Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 17
Found at i:2443904 original size:53 final size:51
Alignment explanation
Indices: 2443821--2444012 Score: 179
Period size: 53 Copynumber: 3.6 Consensus size: 51
2443811 GCTAATTTCA
*
2443821 GCTAATTAGTCC-ATATCAAGATTAAGCCTAGTGATGCTAGTAATCTAGTTTTG
1 GCTAATTAG-CCAATATCAAGATTAAGCCTAGTGAAG-TAGTAA-CTAGTTTTG
** * *
2443874 GCTAATTTTCCAATATCAAGATTAAGCCTAGTGAAGTTGATAGACTAGTTTCG
1 GCTAATTAGCCAATATCAAGATTAAGCCTAGTGAAGTAG-TA-ACTAGTTTTG
* * * * *
2443927 GCTAATTAGCCAATTTCAAGATTAAACCTACTAAAGAAAGTAAGCTAGTTTTG
1 GCTAATTAGCCAATATCAAGATTAAGCCTAGTGAAG-TAGTAA-CTAGTTTTG
* * * *
2443980 ACTAATTGGCCTATTTCAAGATTTAAGCCTAGT
1 GCTAATTAGCCAATATCAAGA-TTAAGCCTAGT
2444013 AATACTGGTA
Statistics
Matches: 114, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
52 5 0.04
53 98 0.86
54 11 0.10
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (51 bp):
GCTAATTAGCCAATATCAAGATTAAGCCTAGTGAAGTAGTAACTAGTTTTG
Found at i:2443931 original size:106 final size:107
Alignment explanation
Indices: 2443816--2444012 Score: 245
Period size: 106 Copynumber: 1.9 Consensus size: 107
2443806 AGTTGGCTAA
* * * * ** * *
2443816 TTTCAGCTAATTAGTCC-ATATCAAGATTAAGCCTAGTGATGCTAGTAATCTAGTTTTGGCTAAT
1 TTTCAGCTAATTAG-CCAATATCAAGATTAAACCTACTAAAGAAAGTAAGCTAGTTTTGACTAAT
**
2443880 TTTCCAATATCAAGA-TTAAGCCTAGTGAAGTTGATAGACTAG
65 TGGCCAATATCAAGATTTAAGCCTAGTGAAGTTGATAGACTAG
* *
2443922 TTTCGGCTAATTAGCCAATTTCAAGATTAAACCTACTAAAGAAAGTAAGCTAGTTTTGACTAATT
1 TTTCAGCTAATTAGCCAATATCAAGATTAAACCTACTAAAGAAAGTAAGCTAGTTTTGACTAATT
* *
2443987 GGCCTATTTCAAGATTTAAGCCTAGT
66 GGCCAATATCAAGATTTAAGCCTAGT
2444013 AATACTGGTA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
105 2 0.03
106 62 0.83
107 11 0.15
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (107 bp):
TTTCAGCTAATTAGCCAATATCAAGATTAAACCTACTAAAGAAAGTAAGCTAGTTTTGACTAATT
GGCCAATATCAAGATTTAAGCCTAGTGAAGTTGATAGACTAG
Found at i:2444372 original size:64 final size:64
Alignment explanation
Indices: 2444263--2444397 Score: 159
Period size: 64 Copynumber: 2.1 Consensus size: 64
2444253 GTATTCCTTA
* **
2444263 TTTTAAGTCGAATCTACTTTCCAAAATATAGGTTGACCCTTGGAATAAAGTCTAGGTAATTTTC
1 TTTTAAGTCGAATCTACTTTCCAAAATATAGGTTGACCCTTGGAATAAAGTCAAACTAATTTTC
* * * *
2444327 TTTTAAGTCGAATCTA-TATTTCAAGAA-GTAGGTTGA-TCTTAGGAATAAAGTCAAACTATTTT
1 TTTTAAGTCGAATCTACT-TTCCAA-AATATAGGTTGACCCTT-GGAATAAAGTCAAACTAATTT
2444389 TC
63 TC
2444391 TTTTAAG
1 TTTTAAG
2444398 CAAAATCTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
63 4 0.07
64 55 0.90
65 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (64 bp):
TTTTAAGTCGAATCTACTTTCCAAAATATAGGTTGACCCTTGGAATAAAGTCAAACTAATTTTC
Found at i:2444559 original size:129 final size:128
Alignment explanation
Indices: 2444263--2444612 Score: 338
Period size: 129 Copynumber: 2.7 Consensus size: 128
2444253 GTATTCCTTA
* * *
2444263 TTTTAAGTCGAATCTACTTT-CCAAAATATAGGTT-GACCCTTGGAATAAAGTCTAGGTAATTTT
1 TTTTAAGTCAAATCTACTTTCCCAAAA-ATA-GTTCGAGCCTAGGAATAAAGTCTAGGTAATTTT
** * ** *
2444326 CTTTTAAGTCGAATCTATA-TTTC-AAGAAGTAGGTTGATCTTAGGAATAAAGTCAAACTATTTT
64 CTTTTAAGTCGAAT-T-TACTTTCTAAGAAGTAGGTCAAGCTTAACAACAAAGTCAAACTATTTT
2444389 TC
127 TC
* * * * * * *
2444391 TTTTAAG-CAAAATCTGCTCTCCAAAAAAGAGGTCAAGCCTAGGAATAAAGTTTAGGTAATTTTC
1 TTTTAAGTC-AAATCTACTTTCCCAAAAATAGTTCGAGCCTAGGAATAAAGTCTAGGTAATTTTC
* * * * *
2444455 TTTTTAAGTTGAATTTACTTTCTAAGAAGTAGGTCAAGCTTAACAGCGAAGTCTAAGTATTTTTC
65 -TTTTAAGTCGAATTTACTTTCTAAGAAGTAGGTCAAGCTTAACAACAAAGTCAAACTATTTTTC
* * * *
2444520 TTTTAAGTCAAACCTACTTTCCCAGAAATAGTTCGAGCCTA-GAGACAAAGTCTAGGT-ATGTTC
1 TTTTAAGTCAAATCTACTTTCCCAAAAATAGTTCGAGCCTAGGA-ATAAAGTCTAGGTAATTTTC
*
2444583 TTTTAAGTCGAATCTACCTTTCTAA-AAGTA
65 TTTTAAGTCGAATTTA-CTTTCTAAGAAGTA
2444613 AGTTAAGCCT
Statistics
Matches: 179, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
127 24 0.13
128 63 0.35
129 91 0.51
130 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (128 bp):
TTTTAAGTCAAATCTACTTTCCCAAAAATAGTTCGAGCCTAGGAATAAAGTCTAGGTAATTTTCT
TTTAAGTCGAATTTACTTTCTAAGAAGTAGGTCAAGCTTAACAACAAAGTCAAACTATTTTTC
Found at i:2449998 original size:22 final size:22
Alignment explanation
Indices: 2449959--2450000 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2449949 TTATGTAAAT
* **
2449959 AATTATTTTTAACGATAATTTA
1 AATTACTTTTAAAAATAATTTA
2449981 AATTACTTTTAAAAATAATT
1 AATTACTTTTAAAAATAATT
2450001 AATTTATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTACTTTTAAAAATAATTTA
Found at i:2453967 original size:30 final size:29
Alignment explanation
Indices: 2453907--2453967 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
2453897 TTATTGAAAA
* *
2453907 TTTTTAAAAATATATATAAATACTTTAATT
1 TTTTTAAAAAAATATATAAATAC-TAAATT
2453937 TTTTTAAAAAAATATTATAATATA-TAAATT
1 TTTTTAAAAAAATA-TATAA-ATACTAAATT
2453967 T
1 T
2453968 AATATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 19 0.70
31 5 0.19
32 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTTTAAAAAAATATATAAATACTAAATT
Found at i:2454469 original size:2 final size:2
Alignment explanation
Indices: 2454462--2454487 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2454452 TTTCCTTGAC
2454462 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2454488 ACATATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2456018 original size:20 final size:23
Alignment explanation
Indices: 2455972--2456019 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 23
2455962 ATTTGAATTG
2455972 TAATTTATATTAATTTTATTACA
1 TAATTTATATTAATTTTATTACA
*
2455995 -AATTTATA-T-ATTTT-TTTCA
1 TAATTTATATTAATTTTATTACA
2456014 TAATTT
1 TAATTT
2456020 TAAAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 10 0.43
21 1 0.04
22 8 0.35
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTTATATTAATTTTATTACA
Found at i:2456416 original size:2 final size:2
Alignment explanation
Indices: 2456409--2456434 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2456399 GAAAGAAAGG
2456409 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2456435 GAATCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2457604 original size:17 final size:18
Alignment explanation
Indices: 2457582--2457615 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
2457572 TTATCTTATT
2457582 AAATAAATTT-TAAATAA
1 AAATAAATTTATAAATAA
2457599 AAATAAATTTATAAATA
