123524 AAATGATTTGGTTTTTAGGGGTTTGAATTCTATAACTCTGAATGATAGGCGACTTT
456 AAATGATTTGGTTTTTAGGGGTTTGAATTCTATAACTCTGAATGATAGGCGACTTT
24123580 TTCACCAAAA
Statistics
Matches: 510, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
511 510 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (511 bp):
AAGATAATTAGTTGGAGGTGGTGTTTTTAAGTAACAATGTGAACCATTTGAATTAAAAAATAATA
TTATAAAAGTAAATAATAAAATCAGATACAAATTTTAATTATATTAGAAAAATCAAAATACCTTT
TAGATTCAACTTTTTCCTTTGGAGCAACGTCAATCCATTAATTATATCAATGTGCATTTATATTC
TATGACATATGGATTAAGAGTGAAATATCGAAGAGAATGAATTTAGAGTATGAGTAGGATACGAT
ATAATTGTGTCTAATGCAGCTACATTATTTATTTAAATTCCTTTTTCCATACTCATGTACATATT
ATATATGCAAACTATGCAAGTGAAATAAGCCTATTAAAATTAAACAATAGAGTATGATGAAAGAA
TAATGAAGGTTATTTGTGAAAGCCTTTGGTCTTGATTTGGTCTACAGATATAGGTCCAGAAAGTC
AAATGATTTGGTTTTTAGGGGTTTGAATTCTATAACTCTGAATGATAGGCGACTTT
Found at i:24130816 original size:56 final size:56
Alignment explanation
Indices: 24130730--24130843 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
24130720 ATCACACAAA
24130730 TCTTTCCTATTTCACTCTATTTTTACAAACTCCACAGTGATGTATCTACTTAACCC
1 TCTTTCCTATTTCACTCTATTTTTACAAACTCCACAGTGATGTATCTACTTAACCC
* **
24130786 TCTTTCCTATTTCACTCTATTTTTACAAACTTCGTAGTGATGTATCTACTTAACCC
1 TCTTTCCTATTTCACTCTATTTTTACAAACTCCACAGTGATGTATCTACTTAACCC
24130842 TC
1 TC
24130844 AACACGTATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.43
Consensus pattern (56 bp):
TCTTTCCTATTTCACTCTATTTTTACAAACTCCACAGTGATGTATCTACTTAACCC
Found at i:24142428 original size:29 final size:29
Alignment explanation
Indices: 24142395--24142639 Score: 368
Period size: 29 Copynumber: 8.4 Consensus size: 29
24142385 GATGGTCGAA
*
24142395 ACCATCCCTTTTCATATTCAATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
*
24142424 ACCATCCCTTTTTATATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
*
24142453 ACCATCCCTTTTTATATTCGATGGTCGA--
1 ACCATCCCTTTTCATATTCGATGGTC-ATC
* * *
24142481 AGCCATCCCTTTTCATTTTCGATGGTCGTT
1 A-CCATCCCTTTTCATATTCGATGGTCATC
*
24142511 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
*
24142540 ACCATCCCTTTTCATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
* *
24142569 ACCATCCCTTTTTATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCATC
24142598 ACCATCCCTTTTCATATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCATC
24142627 ACCATCCCTTTTC
1 ACCATCCCTTTTC
24142640 TTTAATCGAT
Statistics
Matches: 202, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
28 1 0.00
29 199 0.99
30 2 0.01
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.40
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCATC
Found at i:24160082 original size:25 final size:25
Alignment explanation
Indices: 24160053--24160112 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
24160043 CTAGATTATG
24160053 CCACAAAGGCAACATACAAAGTACA
1 CCACAAAGGCAACATACAAAGTACA
* * *
24160078 CCACAAAGGTAACATACAGAGTACG
1 CCACAAAGGCAACATACAAAGTACA
24160103 CCACAAAGGC
1 CCACAAAGGC
24160113 CAAATAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (25 bp):
CCACAAAGGCAACATACAAAGTACA
Found at i:24162369 original size:21 final size:22
Alignment explanation
Indices: 24162331--24162375 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
24162321 GTCAATTTGG
*
24162331 TATGTATATGTTTTTGGA-TTT
1 TATGTATATGTTTATGGACTTT
24162352 TATGTAT-TGTTTGATGGACTTT
1 TATGTATATGTTT-ATGGACTTT
24162374 TA
1 TA
24162376 GTGCCTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.58
Consensus pattern (22 bp):
TATGTATATGTTTATGGACTTT
Found at i:24169480 original size:54 final size:54
Alignment explanation
Indices: 24169393--24169516 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
24169383 GTGTATATTT
* * *
24169393 CACACGGCCTAAGACATGGCCATGTGCATCAAGTCAATGAGTTATACGGTCTAG
1 CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
* * * *
24169447 CACACGGCCTGCGACATGGTCGTGTGTCA-CAAGTCAAAGAGTTACACGGTCTGG
1 CACACGGCCTGAGACATGGCCATGTG-CATCAAGTCAAAGAGTTACACGGTCTAG
*
24169501 CACACGGCCTGTGACA
1 CACACGGCCTGAGACA
24169517 CAATCGTGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (54 bp):
CACACGGCCTGAGACATGGCCATGTGCATCAAGTCAAAGAGTTACACGGTCTAG
Found at i:24169547 original size:54 final size:54
Alignment explanation
Indices: 24169438--24169548 Score: 123
Period size: 54 Copynumber: 2.1 Consensus size: 54
24169428 AATGAGTTAT
*** * * *
24169438 ACGGTCTAGCACACGGCCTGCGACATGGTCGTGTGTCACAAGTCAAAGAGTTAC
1 ACGGTCTAGCACACGGCCTGCGACACAATCGTGTGACACAACTCAAAGAGATAC
* * * **
24169492 ACGGTCTGGCACACGGCCTGTGACACAATCGTGTGACCCAACTCAGTGAGATAC