1 AAATAAATTTATAAATA
2457616 CATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAAATTTATAAATAA
Found at i:2464862 original size:12 final size:12
Alignment explanation
Indices: 2464845--2464876 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2464835 AATCGATGAC
2464845 AATTACGAGATA
1 AATTACGAGATA
2464857 AATTACGAGATA
1 AATTACGAGATA
*
2464869 CATTACGA
1 AATTACGA
2464877 CTAGTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
AATTACGAGATA
Found at i:2466785 original size:2 final size:2
Alignment explanation
Indices: 2466778--2466808 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2466768 CTCTTTTATT
*
2466778 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2466809 TACTTTAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:2466868 original size:24 final size:23
Alignment explanation
Indices: 2466835--2466881 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
2466825 ATTATCATAA
*
2466835 AATTTTTTTAAATAATAATAATT
1 AATTTTTTTAAATAAAAATAATT
2466858 AATTTATTTTAAATAAAAATAATT
1 AATTT-TTTTAAATAAAAATAATT
2466882 TAGTGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTTTTTAAATAAAAATAATT
Found at i:2466892 original size:24 final size:24
Alignment explanation
Indices: 2466841--2466892 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2466831 ATAAAATTTT
* * * *
2466841 TTTAAATAATAATAATTAATTTAT
1 TTTAAATAAAAATAATTAAGTGAG
*
2466865 TTTAAATAAAAATAATTTAGTGAG
1 TTTAAATAAAAATAATTAAGTGAG
2466889 TTTA
1 TTTA
2466893 TCTCAAAGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (24 bp):
TTTAAATAAAAATAATTAAGTGAG
Found at i:2470754 original size:19 final size:18
Alignment explanation
Indices: 2470727--2470819 Score: 80
Period size: 19 Copynumber: 5.6 Consensus size: 18
2470717 CAACGATTTA
*
2470727 TATCAATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
2470746 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
2470759 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
2470778 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
2470791 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
2470810 TATCGATACA
1 TATCGATACA
2470820 ATATAAGCTA
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.36
15 4 0.07
17 4 0.07
19 31 0.51
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:2470762 original size:13 final size:13
Alignment explanation
Indices: 2470744--2470800 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2470734 ACATAAGTGT
2470744 TGTATCGATACAA
1 TGTATCGATACAA
2470757 TGTATCGATACATAA
1 TGTATCGATAC--AA
2470772 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2470789 TGTATCGATACA
1 TGTATCGATACA
2470801 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2470768 original size:32 final size:32
Alignment explanation
Indices: 2470727--2470821 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
2470717 CAACGATTTA
*
2470727 TATCAATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
2470759 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
2470791 TATCGATACATAAGTTTTGTATCGATACAAT
1 TATCGATACATAAGTGTTGTATCGATACAAT
2470822 ATAAGCTACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:2470880 original size:13 final size:13
Alignment explanation
Indices: 2470862--2470886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2470852 ATTACTCAAA
2470862 TGTATCGATACAT
1 TGTATCGATACAT
2470875 TGTATCGATACA
1 TGTATCGATACA
2470887 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2471849 original size:21 final size:22
Alignment explanation
Indices: 2471816--2471856 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2471806 TCATTATAAC
2471816 AACTCATGATTCATGCATTTTG
1 AACTCATGATTCATGCATTTTG
*
2471838 AACT-ATGTTTCATGCATTT
1 AACTCATGATTCATGCATTT
2471857 ACAGCATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (22 bp):
AACTCATGATTCATGCATTTTG
Found at i:2480907 original size:54 final size:54
Alignment explanation
Indices: 2480836--2480946 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
2480826 ATTGGAAATA
*
2480836 AATATTGTAGATATCTGTGTGAGATTACACTAGCAATCTCTAAATTATCTAATC
1 AATATTGTAGATATCTGTGTGAGATTACACTAGCAATCTCTAAATTACCTAATC
2480890 AATATTGTAGATATCTGTGTGAGATTACACTAGCAATCTCTAAATTACCTAATC
1 AATATTGTAGATATCTGTGTGAGATTACACTAGCAATCTCTAAATTACCTAATC
2480944 AAT
1 AAT
2480947 CAGGAATTAG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (54 bp):
AATATTGTAGATATCTGTGTGAGATTACACTAGCAATCTCTAAATTACCTAATC
Found at i:2481753 original size:5 final size:5
Alignment explanation
Indices: 2481743--2481778 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
2481733 GGACGCCATG
2481743 CTGAA CTGAA CTGAA CTGAA CTGAA CTGAA CTGAA C
1 CTGAA CTGAA CTGAA CTGAA CTGAA CTGAA CTGAA C
2481779 ATCCTATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (5 bp):
CTGAA
Found at i:2483709 original size:56 final size:55
Alignment explanation
Indices: 2483620--2483726 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
2483610 AGATGAGTGG
*
2483620 ACATACTTTTAGAGAAGGGCAAGCAAACCTCCTAAG-TTCAAGCTTAAGAGACGTGA
1 ACATACTTTTAGAGAAGGGCAAGCAAACCTCCT-AGTTTCAAACTTAA-AGACGTGA
*
2483676 ACATACTTTTAGAGAAGGGCAAGCAAACTTCCTAGTTTCAAACTTAAAGAC
1 ACATACTTTTAGAGAAGGGCAAGCAAACCTCCTAGTTTCAAACTTAAAGAC
2483727 ACTTTCTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (55 bp):
ACATACTTTTAGAGAAGGGCAAGCAAACCTCCTAGTTTCAAACTTAAAGACGTGA
Found at i:2484862 original size:3 final size:3
Alignment explanation
Indices: 2484854--2484883 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2484844 TTTTAAAAGC
2484854 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2484884 GTAATACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2485172 original size:21 final size:20
Alignment explanation
Indices: 2485147--2485229 Score: 80
Period size: 21 Copynumber: 4.1 Consensus size: 20
2485137 AAAATGATAT
2485147 TAAAATTATTATAAATATTA
1 TAAAATTATTATAAATATTA
* *
2485167 TCAAAATTA-TATTGAATAATA
1 T-AAAATTATTA-TAAATATTA
*
2485188 TAAAATTATTACAAATATTA
1 TAAAATTATTATAAATATTA
* *
2485208 TTAAAATTAGTA-AAAAATTA
1 -TAAAATTATTATAAATATTA
2485228 TA
1 TA
2485230 TTAAAAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 23 0.44
21 27 0.52
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAATTATTATAAATATTA
Found at i:2485240 original size:41 final size:41
Alignment explanation
Indices: 2485126--2485240 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
2485116 TTTTTTTTGT
* * *
2485126 AAAATTTTAAAAAAATGATATTAAAATTATTATAAATATTATC
1 AAAATTAT-AAAAAATAATATTAAAA-TATTACAAATATTATC
*** *
2485169 AAAATTATATTGAATAATA-TAAAATTATTACAAATATTATT
1 AAAATTATAAAAAATAATATTAAAA-TATTACAAATATTATC
*
2485210 AAAATTAGTAAAAAATTATATTAAAA-ATTAC
1 AAAATTA-TAAAAAATAATATTAAAATATTAC
2485241 CAAACTTATT
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 32 0.54
42 15 0.25
43 12 0.20
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (41 bp):
AAAATTATAAAAAATAATATTAAAATATTACAAATATTATC
Found at i:2485310 original size:21 final size:20
Alignment explanation
Indices: 2485222--2485310 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
2485212 AATTAGTAAA
*
2485222 AAATTATATTAAAAATTACC
1 AAATTATATTAAAAGTTACC
2485242 AAACTTAT-TTCAAAAGTTA--
1 AAA-TTATATT-AAAAGTTACC
*
2485261 AAATTATATTAAAAG-TACTA
1 AAATTATATTAAAAGTTAC-C
*
2485281 AAATTATATTAATAGTTACC
1 AAATTATATTAAAAGTTACC
2485301 AAATTTATAT
1 AAA-TTATAT
2485311 CAATGATTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
17 2 0.03
18 9 0.16
19 5 0.09
20 22 0.38
21 20 0.34
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATTATATTAAAAGTTACC
Found at i:2485326 original size:42 final size:43
Alignment explanation
Indices: 2485279--2485449 Score: 114
Period size: 42 Copynumber: 4.2 Consensus size: 43
2485269 TTAAAAGTAC
2485279 TAAAATTATATTAATA-GTTACCAAATTTATATC-AATGATTAT
1 TAAAATTATATTAATAGGTTACCAAATTTATATCAAATG-TTAT
* ***
2485321 TAAAATTATATCAA-AGGTT---AAATTGTATA--AAAAAATAT
1 TAAAATTATATTAATAGGTTACCAAATT-TATATCAAATGTTAT
* * * *
2485359 TAAAATTATA-TAAAATGTTACCAAACTTATATCTAATGTTAT
1 TAAAATTATATTAATAGGTTACCAAATTTATATCAAATGTTAT
* * * *
2485401 TAAGATTATA-TAGA-ATGTTATCAAA-ATATATCAAATGTTAT
1 TAAAATTATATTA-ATAGGTTACCAAATTTATATCAAATGTTAT
*
2485442 CAAAATTA
1 TAAAATTA
2485450 AATAAAAAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
37 2 0.02
38 17 0.17
39 7 0.07
40 8 0.08
41 25 0.25
42 42 0.41
43 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (43 bp):
TAAAATTATATTAATAGGTTACCAAATTTATATCAAATGTTAT
Found at i:2485341 original size:80 final size:80
Alignment explanation
Indices: 2485246--2485411 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
2485236 ATTACCAAAC
* * * * *
2485246 TTATTTCAAAAGTTAAAATTATAT-TAAAAGTACTAAAATTATAT-TAATAGTTACCAAATTTAT
1 TTATATCAAAAGTT-AAATTATATAAAAAAATACTAAAATTATATAAAAT-GTTACCAAACTTAT
2485309 ATC-AATGATTATTAAAA
64 ATCTAATG-TTATTAAAA
* * *
2485326 TTATATCAAAGGTTAAATTGTATAAAAAAATATTAAAATTATATAAAATGTTACCAAACTTATAT
1 TTATATCAAAAGTTAAATTATATAAAAAAATACTAAAATTATATAAAATGTTACCAAACTTATAT
*
2485391 CTAATGTTATTAAGA
66 CTAATGTTATTAAAA
2485406 TTATAT
1 TTATAT
2485412 AGAATGTTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 8 0.11
80 59 0.80
81 7 0.09
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (80 bp):
TTATATCAAAAGTTAAATTATATAAAAAAATACTAAAATTATATAAAATGTTACCAAACTTATAT
CTAATGTTATTAAAA
Found at i:2485463 original size:41 final size:41
Alignment explanation
Indices: 2485386--2485468 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
2485376 TTACCAAACT
* * * * * **
2485386 TATATCTAATGTTATTAAGATTATATAGAATGTTATCAAAA
1 TATATCAAATGTTATCAAAATTAAATAAAAAATTATCAAAA
2485427 TATATCAAATGTTATCAAAATTAAATAAAAAATTATCAAAA
1 TATATCAAATGTTATCAAAATTAAATAAAAAATTATCAAAA
2485468 T
1 T
2485469 TACATTATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (41 bp):
TATATCAAATGTTATCAAAATTAAATAAAAAATTATCAAAA
Found at i:2485509 original size:21 final size:21
Alignment explanation
Indices: 2485221--2485511 Score: 97
Period size: 21 Copynumber: 14.3 Consensus size: 21
2485211 AAATTAGTAA
* * *
2485221 AAAATTATATTAAAAATTACC
1 AAAATTATATCAAATATTATC
* * *
2485242 AAACTTATTTCAAA-AGT-T-
1 AAAATTATATCAAATATTATC
* *
2485260 AAAATTATATTAAA-AGTA-C
1 AAAATTATATCAAATATTATC
* *
2485279 TAAAATTATAT-TAATAGTTACC
1 -AAAATTATATCAAATA-TTATC
* *
2485301 AAATTTATATC-AATGATTATT
1 AAAATTATATCAAAT-ATTATC
**
2485322 AAAATTATATCAAA-GGT-T-
1 AAAATTATATCAAATATTATC
* * * * *
2485340 -AAATTGTATAAAAAAATATT
1 AAAATTATATCAAATATTATC
* * *
2485360 AAAATTATATAAAATGTTACC
1 AAAATTATATCAAATATTATC
* * * *
2485381 AAACTTATATCTAATGTTATT
1 AAAATTATATCAAATATTATC
* *
2485402 AAGATTATAT-AGAATGTTATC
1 AAAATTATATCA-AATATTATC
*
2485423 AAAA-TATATCAAATGTTATC
1 AAAATTATATCAAATATTATC
* * *
2485443 AAAATTAAATAAAAAATTATC
1 AAAATTATATCAAATATTATC
* * ** *
2485464 AAAATTACATTATAA-GCTATT
1 AAAATTATATCA-AATATTATC
*
2485485 AAAATCATATCAAATATTATC
1 AAAATTATATCAAATATTATC
2485506 AAAATT
1 AAAATT
2485512 CAAAATAACA
Statistics
Matches: 200, Mismatches: 52, Indels: 36
0.69 0.18 0.12
Matches are distributed among these distances:
17 11 0.05
18 15 0.08
19 4 0.02
20 34 0.17
21 130 0.65
22 6 0.03
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.37
Consensus pattern (21 bp):
AAAATTATATCAAATATTATC
Found at i:2485707 original size:19 final size:19
Alignment explanation
Indices: 2485680--2485716 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2485670 GTTATATTAT
2485680 AAGACTATTAAAATCATAA
1 AAGACTATTAAAATCATAA
*
2485699 AAGATTATTAAAATCATA
1 AAGACTATTAAAATCATA
2485717 TTAAATGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (19 bp):
AAGACTATTAAAATCATAA
Found at i:2485747 original size:21 final size:21
Alignment explanation
Indices: 2485689--2485747 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
2485679 TAAGACTATT
* *
2485689 AAAATCATA--AAAGATTATT
1 AAAATCATATTAAAGGTTATC
*
2485708 AAAATCATATTAAATGTTATC
1 AAAATCATATTAAAGGTTATC
* *
2485729 AAAATTATATTGAAGGTTA
1 AAAATCATATTAAAGGTTA
2485748 CTACTATTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 9 0.28
21 23 0.72
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATCATATTAAAGGTTATC
Found at i:2485796 original size:21 final size:22
Alignment explanation
Indices: 2485760--2485820 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
2485750 ACTATTGTTT
* *
2485760 CAAAAGTGACCAAAATTATCTT-
1 CAAAAGTTATCAAAATTAT-TTA
2485782 CAAAA-TTATCAAAA-TATTTA
1 CAAAAGTTATCAAAATTATTTA
*
2485802 CAAAAGTTATTAAAATTAT
1 CAAAAGTTATCAAAATTAT
2485821 ATCAAGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 8 0.24
21 15 0.45
22 8 0.24
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (22 bp):
CAAAAGTTATCAAAATTATTTA