1 ACGGTCTAGCACACGGCCTGCGACACAATCGTGTGACACAACTCAAAGAGATAC
24169546 ACG
1 ACG
24169549 ATTTAAGACA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.26, C:0.28, G:0.27, T:0.19
Consensus pattern (54 bp):
ACGGTCTAGCACACGGCCTGCGACACAATCGTGTGACACAACTCAAAGAGATAC
Found at i:24173447 original size:4 final size:4
Alignment explanation
Indices: 24173435--24173465 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
24173425 TAAAATTAGT
24173435 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
24173466 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:24190131 original size:34 final size:34
Alignment explanation
Indices: 24190088--24190160 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
24190078 AGAACAAAAC
*
24190088 CAATGATGCAAAAAGAAACCAGATATGATGTCTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
*** *
24190122 CAATGATGCAATCTGAAACCAAATATGATGTTTA
1 CAATGATGCAAAAAGAAACCAAATATGATGTCTA
24190156 CAATG
1 CAATG
24190161 TTGCTTCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (34 bp):
CAATGATGCAAAAAGAAACCAAATATGATGTCTA
Found at i:24192103 original size:23 final size:21
Alignment explanation
Indices: 24192052--24192105 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
24192042 TTATTTCACT
*
24192052 CAAATTTTCTTCCTTGCACCA
1 CAAATTTTCTTCCTTGCACAA
24192073 CAAATTTTCTTCCTTTAGCACAA
1 CAAATTTTCTTCC-TT-GCACAA
* *
24192096 GAATTTTTCT
1 CAAATTTTCT
24192106 AACAGTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 13 0.46
22 2 0.07
23 13 0.46
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (21 bp):
CAAATTTTCTTCCTTGCACAA
Found at i:24196655 original size:26 final size:27
Alignment explanation
Indices: 24196613--24196673 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
24196603 AATTTTAGAC
*
24196613 TTATTTTAA-ATATAGATTTTTTTAT-
1 TTATTATAACATATAGATTTTTTTATA
24196638 TT-TTATAACATATAAGATTTTTTTATA
1 TTATTATAACATAT-AGATTTTTTTATA
24196665 TTATTATAA
1 TTATTATAA
24196674 AAATATGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 6 0.19
26 12 0.39
27 2 0.06
28 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATTATAACATATAGATTTTTTTATA
Found at i:24198148 original size:24 final size:24
Alignment explanation
Indices: 24198116--24198162 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24198106 CGGTGTAAAG
* *
24198116 TCACAGCCATGTGACAGTTCTTAA
1 TCACAGCCATGCGACAATTCTTAA
24198140 TCACAGCCATGCGACAATTCTTA
1 TCACAGCCATGCGACAATTCTTA
24198163 TCTGTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (24 bp):
TCACAGCCATGCGACAATTCTTAA
Found at i:24200346 original size:106 final size:106
Alignment explanation
Indices: 24200158--24200367 Score: 357
Period size: 106 Copynumber: 2.0 Consensus size: 106
24200148 AAAAGAAAAT
* *
24200158 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTGTTTTGTTCTTCACCGAACCTCTATG
1 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTATTTTGTTCTTCACCGAACCTCCATG
* *
24200223 GAAGTATATTCATGGTTCGGTTATGCCTAAACCCTTGCAAG
66 GAAGTATATTCAAGGTTCGGCTATGCCTAAACCCTTGCAAG
*
24200264 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTATTTTGTTCTTCACTGAACCTCCATG
1 ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTATTTTGTTCTTCACCGAACCTCCATG
* *
24200329 GAAGTATATTCAAGGTTCGGCTATGCTTAAATCCTTGCA
66 GAAGTATATTCAAGGTTCGGCTATGCCTAAACCCTTGCA
24200368 TGGTAAGCTC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (106 bp):
ATTAAAAATATGAAAACATAATGTTTCTTCTCCATTTTTATTTTGTTCTTCACCGAACCTCCATG
GAAGTATATTCAAGGTTCGGCTATGCCTAAACCCTTGCAAG
Found at i:24201256 original size:35 final size:35
Alignment explanation
Indices: 24201205--24201304 Score: 137
Period size: 35 Copynumber: 2.9 Consensus size: 35
24201195 TACTCTCTAT
*
24201205 TTAGCGTGTTTTGGTTGGATTAGCTCTTATGAGCA
1 TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* *
24201240 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
* * * *
24201275 TTAGCATGTTATGGTTCGATTGGCTTTTAT
1 TTAGCGTGTTATGGTTGGATTAGCTCTTAT
24201305 AAAAATCTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.43
Consensus pattern (35 bp):
TTAGCGTGTTATGGTTGGATTAGCTCTTATGAGCA
Found at i:24211385 original size:29 final size:29
Alignment explanation
Indices: 24211338--24211401 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
24211328 AAACCCTGAA
*
24211338 TATATTATGTTATAAAATTATTA-TATTAAT
1 TATA-TATGTTATAAAATTATAATTA-TAAT
24211368 TATATATGTTA-AATAATTATAATTATAAT
1 TATATATGTTATAA-AATTATAATTATAAT
24211397 TATAT
1 TATAT
24211402 TAGTGCATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 2 0.06