Found at i:2485934 original size:22 final size:19
Alignment explanation
Indices: 2485902--2485958 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 19
2485892 TCAAAAGTTA
*
2485902 ACAAATCATATAAAAGATT
1 ACAAATTATATAAAAGATT
* *
2485921 ATCAAAAATTATATCAAAGCTT
1 A-C--AAATTATATAAAAGATT
2485943 ACAAATTATATAAAAG
1 ACAAATTATATAAAAG
2485959 GTAATTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 14 0.45
20 1 0.03
21 1 0.03
22 15 0.48
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.28
Consensus pattern (19 bp):
ACAAATTATATAAAAGATT
Found at i:2486005 original size:20 final size:21
Alignment explanation
Indices: 2485968--2486018 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
2485958 GGTAATTGAC
* *
2485968 TTATATCAAAAGTTATTAAAA
1 TTATATCAAAAATGATTAAAA
2485989 TTATAT-AAAAATGATTAAAA
1 TTATATCAAAAATGATTAAAA
*
2486009 TTACATCAAA
1 TTATATCAAA
2486019 CTTAACAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (21 bp):
TTATATCAAAAATGATTAAAA
Found at i:2486073 original size:21 final size:20
Alignment explanation
Indices: 2486005--2486073 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
2485995 AAAAATGATT
* *
2486005 AAAATTACATCAAACTTAAC
1 AAAATTACATAAAAGTTAAC
**
2486025 AAAATT-CTATCAAAAGTTTCC
1 AAAATTAC-AT-AAAAGTTAAC
*
2486046 AAGATTACATAAAAAGTTAAC
1 AAAATTACAT-AAAAGTTAAC
2486067 AAAATTA
1 AAAATTA
2486074 TCTAAGAATC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
19 1 0.03
20 8 0.22
21 27 0.73
22 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATTACATAAAAGTTAAC
Found at i:2490650 original size:21 final size:20
Alignment explanation
Indices: 2490626--2490747 Score: 77
Period size: 21 Copynumber: 5.9 Consensus size: 20
2490616 ACCGACTTAG
*
2490626 ATCAAGGATTACTAAAATTAT
1 ATCAAAGATTA-TAAAATTAT
* * * *
2490647 ATCAAAGGTTATTACATTAA
1 ATCAAAGATTATAAAATTAT
* * *
2490667 ATTAAAAATTACCAAAATTAT
1 ATCAAAGATTA-TAAAATTAT
* *
2490688 ATTAAATATTATCAAAATTAT
1 ATCAAAGATTAT-AAAATTAT
*
2490709 ATCAAAG-TTATTAAAATCAT
1 ATCAAAGATTA-TAAAATTAT
2490729 ATCAAA-AGTTATCAAAATT
1 ATCAAAGA-TTAT-AAAATT
2490748 TTATTATAGT
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
20 31 0.40
21 46 0.60
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (20 bp):
ATCAAAGATTATAAAATTAT
Found at i:2490711 original size:11 final size:11
Alignment explanation
Indices: 2490679--2490747 Score: 58
Period size: 11 Copynumber: 6.6 Consensus size: 11
2490669 TAAAAATTAC
2490679 CAAAATTATAT
1 CAAAATTATAT
*
2490690 -TAAA-TATTAT
1 CAAAATTA-TAT
2490700 CAAAATTATAT
1 CAAAATTATAT
*
2490711 CAAAGTTAT-T
1 CAAAATTATAT
*
2490721 -AAAATCATAT
1 CAAAATTATAT
*
2490731 CAAAAGT-TAT
1 CAAAATTATAT
2490741 CAAAATT
1 CAAAATT
2490748 TTATTATAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
9 8 0.18
10 17 0.38
11 18 0.40
12 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (11 bp):
CAAAATTATAT
Found at i:2490721 original size:30 final size:29
Alignment explanation
Indices: 2490687--2490744 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
2490677 ACCAAAATTA
*
2490687 TATT-AAATATTATCAAAATTATATCAAAGT
1 TATTAAAATA-TATCAAAAGT-TATCAAAGT
2490717 TATTAAAATCATATCAAAAGTTATCAAA
1 TATTAAAAT-ATATCAAAAGTTATCAAA
2490745 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 11 0.44
31 13 0.52
32 1 0.04
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (29 bp):
TATTAAAATATATCAAAAGTTATCAAAGT
Found at i:2490725 original size:41 final size:41
Alignment explanation
Indices: 2490680--2490851 Score: 186
Period size: 41 Copynumber: 4.2 Consensus size: 41
2490670 AAAAATTACC
* * *
2490680 AAAATTATATTAAATA-TTATCAAAATTATATCAAAGTTATT
1 AAAATCATATTAAA-AGTTATCAAAATCATATTAAAGTTATT
* ** *
2490721 AAAATCATATCAAAAGTTATCAAAATTTTATTATAGTTATT
1 AAAATCATATTAAAAGTTATCAAAATCATATTAAAGTTATT
* *
2490762 AAAATCAT-TTAAAAGCTATCAAAATCATATTAAAGGCTATT
1 AAAATCATATTAAAAGTTATCAAAATCATATTAAA-GTTATT
* * * *
2490803 AAAATCATATTGAATGTTATAAAAATCATATTTAAAGTTACT
1 AAAATCATATTAAAAGTTATCAAAATCATA-TTAAAGTTATT
2490845 AAAATCA
1 AAAATCA
2490852 CGTTGAAAGT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 22 0.20
41 55 0.50
42 28 0.25
43 5 0.05
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.37
Consensus pattern (41 bp):
AAAATCATATTAAAAGTTATCAAAATCATATTAAAGTTATT
Found at i:2490800 original size:21 final size:20
Alignment explanation
Indices: 2490679--2490851 Score: 134
Period size: 21 Copynumber: 8.4 Consensus size: 20
2490669 TAAAAATTAC
* *
2490679 CAAAATTATATTAAATATTAT
1 CAAAATCATATTAAA-GTTAT
* *
2490700 CAAAATTATATCAAAGTTAT
1 CAAAATCATATTAAAGTTAT
* *
2490720 TAAAATCATATCAAAAGTTAT
1 CAAAATCATAT-TAAAGTTAT
** *
2490741 CAAAATTTTATTATAGTTAT
1 CAAAATCATATTAAAGTTAT
* *
2490761 TAAAATCAT-TTAAAAGCTAT
1 CAAAATCATATT-AAAGTTAT
*
2490781 CAAAATCATATTAAAGGCTAT
1 CAAAATCATATTAAA-GTTAT
* *
2490802 TAAAATCATATTGAATGTTAT
1 CAAAATCATATT-AAAGTTAT
*
2490823 AAAAATCATATTTAAAGTTA-
1 CAAAATCATA-TTAAAGTTAT
2490843 CTAAAATCA
1 C-AAAATCA
2490852 CGTTGAAAGT
Statistics
Matches: 123, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.02
20 43 0.35
21 74 0.60
22 4 0.03
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (20 bp):
CAAAATCATATTAAAGTTAT
Found at i:2490858 original size:42 final size:42
Alignment explanation
Indices: 2490773--2490864 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
2490763 AAATCATTTA
* * * *
2490773 AAAGCTATCAAAATCATATTAAAGGCTATTAAAATCATATTG
1 AAAGTTATAAAAATCATATTAAAGGCTACTAAAATCACATTG
* * *
2490815 AATGTTATAAAAATCATATTTAAA-GTTACTAAAATCACGTTG
1 AAAGTTATAAAAATCATA-TTAAAGGCTACTAAAATCACATTG
2490857 AAAGTTAT
1 AAAGTTAT
2490865 TATATATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 36 0.88
43 5 0.12
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (42 bp):
AAAGTTATAAAAATCATATTAAAGGCTACTAAAATCACATTG
Found at i:2491266 original size:21 final size:21
Alignment explanation
Indices: 2491242--2491322 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
2491232 ATTGCATCCG
2491242 TTACTAAAATTATATTAAAGA
1 TTACTAAAATTATATTAAAGA
* * * *
2491263 TTACTAATATTAAATCAAAGG
1 TTACTAAAATTATATTAAAGA
** * *
2491284 TTTTTAAACTTACATTAAA-A
1 TTACTAAAATTATATTAAAGA
2491304 GTTA-TCAAAATTATATTAA
1 -TTACT-AAAATTATATTAA
2491323 TTGTTATCAT
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
TTACTAAAATTATATTAAAGA
Found at i:2491328 original size:21 final size:21
Alignment explanation
Indices: 2491304--2491343 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2491294 TACATTAAAA
2491304 GTTATCAAAATTATATTAATT
1 GTTATCAAAATTATATTAATT
* *
2491325 GTTATCATAATTTTATTAA
1 GTTATCAAAATTATATTAA
2491344 AGGTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
GTTATCAAAATTATATTAATT
Found at i:2491386 original size:21 final size:20
Alignment explanation
Indices: 2491362--2491447 Score: 91
Period size: 21 Copynumber: 4.2 Consensus size: 20
2491352 AAATTTTATT
2491362 AAAAACTATAAAAATCATATC
1 AAAAACTAT-AAAATCATATC
* *
2491383 AAAACCAATAAAATCATATC
1 AAAAACTATAAAATCATATC
* * *
2491403 AAATATTATGAAAATCATAAC
1 AAAAACTAT-AAAATCATATC
*
2491424 TAAAACTACTAAAATCATATC
1 AAAAACTA-TAAAATCATATC
2491445 AAA
1 AAA
2491448 TATTATACTA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.31
21 34 0.67
22 1 0.02
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.24
Consensus pattern (20 bp):
AAAAACTATAAAATCATATC
Found at i:2491437 original size:42 final size:41
Alignment explanation
Indices: 2491372--2491453 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 41
2491362 AAAAACTATA
*
2491372 AAAATCATATCAAAACCAATAAAATCATATCAAATATTATG
1 AAAATCATAACAAAACCAATAAAATCATATCAAATATTATG
* *
2491413 AAAATCATAACTAAAACTACTAAAATCATATCAAATATTAT
1 AAAATCATAAC-AAAACCAATAAAATCATATCAAATATTAT
2491454 ACTATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
41 10 0.27
42 27 0.73
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (41 bp):
AAAATCATAACAAAACCAATAAAATCATATCAAATATTATG
Found at i:2497931 original size:26 final size:27
Alignment explanation
Indices: 2497895--2497945 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
2497885 TAAAATTTTG
2497895 TTTAGATATAAATTAAAAATTAAAATT
1 TTTAGATATAAATTAAAAATTAAAATT
2497922 TTTA-ATATAAATTAAAAATTAAAA
1 TTTAGATATAAATTAAAAATTAAAA
2497946 AATTTACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTAGATATAAATTAAAAATTAAAATT
Found at i:2497951 original size:26 final size:27
Alignment explanation
Indices: 2497895--2497951 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
2497885 TAAAATTTTG
**
2497895 TTTAGATATAAATTAAAAATTAAAATT
1 TTTAGATATAAATTAAAAATTAAAAAA
2497922 TTTA-ATATAAATTAAAAATTAAAAAA
1 TTTAGATATAAATTAAAAATTAAAAAA
2497948 TTTA
1 TTTA
2497952 CTTAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTAGATATAAATTAAAAATTAAAAAA
Found at i:2498106 original size:50 final size:49
Alignment explanation
Indices: 2498038--2498143 Score: 160
Period size: 50 Copynumber: 2.2 Consensus size: 49
2498028 TGCATAGTAC
* * *
2498038 TACCATT-CAACCTTATATTCGTTAATTTAATGCAACCTGACAATTAAT
1 TACCATTCCAACCTAATATTCCTTAATTTAATGCAACCAGACAATTAAT
2498086 TACCATTCCCAACCTAATATTCCTTAATTTAATGCAACCAGACAATTAAT
1 TACCATT-CCAACCTAATATTCCTTAATTTAATGCAACCAGACAATTAAT
*
2498136 TAGCATTC
1 TACCATTC
2498144 TCATGCTTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
48 7 0.13
49 1 0.02
50 44 0.85
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (49 bp):
TACCATTCCAACCTAATATTCCTTAATTTAATGCAACCAGACAATTAAT
Found at i:2498601 original size:24 final size:23
Alignment explanation
Indices: 2498549--2498607 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
2498539 AATTATTTAA
* *
2498549 TAATTTTTT-TGACACATTCTTT
1 TAATTTTTTATCACAAATTCTTT
*
2498571 AACATTTTTTATCACAAATTACTTT
1 TA-ATTTTTTATCACAAATT-CTTT
2498596 TAATTTATTTAT
1 TAATTT-TTTAT
2498608 AATAGATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 1 0.03
23 7 0.24
24 11 0.38
25 10 0.34
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.56
Consensus pattern (23 bp):
TAATTTTTTATCACAAATTCTTT
Found at i:2498950 original size:19 final size:18
Alignment explanation
Indices: 2498914--2498959 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
2498904 AAAAAGTCTA
**
2498914 TAAAAAATTACTTTTATT
1 TAAAAAATTACTAATATT
2498932 CTAAAAAATTACTAATATT
1 -TAAAAAATTACTAATATT
2498951 TAATAAAAT
1 TAA-AAAAT
2498960 CTATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAAATTACTAATATT
Found at i:2499722 original size:2 final size:2
Alignment explanation
Indices: 2499715--2499750 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2499705 GCAACGCATA
2499715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2499751 GCACATGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2500300 original size:2 final size:2
Alignment explanation
Indices: 2500288--2500332 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2500278 TGCACTCATT
*
2500288 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2500330 TA T
1 TA T
2500333 TCATAGTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2503947 original size:51 final size:51
Alignment explanation
Indices: 2503858--2503983 Score: 189
Period size: 51 Copynumber: 2.5 Consensus size: 51
2503848 AGGATCTCAC
* * * *
2503858 AATCAACACAACAATATTCAACAAATAAAAACATGAATTTACATGATTTTAT
1 AATCAAAACAGCAATATTC-ACAAATAAAAACAAGAATTTACATGATTTAAT
* *
2503910 AATCAAGACAGCAATGTTCACAAATAAAAACAAGAATTTACATGATTTAAT
1 AATCAAAACAGCAATATTCACAAATAAAAACAAGAATTTACATGATTTAAT
2503961 AATCAAAACAGCAATATTCACAA
1 AATCAAAACAGCAATATTCACAA
2503984 TCAAGTTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
51 51 0.76
52 16 0.24
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.25
Consensus pattern (51 bp):
AATCAAAACAGCAATATTCACAAATAAAAACAAGAATTTACATGATTTAAT
Found at i:2504010 original size:12 final size:12
Alignment explanation
Indices: 2503993--2504035 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
2503983 ATCAAGTTAT
2503993 ATGAAAAAAAAA
1 ATGAAAAAAAAA
* *
2504005 ATGAAATAAACA
1 ATGAAAAAAAAA
*
2504017 ATCAAAGAAAAAA
1 ATGAAA-AAAAAA
2504030 ATGAAA
1 ATGAAA
2504036 CATACCACAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (12 bp):
ATGAAAAAAAAA
Found at i:2507339 original size:20 final size:21
Alignment explanation
Indices: 2507314--2507385 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
2507304 TAGGCTATAC
2507314 TTGTTTA-ATTAGATGTTAAA
1 TTGTTTATATTAGATGTTAAA
* * *
2507334 TTGTTTATATTATAT-ATATA
1 TTGTTTATATTAGATGTTAAA
*
2507354 TAT-ATTA-ATTAGATGTTAAA
1 T-TGTTTATATTAGATGTTAAA
2507374 TTGTTTATATTA
1 TTGTTTATATTA
2507386 TATATATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
19 7 0.18
20 21 0.54
21 11 0.28
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (21 bp):