29 23 0.74
30 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TATATATGTTATAAAATTATAATTATAAT
Found at i:24213464 original size:24 final size:24
Alignment explanation
Indices: 24213443--24213503 Score: 95
Period size: 25 Copynumber: 2.5 Consensus size: 24
24213433 AGTAAAATTT
*
24213443 TATTTTGGTTTTACAGGGAAATAA
1 TATTTTAGTTTTACAGGGAAATAA
*
24213467 TATTTTATTTTTTACAGGGAAATAA
1 TATTTTA-GTTTTACAGGGAAATAA
24213492 TATTTTAGTTTT
1 TATTTTAGTTTT
24213504 TTTCATGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 10 0.30
25 23 0.70
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (24 bp):
TATTTTAGTTTTACAGGGAAATAA
Found at i:24213485 original size:25 final size:26
Alignment explanation
Indices: 24213451--24213505 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
24213441 TTTATTTTGG
24213451 TTTTACAGGGAAATAATATTTTA-TT
1 TTTTACAGGGAAATAATATTTTAGTT
24213476 TTTTACAGGGAAATAATATTTTAGTT
1 TTTTACAGGGAAATAATATTTTAGTT
24213502 TTTT
1 TTTT
24213506 TCATGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (26 bp):
TTTTACAGGGAAATAATATTTTAGTT
Found at i:24215462 original size:57 final size:57
Alignment explanation
Indices: 24215374--24215487 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
24215364 AAAAGAATGA
*
24215374 ATAATATTAAAAAGACTTATTCTCATAGCTATTAGAATTTCTACCTTACCCTGATAG
1 ATAATATTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAG
24215431 ATAATATTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAG
1 ATAATATTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAG
24215488 GGATTCCTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (57 bp):
ATAATATTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAG
Found at i:24215499 original size:57 final size:57
Alignment explanation
Indices: 24215376--24215502 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 57
24215366 AAGAATGAAT
* * *
24215376 AATATTAAAAAGACTTATTCTCATAGCTATTAGAATTTCTACCTTACCCTGATAGAT
1 AATACTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAGAG
* *
24215433 AATATTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAGGG
1 AATACTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAGAG
* *
24215490 ATTCCTAAAAAGA
1 AATACTAAAAAGA
24215503 ATTTATAGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (57 bp):
AATACTAAAAAGACTTATTCTCATAGCTATTAGAATTACTACCTTACCCTGATAGAG
Found at i:24216008 original size:5 final size:5
Alignment explanation
Indices: 24215994--24216032 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
24215984 TCTGCATTTG
*
24215994 TTTAT CTTAT TTTAT TTTAT TTTAT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
24216033 TATCTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:24217060 original size:32 final size:32
Alignment explanation
Indices: 24217013--24217086 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
24217003 TTACACATAC
* * * *
24217013 ATATATATATCTATATCCATC-ATACATTTTT
1 ATATATATATATATATACATCTATAAATTTAT
*
24217044 ATAATATATATATATATACGTCTATAAATTTAT
1 AT-ATATATATATATATACATCTATAAATTTAT
24217077 ATATATATAT
1 ATATATATAT
24217087 GTACATAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 2 0.06
32 24 0.67
33 10 0.28
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.47
Consensus pattern (32 bp):
ATATATATATATATATACATCTATAAATTTAT
Found at i:24243880 original size:6 final size:6
Alignment explanation
Indices: 24243871--24243949 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
24243861 TTTATTTTAT
* * *
24243871 TTAATA TTAAT- TTAATTA TT-TTA TTTTATA TTAGTA TTAATA TTAATA
1 TTAATA TTAATA TTAA-TA TTAATA -TTAATA TTAATA TTAATA TTAATA
* * * *
24243919 TTAATA TAAAAA TTAAAA TTATTA TT-ATA TT
1 TTAATA TTAATA TTAATA TTAATA TTAATA TT
24243950 TTTTAAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
5 10 0.17
6 44 0.76
7 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAATA
Found at i:24247500 original size:14 final size:14
Alignment explanation
Indices: 24247481--24247511 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
24247471 ATACTAATGC
24247481 TAGCAGTGAAATAA
1 TAGCAGTGAAATAA
24247495 TAGCAGTGAAATAA
1 TAGCAGTGAAATAA
24247509 TAG
1 TAG
24247512 ACTAAGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.23, T:0.23
Consensus pattern (14 bp):
TAGCAGTGAAATAA
Found at i:24252168 original size:21 final size:19
Alignment explanation
Indices: 24252127--24252169 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
24252117 TGATTATATG
* *
24252127 TATTAATTAAAATATACTA
1 TATTAATTAAAATAAAATA
24252146 TATTATATTATAAATAAAATA
1 TATTA-ATTA-AAATAAAATA
24252167 TAT
1 TAT
24252170 AAGGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATTAAAATAAAATA
Found at i:24252450 original size:19 final size:19
Alignment explanation
Indices: 24252428--24252466 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
24252418 AAAGAAAGGT
24252428 AAAGTACAACAACAAAACA
1 AAAGTACAACAACAAAACA
* * *
24252447 AAAGTAGACCAACAAGACA
1 AAAGTACAACAACAAAACA
24252466 A
1 A
24252467 CAACAAAGGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.21, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAGTACAACAACAAAACA
Found at i:24256044 original size:4 final size:4
Alignment explanation
Indices: 24256020--24256072 Score: 63
Period size: 4 Copynumber: 13.2 Consensus size: 4
24256010 AACTTGAGCC
* * *
24256020 TTTA TTTA CTTA ATTA CTTA TTTA TTTA TTT- TTTA TTTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
24256068 TTTA T
1 TTTA T
24256073 GTACAAGCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 3 0.07
4 36 0.84
5 4 0.09
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:24256733 original size:28 final size:28
Alignment explanation
Indices: 24256693--24256749 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24256683 TATCCATACT
24256693 ATATGCACATGTTAAGGATGAGAAATCG
1 ATATGCACATGTTAAGGATGAGAAATCG
24256721 ATATGCACATGTTAAGGATGAGAAATCG
1 ATATGCACATGTTAAGGATGAGAAATCG
24256749 A
1 A
24256750 CTTCAGAGGG
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:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (28 bp):
ATATGCACATGTTAAGGATGAGAAATCG
Found at i:24258560 original size:20 final size:20
Alignment explanation
Indices: 24258535--24258572 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24258525 GAGAAAAAAG
24258535 GGTATGCCCACAGTGCATAC
1 GGTATGCCCACAGTGCATAC
24258555 GGTATGCCCACAGTGCAT
1 GGTATGCCCACAGTGCAT
24258573 CATTGAGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (20 bp):
GGTATGCCCACAGTGCATAC
Found at i:24267689 original size:14 final size:14
Alignment explanation
Indices: 24267666--24267704 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
24267656 ATATGCGGAA
24267666 ACAT-GAAATTAGG
1 ACATAGAAATTAGG
24267679 ACATAGAAATTAGG
1 ACATAGAAATTAGG
*
24267693 ACAAAGAAATTA
1 ACATAGAAATTA
24267705 TTAAAATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.54, C:0.08, G:0.18, T:0.21
Consensus pattern (14 bp):
ACATAGAAATTAGG
Found at i:24279647 original size:13 final size:13
Alignment explanation
Indices: 24279629--24279657 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24279619 CCATTCAATG
24279629 AGGAGGTCTTCAT
1 AGGAGGTCTTCAT
24279642 AGGAGGTCTTCAT
1 AGGAGGTCTTCAT
24279655 AGG
1 AGG
24279658 TCAACAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (13 bp):
AGGAGGTCTTCAT
Found at i:24290190 original size:16 final size:16
Alignment explanation
Indices: 24290171--24290201 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24290161 GCATTTTCAG
*
24290171 AAAACCTTGTTTTAGT
1 AAAACCATGTTTTAGT
24290187 AAAACCATGTTTTAG
1 AAAACCATGTTTTAG
24290202 CTAACGGTCG
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:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
AAAACCATGTTTTAGT
Found at i:24294626 original size:29 final size:27
Alignment explanation
Indices: 24294560--24294626 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
24294550 GAGTTTCACG
* *
24294560 TGTATAATTACACCAAATTAAAGTTTA
1 TGTATAATTACACCAAATCAAAGTTCA
*
24294587 TGTATACAATTACACATTAAATCAAAGTTCA
1 TGTAT--AATTACAC--CAAATCAAAGTTCA
24294618 TGTATAATT
1 TGTATAATT
24294627 TTGAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.37
Consensus pattern (27 bp):
TGTATAATTACACCAAATCAAAGTTCA
Found at i:24295422 original size:11 final size:11
Alignment explanation
Indices: 24295406--24295435 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24295396 GACTCGGTTT
24295406 CCACTTATATG
1 CCACTTATATG
24295417 CCACTTATATG
1 CCACTTATATG
*
24295428 CCAATTAT
1 CCACTTAT
24295436 CATACTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (11 bp):
CCACTTATATG
Found at i:24296482 original size:110 final size:110
Alignment explanation
Indices: 24296247--24296991 Score: 948
Period size: 110 Copynumber: 6.7 Consensus size: 110
24296237 GATACATAAT
**
24296247 TTCATGTATCGTGATCTT-TCATTTCAATTCATACACTATCGAAGGCTACACCATGAATATAAGA
1 TTCATGTATCGTGATCTTCT-ATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAA-A
* * *
24296311 TA-GA-CATATCATGCCATGGGTCTTAACCATATGGTCTTAGACACA
64 TACAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