TTGTTTATATTAGATGTTAAA
Found at i:2507373 original size:40 final size:40
Alignment explanation
Indices: 2507318--2507398 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
2507308 CTATACTTGT
2507318 TTAATTAGATGTTAAATTGTTTATATTATATATATATATA
1 TTAATTAGATGTTAAATTGTTTATATTATATATATATATA
2507358 TTAATTAGATGTTAAATTGTTTATATTATATATATATATA
1 TTAATTAGATGTTAAATTGTTTATATTATATATATATATA
2507398 T
1 T
2507399 ATATATATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (40 bp):
TTAATTAGATGTTAAATTGTTTATATTATATATATATATA
Found at i:2509989 original size:34 final size:33
Alignment explanation
Indices: 2509951--2510069 Score: 107
Period size: 34 Copynumber: 3.5 Consensus size: 33
2509941 AGAGAAATTG
2509951 AGATAGCGAGGATGGAAAATAAAAAGACAAGCAT
1 AGATAGCGAGGATGGAAAA-AAAAAGACAAGCAT
* *
2509985 AGATAGTGAGGATGAGAAACAAAACA-ACAAGCAT
1 AGATAGCGAGGATG-GAAA-AAAAAAGACAAGCAT
* * * ** *
2510019 AGATAGTGAGGAT-GAAAACAAAGAGATAAAAAC
1 AGATAGCGAGGATGGAAAA-AAAAAGACAAGCAT
*
2510052 AGATAGCAAGGATGGAAA
1 AGATAGCGAGGATGGAAA
2510070 TAGAGATAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
31 1 0.01
32 8 0.11
33 15 0.21
34 38 0.54
35 8 0.11
36 1 0.01
ACGTcount: A:0.54, C:0.08, G:0.26, T:0.12
Consensus pattern (33 bp):
AGATAGCGAGGATGGAAAAAAAAAGACAAGCAT
Found at i:2513498 original size:20 final size:20
Alignment explanation
Indices: 2513470--2513507 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2513460 CAACGGCTAT
2513470 AATTATATCGATACATTATA
1 AATTATATCGATACATTATA
*
2513490 AATTGTATCGATACATTA
1 AATTATATCGATACATTA
2513508 AGTCCAACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
AATTATATCGATACATTATA
Found at i:2513501 original size:52 final size:52
Alignment explanation
Indices: 2513417--2513525 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 52
2513407 TACCCTAAGT
* *
2513417 GAATTGTATCGATACATGGTAAACTGTATCGATACATTAAGCCCAACGGCTA
1 GAATTATATCGATACATGATAAACTGTATCGATACATTAAGCCCAACGGCTA
* * * *
2513469 TAATTATATCGATACATTATAAATTGTATCGATACATTAAGTCCAACGGCTA
1 GAATTATATCGATACATGATAAACTGTATCGATACATTAAGCCCAACGGCTA
2513521 GAATT
1 GAATT
2513526 TCAAATGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (52 bp):
GAATTATATCGATACATGATAAACTGTATCGATACATTAAGCCCAACGGCTA
Found at i:2515086 original size:3 final size:3
Alignment explanation
Indices: 2515078--2515108 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2515068 TCAACTATTA
*
2515078 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
2515109 AAAGGTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:2515587 original size:20 final size:21
Alignment explanation
Indices: 2515556--2515596 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2515546 TGATGTGCTT
2515556 GAAAAGAAAATA-ATTGAATTA
1 GAAAAGAAAATAGA-TGAATTA
2515577 GAAAA-AAAATAGATGAATTA
1 GAAAAGAAAATAGATGAATTA
2515597 CAATATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (21 bp):
GAAAAGAAAATAGATGAATTA
Found at i:2522096 original size:13 final size:13
Alignment explanation
Indices: 2522078--2522102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2522068 ATATTACTTA
2522078 GTATCGATACATT
1 GTATCGATACATT
2522091 GTATCGATACAT
1 GTATCGATACAT
2522103 GTTCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2522246 original size:52 final size:52
Alignment explanation
Indices: 2522167--2522275 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 52
2522157 TACCCTAAGT
*
2522167 GAATTGTATCGATACATGGTAAATTGTATCGATACATTAAGCCCAACGGCTA
1 GAATTGTATCGATACATGATAAATTGTATCGATACATTAAGCCCAACGGCTA
* * * * *
2522219 TAATTGTATCGATACATTATGAATTGTATCGATACATTGAGTCCAACGGCTA
1 GAATTGTATCGATACATGATAAATTGTATCGATACATTAAGCCCAACGGCTA
2522271 GAATT
1 GAATT
2522276 TCAGATTCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (52 bp):
GAATTGTATCGATACATGATAAATTGTATCGATACATTAAGCCCAACGGCTA
Found at i:2525827 original size:3 final size:3
Alignment explanation
Indices: 2525758--2525807 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
2525748 ATTTATTTTA
2525758 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2525806 AA
1 AA
2525808 CCAGACGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2525924 original size:18 final size:19
Alignment explanation
Indices: 2525903--2525955 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
2525893 TATTTCATCT
2525903 TTATAAATTATTT-AATTA
1 TTATAAATTATTTAAATTA
2525921 TTATAAAATTAATTTAAATTA
1 TTAT-AAATT-ATTTAAATTA
2525942 TAATATAAATTATT
1 T--TATAAATTATT
2525956 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 4 0.13
21 9 0.30
22 5 0.17
23 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATAAATTATTTAAATTA
Found at i:2526095 original size:19 final size:16
Alignment explanation
Indices: 2526051--2526097 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 16
2526041 AATAAATCTT
2526051 TTATATTTATAATTAA
1 TTATATTTATAATTAA
2526067 TTATATTTTATAATATAAA
1 TTATA-TTTATAAT-T-AA
2526086 TTATTATTTATA
1 TTA-TATTTATA
2526098 CAGAATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 8 0.30
18 1 0.04
19 11 0.41
20 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTTATAATTAA
Found at i:2526952 original size:13 final size:13
Alignment explanation
Indices: 2526934--2526973 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
2526924 CAAGGAAATG
2526934 TATCGATACATTA
1 TATCGATACATTA
*
2526947 TATCGATACATTG
1 TATCGATACATTA
2526960 TATCGATACATTA
1 TATCGATACATTA
2526973 T
1 T
2526974 CATTGTATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2531361 original size:18 final size:18
Alignment explanation
Indices: 2531338--2531372 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2531328 TATAAATAGA
2531338 TATTTCATCT-TTATAAAT
1 TATTTCAT-TATTATAAAT
2531356 TATTTCATTATTATAAA
1 TATTTCATTATTATAAA
2531373 ATTTATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTCATTATTATAAAT
Found at i:2531527 original size:19 final size:16
Alignment explanation
Indices: 2531483--2531529 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 16
2531473 AATAAATATT
2531483 TTATATTTATAATTAA
1 TTATATTTATAATTAA
2531499 TTATATTTTATAATATAAA
1 TTATA-TTTATAAT-T-AA
2531518 TTATTATTTATA
1 TTA-TATTTATA
2531530 TTTTGTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 8 0.30
18 1 0.04
19 11 0.41
20 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTTATAATTAA
Found at i:2532432 original size:3 final size:3
Alignment explanation
Indices: 2532419--2532454 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
2532409 TCAAATTGTC
2532419 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2532455 TTAAGCGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:2534339 original size:3 final size:3
Alignment explanation
Indices: 2534331--2534357 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2534321 TCAAATTTTC
2534331 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2534358 CTTTAAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2536697 original size:2 final size:2
Alignment explanation
Indices: 2536690--2536716 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2536680 CTGATCATAA
2536690 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2536717 ACAAAAACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2538709 original size:364 final size:364
Alignment explanation
Indices: 2538040--2538766 Score: 1269
Period size: 364 Copynumber: 2.0 Consensus size: 364
2538030 GTCATATCAC
* *
2538040 GGAATGCTTAAAAAGTGACAGTTTGAGATGCCAAATTCTGAACAAATTCAGCTTTTGATGATAGA
1 GGAATGCTTAAAAAGTGACAGCTTGAGATGCCAAATTCTGAACAAATTCAGCTTTTGATGACAGA
* *
2538105 GGCACTGGTTCCACTAGTACCAGGTTTTGAGAAGTTCACTTTTGTAGAGTGTGATGCATCAGATT
66 GGCACTGGTTCCACTAGTACCAGGTTTTGAGAAGTTCACTTTTGTAGAATGTGATGCATCAGATA
* *
2538170 TTGAGATTGAAGCTATTCTTAGTCAAGATGGGAAGCCAGCGGAATTAGTAATGAGCAAACAGGTA
131 TTGAGATTGAAGCTATTCGTAGTCAAGATGGGAAGCCAGAGGAATTAGTAATGAGCAAACAGGTA
2538235 ACTGGTCATGAATAACTGAAAATTTGATACTGAACCGATATTTATTTCAACTATGTTATAGGAAA
196 ACTGGTCATGAATAACTGAAAATTTGATACTGAACCGATATTTATTTCAACTATGTTATAGGAAA
* * *
2538300 TTAAGCAAACCAGCTACTGAGACTACTCGGATTGCATAATATGAAGAGAAGAAGACTAATCCAGA
261 TTAAGCAAAACAGCAACTGAGACTACTCGGATTGCATAATATGAAGAGAAAAAGACTAATCCAGA
2538365 AATGTATGAAAGGCTACAAAAGCTCTTACAAATTAGGGT
326 AATGTATGAAAGGCTACAAAAGCTCTTACAAATTAGGGT
* *
2538404 GGAATGCTTAAAAAGTGACAGCTTGAGATGCCAATTTCTGAACAAATTCGGCTTTTCG-TGACAG
1 GGAATGCTTAAAAAGTGACAGCTTGAGATGCCAAATTCTGAACAAATTCAGCTTTT-GATGACAG
* * *
2538468 AGGCACTGGTTCTAGTAGTACTAGGTTTTGAGAAGTTCACTTTTGTAGAATGTGATGCATCAGAT
65 AGGCACTGGTTCCACTAGTACCAGGTTTTGAGAAGTTCACTTTTGTAGAATGTGATGCATCAGAT
2538533 ATTGAGATTGAAGCTATTCGTAGTCAAGATGGGAAGCCAGAGGAATTAGTAATGAGCAAACAGGT
130 ATTGAGATTGAAGCTATTCGTAGTCAAGATGGGAAGCCAGAGGAATTAGTAATGAGCAAACAGGT
2538598 AACTGGTCATGAATAACTGAAAATTCT-ATACTGAACCGATATTTATTTCAACTATGTTATAGGA
195 AACTGGTCATGAATAACTGAAAATT-TGATACTGAACCGATATTTATTTCAACTATGTTATAGGA
* *
2538662 AGTTAAGTAAAACAGCAACTGAGACTACTCGGATTGCATAATATGAAGAGAAAAAGACTAATCCA
259 AATTAAGCAAAACAGCAACTGAGACTACTCGGATTGCATAATATGAAGAGAAAAAGACTAATCCA
*
2538727 GAAATGTATGAAAGGCTACAAAAGCTCTTACCAATTAGGG
324 GAAATGTATGAAAGGCTACAAAAGCTCTTACAAATTAGGG
2538767 CCTTTTGTTT
Statistics
Matches: 344, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
364 342 0.99
365 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (364 bp):
GGAATGCTTAAAAAGTGACAGCTTGAGATGCCAAATTCTGAACAAATTCAGCTTTTGATGACAGA
GGCACTGGTTCCACTAGTACCAGGTTTTGAGAAGTTCACTTTTGTAGAATGTGATGCATCAGATA
TTGAGATTGAAGCTATTCGTAGTCAAGATGGGAAGCCAGAGGAATTAGTAATGAGCAAACAGGTA
ACTGGTCATGAATAACTGAAAATTTGATACTGAACCGATATTTATTTCAACTATGTTATAGGAAA
TTAAGCAAAACAGCAACTGAGACTACTCGGATTGCATAATATGAAGAGAAAAAGACTAATCCAGA
AATGTATGAAAGGCTACAAAAGCTCTTACAAATTAGGGT
Found at i:2548129 original size:15 final size:15
Alignment explanation
Indices: 2548099--2548128 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2548089 ACATTGAAGG
2548099 TCTTTTTTTCTTTTT
1 TCTTTTTTTCTTTTT
2548114 TCTTTTTTT-TTTTT
1 TCTTTTTTTCTTTTT
2548128 T
1 T
2548129 TTGCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TCTTTTTTTCTTTTT
Found at i:2550266 original size:2 final size:2
Alignment explanation
Indices: 2550224--2550249 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2550214 TTGCCATTCA
2550224 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
2550250 CTATCTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2550732 original size:14 final size:14
Alignment explanation
Indices: 2550715--2550761 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
2550705 ATTATTATAA
2550715 AAAAATAAAATATT
1 AAAAATAAAATATT
* *
2550729 AAAAATATATATATC
1 AAAAATA-AAATATT
2550744 AAATAATAAAA-ATT
1 AAA-AATAAAATATT
2550758 AAAA
1 AAAA
2550762 TATATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 1 0.04
14 12 0.44
15 10 0.37
16 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATAAAATATT
Found at i:2550733 original size:28 final size:28
Alignment explanation
Indices: 2550701--2550780 Score: 87
Period size: 30 Copynumber: 2.9 Consensus size: 28
2550691 TATTATTTTA
2550701 AAAAATTATTATAAAAAAATAAAATATT
1 AAAAATTATTATAAAAAAATAAAATATT
* *
2550729 AAAAATATATATATCAAATAATAAAA-ATT
1 AAAAAT-TAT-TATAAAAAAATAAAATATT
2550758 -AAAA-TA-TATAAAAATAATAAAAT
1 AAAAATTATTATAAAAA-AATAAAAT
2550781 TATTTCATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 6 0.14
25 7 0.16
26 2 0.05
28 10 0.23
29 6 0.14
30 13 0.30
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (28 bp):
AAAAATTATTATAAAAAAATAAAATATT
Found at i:2550754 original size:30 final size:29
Alignment explanation
Indices: 2550701--2550780 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 29
2550691 TATTATTTTA
*
2550701 AAAAAT-TAT-TATAAAAAAATAAAATATT
1 AAAAATATATATAT-AAATAATAAAATATT
2550729 AAAAATATATATATCAAATAATAAAA-ATT
1 AAAAATATATATAT-AAATAATAAAATATT
2550758 -AAAATATATA-A-AAATAATAAAAT
1 AAAAATATATATATAAATAATAAAAT
2550781 TATTTCATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.23
27 1 0.02
28 16 0.34
29 6 0.13
30 13 0.28
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAATATATATATAAATAATAAAATATT
Found at i:2550764 original size:22 final size:22
Alignment explanation
Indices: 2550722--2550779 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
2550712 TAAAAAAATA
* *
2550722 AAATATTAAAAATATATATATC
1 AAATAATAAAAATATAAATATC
* *
2550744 AAATAATAAAAATTAAAATATATAA
1 AAATAATAAAAA-TATAA-ATAT-C
2550769 AAATAATAAAA
1 AAATAATAAAA
2550780 TTATTTCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 11 0.38
23 3 0.10
24 4 0.14
25 11 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATAATAAAAATATAAATATC
Found at i:2551968 original size:13 final size:13
Alignment explanation