24296356 TTCATTTATCGTGATCTTCTATTTCGATTCATACACTATCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * **
24296421 CAAGCATATCATGCTATGGTTCTTAACCACATGGTCTTACATGCA
66 CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
24296466 TTCATGTATCATGATCTACTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAGTA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * *
24296531 CAAACATATCATGCCATGGGTCTTAACCATATGGTGTTGCACACA
66 CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * *
24296576 TTCATTTATCGTGATCTTCCATTTTGATTCATACACTACCAAAGGCTACACCATGAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * * *
24296641 TGAA-CATATGATGCTATGGCTCTTAAACACATGGTCTTACACACA
66 -CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * *
24296686 TTCATGTATTGTGATCTACTATTTTGATTCATACACTATCGAAGGCTACACCATAAATATAAATA
1 TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * * *
24296751 CAAACATATCATGACATGGGTTTTAAACACATGGTCTTACACACA
66 CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
*
24296796 TTCATGTATCGTGATCTATC-ATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAAT
24296860 A-AAGACATATCATGCCATGGGTCTTAATCC-CATGGTCTTACACACA
65 ACAAG-CATATCATGCCATGGGTCTTAA-CCACATGGTCTTACACACA
* * * *
24296906 TTCAAGTATCATGATCTGAC-ATTTTGATTCATACACTATCGAATCGAAGGTTACACCATGAATA
1 TTCATGTATCGTGATCT-TCTATTTTGATTCATACAC--T---ATCGAAGGCTACACCATGAATA
* *
24296970 CAAATACAGGCATATCATGCCA
60 TAAATACAAGCATATCATGCCA
24296992 ATATGGTTAG
Statistics
Matches: 554, Mismatches: 68, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
108 3 0.01
109 62 0.11
110 444 0.80
111 4 0.01
112 1 0.00
115 38 0.07
116 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (110 bp):
TTCATGTATCGTGATCTTCTATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAGCATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:24298066 original size:21 final size:21
Alignment explanation
Indices: 24298027--24298066 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24298017 GCACTTGTAT
*
24298027 TGCTTTTTTTTTTCCTTTTTA
1 TGCTTTTTTTTTACCTTTTTA
24298048 TGCTTTTTTTTTA-CTTTTT
1 TGCTTTTTTTTTACCTTTTT
24298067 CACTTCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.78
Consensus pattern (21 bp):
TGCTTTTTTTTTACCTTTTTA
Found at i:24299105 original size:11 final size:12
Alignment explanation
Indices: 24299091--24299126 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
24299081 TTTTAAATTG
24299091 TTAAATTTAT-A
1 TTAAATTTATAA
24299102 TT-AATTTATAA
1 TTAAATTTATAA
24299113 TTAAATTT-TAA
1 TTAAATTTATAA
24299124 TTA
1 TTA
24299127 TTTTAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.30
11 11 0.48
12 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:24311640 original size:22 final size:21
Alignment explanation
Indices: 24311574--24311640 Score: 50
Period size: 22 Copynumber: 3.1 Consensus size: 21
24311564 TAATTTAGTC
24311574 ATTTTTATTTT-TTTAATATTT
1 ATTTTTATTTTGTTTAAT-TTT
* *
24311595 TTATTTTA-ATTG-TTACATTTTT
1 AT-TTTTATTTTGTTTA-A-TTTT
24311617 ATTTTTATTTTGTTTAATTCTT
1 ATTTTTATTTTGTTTAATT-TT
24311639 AT
1 AT
24311641 AGGTTCTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
21 13 0.37
22 18 0.51
23 4 0.11
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
ATTTTTATTTTGTTTAATTTT
Found at i:24315103 original size:28 final size:28
Alignment explanation
Indices: 24315059--24315136 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
24315049 TATTTAGATT
* * *
24315059 TTATTTAGTTTTCTTTTTCTTTTTC-TTC
1 TTATTT-GTTTTATTTTTATTTTTCATAC
24315087 TTATTTGTATTTA-TTTTATTTTTCATAC
1 TTATTTGT-TTTATTTTTATTTTTCATAC
*
24315115 TTATATGTTTTA-TTTTATTTTT
1 TTATTTGTTTTATTTTTATTTTT
24315137 ATTTTGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (28 bp):
TTATTTGTTTTATTTTTATTTTTCATAC
Found at i:24315126 original size:27 final size:27
Alignment explanation
Indices: 24315073--24315136 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
24315063 TTAGTTTTCT
* * *
24315073 TTTTCTTTTTCTTCTTATTTGTATTTA
1 TTTTATTTTTCTACTTATATGTATTTA
24315100 TTTTATTTTTCATACTTATATGT-TTTA
1 TTTTATTTTTC-TACTTATATGTATTTA
24315127 TTTTATTTTT
1 TTTTATTTTT
24315137 ATTTTGAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTATTTTTCTACTTATATGTATTTA
Found at i:24317545 original size:49 final size:49
Alignment explanation
Indices: 24317462--24317556 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
24317452 ATTTATTTAT
* *
24317462 AGGTTGAAAAACCTTATTCTAATCAATGTCAAATAGAAGTAGTGTAGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
* * *
24317511 AGGTTGAAACACCTTATTCTAATTAATATTAAATAGAAGAAGTGTA
1 AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTA
24317557 CTTCTATATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (49 bp):
AGGTTGAAAAACCTTATTCTAATCAATATCAAATAGAAGAAGTGTAGTA
Found at i:24322837 original size:30 final size:30
Alignment explanation
Indices: 24322801--24322861 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24322791 CAGATTTTAG
* * *
24322801 GAGCCACACGGGTTGGACACATGCCCATGT
1 GAGCCACACGAGCTGGACACACGCCCATGT
* *
24322831 GAGCCACATGAGCTGGACACACGGCCATGT
1 GAGCCACACGAGCTGGACACACGCCCATGT
24322861 G
1 G
24322862 CAAGCCCGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.15
Consensus pattern (30 bp):
GAGCCACACGAGCTGGACACACGCCCATGT
Found at i:24327408 original size:26 final size:26
Alignment explanation
Indices: 24327379--24327514 Score: 146
Period size: 26 Copynumber: 5.2 Consensus size: 26
24327369 GCCAACATAC
**
24327379 CAATATCGCAGCAAAACTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* *
24327405 CAATATTGCAGCAAGGTTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * *
24327431 CAGTATCACAGTAAGGCTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * **
24327457 TAGTATCGCAGCAAGGCTGCCAAAAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
* * *
24327483 CAGTATCACAGCAAAGCTGCCAGTAA
1 CAATATCGCAGCAAGGCTGCCAGTAA
24327509 CAATAT
1 CAATAT
24327515 ACTTCCTCCA
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 90 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (26 bp):
CAATATCGCAGCAAGGCTGCCAGTAA
Found at i:24327478 original size:52 final size:52
Alignment explanation
Indices: 24327382--24327514 Score: 176
Period size: 52 Copynumber: 2.6 Consensus size: 52
24327372 AACATACCAA
* * * * **
24327382 TATCGCAGCAAAACTGCCAGTAACAATATTGCAGCAAGGTTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
* * * *
24327434 TATCACAGTAAGGCTGCCAGTAATAGTATCGCAGCAAGGCTGCCAAAAACAG
1 TATCACAGCAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
24327486 TATCACAGCAAAGCTGCCAGTAACAATAT
1 TATCACAGCAAAGCTGCCAGTAACAATAT
24327515 ACTTCCTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (52 bp):
TATCACAGCAAAGCTGCCAGTAACAATATCGCAGCAAGGCTGCCAAAAACAG
Found at i:24340140 original size:26 final size:25
Alignment explanation
Indices: 24340098--24340163 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
24340088 AGTAAATAAC
24340098 AATTA-ATAATTAATATAATGCATATT
1 AATTATAT-ATTAATATAATGCATA-T
* *
24340124 AAATTAT-TATTATTATAATGGATAT
1 -AATTATATATTAATATAATGCATAT
24340149 AATTATATATTAATA
1 AATTATATATTAATA
24340164 ATTATCATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 6 0.18
25 8 0.24
26 14 0.41
27 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (25 bp):
AATTATATATTAATATAATGCATAT
Found at i:24340269 original size:29 final size:31
Alignment explanation
Indices: 24340217--24340278 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
24340207 GCTTTTTGAA
24340217 AATATTTACAAAAAGAGGCATCT-AATTTTT
1 AATATTTACAAAAAGAGGCATCTAAATTTTT
24340247 AATATTTACAAAAAGA-GCATCTAAATTTTT
1 AATATTTACAAAAAGAGGCATCTAAATTTTT
24340277 AA
1 AA
24340279 AAATATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (31 bp):
AATATTTACAAAAAGAGGCATCTAAATTTTT
Found at i:24353518 original size:25 final size:26
Alignment explanation
Indices: 24353478--24353526 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
24353468 TGAATTTGTT
24353478 TGTTCTTCAAATACTTTATTCTTTGC
1 TGTTCTTCAAATACTTTATTCTTTGC
* *
24353504 TGTTCTT-GAATACTTTTTTCTTT
1 TGTTCTTCAAATACTTTATTCTTT
24353527 TCAAGACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (26 bp):
TGTTCTTCAAATACTTTATTCTTTGC
Found at i:24354750 original size:117 final size:117
Alignment explanation
Indices: 24354570--24354845 Score: 437
Period size: 117 Copynumber: 2.4 Consensus size: 117
24354560 CATTCTAACA
*
24354570 GAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGT
1 GAGCAGATTGAAGCCACGACGGCGAATCGTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGT
*
24354635 GGAGTGAATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGCG
66 GGAGCGAATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGCG
* * *
24354687 GAGCAGATTGAAGCCACGACGGCGAATCGTATCTCCTTGGCGTTAAGGTTTGGATTAGTTGAAGT
1 GAGCAGATTGAAGCCACGACGGCGAATCGTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGT
* * *
24354752 GGAGCGGATTGAAGCTGTGGGCAGCGAGTCCTATCTCTTTGGCATTACAGTG
66 GGAGCGAATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGCG
* * *
24354804 GAGCAGATTGAAACCACGACGGTGAATCTTA-CTCCCCTGGCG
1 GAGCAGATTGAAGCCACGACGGCGAATCGTATCT-CCCTGGCG
24354846 GAGTAGTGGA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
116 2 0.01
117 144 0.99
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (117 bp):
GAGCAGATTGAAGCCACGACGGCGAATCGTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGT
GGAGCGAATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGCG
Found at i:24355011 original size:50 final size:50
Alignment explanation
Indices: 24354858--24355388 Score: 196
Period size: 50 Copynumber: 10.6 Consensus size: 50
24354848 GTAGTGGAAC
* * ** *
24354858 AGATTGAAGGTACGACGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
* ** ** ** * * *
24354908 TGATTGAAG-T-CGCAACGGCG-ATCTT-ACTCCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTACG--ACGGCGAATCTTGTTTCCCC-AACATTGTAATGAAAA
* *
24354957 AGATTGAAGCTACGACGGTGAATCTTGTTTCCCCAACATTGTAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
** * * ** ** ** * * *
24355007 AGATTGAAGCCGCAACGGTGAATCTT-ACTCCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCC-AACATTGTAATGAAAA
* * * *
24355057 AGATTGAAGCTACGACAGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
* * * * ** ** ** * * *
24355107 ATATTGAAGCCACAATGGCGAATCTT-ACTCCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCC-AACATTGTAATGAAAA
* ** ** *
24355157 TGATTGAAGCTACGACGG-GAAATCTCATTTCCCCAACATTACAATTAAAA
1 AGATTGAAGCTACGACGGCG-AATCTTGTTTCCCCAACATTGTAATGAAAA
** * ** ** * * * *
24355207 AGATTGAAGCCGCAACGGCGAATCTT-ACTCCCCTGGCAATGTAGTGGAAT
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCC-AACATTGTAATGAAAA
* * *
24355257 AGATTGAAGCTACGACGGCGAATCTTGTTTCTCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
** * * ** **** * * * * *
24355307 AGATTGAAGCCGCAACGGTGAATCTTACTTCCTTGGCAGTATAGTGGAAC
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
*
24355357 AGATTGAAGCTACGACGGTGAATCTTGTTTCC
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCC
24355389 TGACATATCA
Statistics
Matches: 322, Mismatches: 144, Indels: 30
0.65 0.29 0.06
Matches are distributed among these distances:
48 7 0.02
49 40 0.12
50 254 0.79
51 21 0.07
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGTAATGAAAA
Found at i:24355085 original size:100 final size:100
Alignment explanation
Indices: 24354808--24355388 Score: 842
Period size: 100 Copynumber: 5.8 Consensus size: 100
24354798 ACAGTGGAGC
* * * * * *
24354808 AGATTGAAACCACGACGGTGAATCTTACTCCCCTGGCGGAGTAGTGGAACAGATTGAAGGTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
24354873 CGGTGAATCTTGTTTCCCCAACATTACAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
24354908 TGATTGAAGTCGCAACGGCG-ATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
*
24354972 CGGTGAATCTTGTTTCCCCAACATTGTAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* *
24355007 AGATTGAAGCCGCAACGGTGAATCTTACTCCCCTGGCGGTGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* * *
24355072 CAGCGAATCTTGTTTCCCTAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * **
24355107 ATATTGAAGCCACAATGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAATTGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
** *
24355172 CGG-GAAATCTCATTTCCCCAACATTACAATTAAAA
66 CGGTG-AATCTTGTTTCCCCAACATTGCAATTAAAA
** *
24355207 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCAATGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
24355272 CGGCGAATCTTGTTTCTCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * *
24355307 AGATTGAAGCCGCAACGGTGAATCTTACTTCCTTGGCAGTATAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
24355372 CGGTGAATCTTGTTTCC
66 CGGTGAATCTTGTTTCC
24355389 TGACATATCA
Statistics
Matches: 432, Mismatches: 46, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
99 93 0.22
100 338 0.78
101 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:24355644 original size:45 final size:45
Alignment explanation
Indices: 24355594--24355716 Score: 124
Period size: 45 Copynumber: 2.7 Consensus size: 45
24355584 GTCATATCAG
**
24355594 GTCTTATCACCCT-AAAGTTACAGAGGAGCAGACCCAAGAAAGTGA
1 GTCTTATCACCCTGAAA-TTACAGAGGAGCAGACCCAAGAAAGCAA
* * * *
24355639 GTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTCAAGAAAGCAA
1 GTCTTATCACCCTGAAATTACAGAGGAGCAGACCCAAGAAAGCAA
* * * *
24355684 GTCTTAGC-CTCCTGAAATTGCAGTGGGGCAGAC
1 GTCTTATCAC-CCTGAAATTACAGAGGAGCAGAC
24355717 TGAATAAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 64 0.94
46 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (45 bp):
GTCTTATCACCCTGAAATTACAGAGGAGCAGACCCAAGAAAGCAA
Found at i:24355717 original size:45 final size:45
Alignment explanation
Indices: 24355618--24355717 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
24355608 AAGTTACAGA
* ** *
24355618 GGAGCAGACCCAAGAAAGTGAGTCTTATCTCCCTGAAATTGCAGT
1 GGAGCAGACTCAAGAAAGCAAGTCTTACCTCCCTGAAATTGCAGT
24355663 GGAGCAGACTCAAGAAAGCAAGTCTTAGCCT-CCTGAAATTGCAGT
1 GGAGCAGACTCAAGAAAGCAAGTCTTA-CCTCCCTGAAATTGCAGT
*
24355708 GGGGCAGACT
1 GGAGCAGACT
24355718 GAATAAACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
45 47 0.96
46 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (45 bp):
GGAGCAGACTCAAGAAAGCAAGTCTTACCTCCCTGAAATTGCAGT
Found at i:24367113 original size:33 final size:33
Alignment explanation
Indices: 24367076--24367142 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
24367066 ATCAGTTAGA
24367076 AGTAAAGGCTTACACTACTGTGACTGATGAATC
1 AGTAAAGGCTTACACTACTGTGACTGATGAATC
24367109 AGTAAAGGCTTACACTACTGTGACTGATGAATC
1 AGTAAAGGCTTACACTACTGTGACTGATGAATC
24367142 A
1 A
24367143 TGTTTATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (33 bp):
AGTAAAGGCTTACACTACTGTGACTGATGAATC
Found at i:24371347 original size:30 final size:30
Alignment explanation
Indices: 24371306--24371373 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
24371296 ATTTTGGGCA
24371306 GATAC-TTTTATTCCTATAGAAACTTGGCG
1 GATACTTTTTATTCCTATAGAAACTTGGCG
24371335 GATACTTTTTATTCCTATAGAAACTTGGCG
1 GATACTTTTTATTCCTATAGAAACTTGGCG
24371365 GATACTTTT
1 GATACTTTT
24371374 AATTTCGGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 5 0.13
30 33 0.87
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (30 bp):
GATACTTTTTATTCCTATAGAAACTTGGCG
Found at i:24378671 original size:9 final size:10
Alignment explanation
Indices: 24378655--24378707 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
24378645 CGTGTGAACC
24378655 ATTTTTTTCA
1 ATTTTTTTCA
*
24378665 ATTTTTTTCT
1 ATTTTTTTCA
24378675 ATTTTTTTCAAA
1 ATTTTTTTC--A
**
24378687 AGATTTTTCA
1 ATTTTTTTCA
24378697 ATTTTTTTCA
1 ATTTTTTTCA
24378707 A
1 A
24378708 ACGTTATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 28 0.80
12 7 0.20
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (10 bp):
ATTTTTTTCA
Found at i:24378716 original size:24 final size:22
Alignment explanation
Indices: 24378667--24378727 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 22
24378657 TTTTTTCAAT
24378667 TTTTTTCTATTTTTTTCAAAAGA
1 TTTTTTC-ATTTTTTTCAAAAGA
*
24378690 -TTTTTCAATTTTTTTCAAACGTTA
1 TTTTTTC-ATTTTTTTCAAAAG--A
24378714 TTTTTTCATTTTTT
1 TTTTTTCATTTTTT
24378728 AATATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 19 0.58
24 8 0.24
25 6 0.18
ACGTcount: A:0.21, C:0.10, G:0.03, T:0.66
Consensus pattern (22 bp):
TTTTTTCATTTTTTTCAAAAGA
Found at i:24380289 original size:27 final size:27
Alignment explanation
Indices: 24380231--24380409 Score: 216
Period size: 27 Copynumber: 6.7 Consensus size: 27
24380221 GGGTATAACA
* * *
24380231 GTCATTTTATCCTAT-GAGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
24380257 GACATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
24380284 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
24380311 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
24380338 ATCATCTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
24380365 GTCAATTTACCATATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
24380392 GTTATTTTATCCTATGGG
1 GTCATTTTACCCTATGGG
24380410 CTATTTTAGT
Statistics
Matches: 128, Mismatches: 24, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
26 13 0.10
27 115 0.90
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:24380325 original size:54 final size:53
Alignment explanation
Indices: 24380231--24380431 Score: 192
Period size: 54 Copynumber: 3.8 Consensus size: 53
24380221 GGGTATAACA
* * * * *
24380231 GTCATTTTATCCTAT-GAGGTATTTCAGACATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTA-CCTATGGGGGTATTTCG
24380284 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTA-CCTATGGGGGTATTTCG
* * * * *
24380338 ATCA-TCTTACCCTATGGGGGTATTTTGGTCAATTTACCATATGAGGGTATTTCA
1 GTCATTC-TACCCTATGGGGGTATTTCGGTCATTTTACC-TATGGGGGTATTTCG
* * * * ** *
24380392 GTTATTTTATCCTAT-GGGCTATTTTAGTTATTTTACCTAT
1 GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTAT
24380432 TTTAGGGTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.02
53 35 0.28
54 86 0.69
55 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (53 bp):
GTCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTATGGGGGTATTTCG
Done.