Indices: 2551950--2551974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2551940 ATTTTACTTA
2551950 GTATCGATACATT
1 GTATCGATACATT
2551963 GTATCGATACAT
1 GTATCGATACAT
2551975 CATGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2552065 original size:32 final size:32
Alignment explanation
Indices: 2552024--2552091 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
2552014 TTTAATTGAT
* * *
2552024 ACATTACTGTTGATCACTGTTCATGTATCGAA
1 ACATCACTGTTCATCACTCTTCATGTATCGAA
*
2552056 ACATCACTGTTCATCACTCTTCATGTATCGAT
1 ACATCACTGTTCATCACTCTTCATGTATCGAA
2552088 ACAT
1 ACAT
2552092 GTGAATAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (32 bp):
ACATCACTGTTCATCACTCTTCATGTATCGAA
Found at i:2552584 original size:35 final size:36
Alignment explanation
Indices: 2552514--2552585 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
2552504 CTAACTGATT
*
2552514 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGA
2552550 GAGAGGTTCTATCTTAGCCTATG-AAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGA
2552585 G
1 G
2552586 GTTTTCATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCTATGAAAAAGATAGGGA
Found at i:2552601 original size:32 final size:31
Alignment explanation
Indices: 2552516--2552606 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 31
2552506 AACTGATTGA
*
2552516 GAGGTTCT-ATCTTAGCCTTTGAAAAAGATAGG
1 GAGGTTTTCATCTTAGCC-TTG-AAAAGATAGG
**
2552548 GAGAGAGGTTCTATCTTAGCCTATGAAAAGATAGG
1 GAG-G-TTTTC-ATCTTAGCCT-TGAAAAGATAGG
2552583 GAGGTTTTCATCTTAGCCTTGAAA
1 GAGGTTTTCATCTTAGCCTTGAAA
2552607 GACAGTGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
31 5 0.10
32 13 0.27
33 4 0.08
34 2 0.04
35 14 0.29
36 11 0.22
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (31 bp):
GAGGTTTTCATCTTAGCCTTGAAAAGATAGG
Found at i:2553676 original size:21 final size:20
Alignment explanation
Indices: 2553647--2553685 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2553637 GGCTAGTGTG
*
2553647 GGGACTGCCCGGTTGCGACTT
1 GGGACTG-CCGGTCGCGACTT
*
2553668 GGGAGTGCCGGTCGCGAC
1 GGGACTGCCGGTCGCGAC
2553686 CTGGTAGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.28, G:0.44, T:0.18
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACTT
Found at i:2554149 original size:13 final size:13
Alignment explanation
Indices: 2554131--2554169 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2554121 ATAATCCCCC
*
2554131 TGTATCGATACAG
1 TGTATCGATACAA
2554144 TGTATCGATACAA
1 TGTATCGATACAA
*
2554157 TGTATTGATACAA
1 TGTATCGATACAA
2554170 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2558738 original size:12 final size:12
Alignment explanation
Indices: 2558705--2558739 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2558695 TTCATCCGAG
2558705 TCACCATCTTCA
1 TCACCATCTTCA
*
2558717 TCAACATCTTCA
1 TCACCATCTTCA
*
2558729 TCACCTTCTTC
1 TCACCATCTTC
2558740 GTCCTTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (12 bp):
TCACCATCTTCA
Found at i:2562305 original size:20 final size:20
Alignment explanation
Indices: 2562282--2562324 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2562272 TACAATTCTT
2562282 CATGCATCGATACATTATCC
1 CATGCATCGATACATTATCC
* *
2562302 CATGTATCGATACATTGTCC
1 CATGCATCGATACATTATCC
2562322 CAT
1 CAT
2562325 ATATCGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (20 bp):
CATGCATCGATACATTATCC
Found at i:2562329 original size:20 final size:20
Alignment explanation
Indices: 2562287--2562333 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
2562277 TTCTTCATGC
*
2562287 ATCGATACATTATCCCATGT
1 ATCGATACATTATCCCATAT
*
2562307 ATCGATACATTGTCCCATAT
1 ATCGATACATTATCCCATAT
2562327 ATCGATA
1 ATCGATA
2562334 TATTTCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCGATACATTATCCCATAT
Found at i:2562408 original size:19 final size:20
Alignment explanation
Indices: 2562363--2562415 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
2562353 CTGCCACTTT
* *
2562363 CATGTATCGATATAATTGAG
1 CATGTATCGATACAATTGAA
*
2562383 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2562402 CATGTATCGATACA
1 CATGTATCGATACA
2562416 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2562422 original size:13 final size:13
Alignment explanation
Indices: 2562404--2562428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2562394 ACAATGAACA
2562404 TGTATCGATACAT
1 TGTATCGATACAT
2562417 TGTATCGATACA
1 TGTATCGATACA
2562429 AAGCATGATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2562447 original size:33 final size:32
Alignment explanation
Indices: 2562385--2562449 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2562375 TAATTGAGTA
*
2562385 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
** *
2562417 TGTATCGATACAAAGCATGATGTATTGATACAT
1 TGTATCGATACAAAG-AACATGTATCGATACAT
2562450 CTGGATATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:2563552 original size:12 final size:12
Alignment explanation
Indices: 2563535--2563559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2563525 AGCTTGTTGT
2563535 TGTTCTTCATGC
1 TGTTCTTCATGC
2563547 TGTTCTTCATGC
1 TGTTCTTCATGC
2563559 T
1 T
2563560 CGTCGTCTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.16, T:0.52
Consensus pattern (12 bp):
TGTTCTTCATGC
Found at i:2565014 original size:20 final size:20
Alignment explanation
Indices: 2564984--2565062 Score: 140
Period size: 20 Copynumber: 3.9 Consensus size: 20
2564974 ATCTGTGTTT
2564984 TTCATATGTATCGATACATCA
1 TTCA-ATGTATCGATACATCA
2565005 TTCAATGTATCGATACATCA
1 TTCAATGTATCGATACATCA
*
2565025 TTCAATGTATTGATACATCA
1 TTCAATGTATCGATACATCA
2565045 TTCAATGTATCGATACAT
1 TTCAATGTATCGATACAT
2565063 TCTGAAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
20 52 0.93
21 4 0.07
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCAATGTATCGATACATCA
Found at i:2570129 original size:15 final size:15
Alignment explanation
Indices: 2570109--2570138 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2570099 TTTGGAATGA
2570109 CAACATCATTTTCCC
1 CAACATCATTTTCCC
2570124 CAACATCATTTTCCC
1 CAACATCATTTTCCC
2570139 TCTTCGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (15 bp):
CAACATCATTTTCCC
Found at i:2571239 original size:20 final size:20
Alignment explanation
Indices: 2571186--2571242 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
2571176 GTTGGGCATA
* *
2571186 ATGTATCGATACAATTCTTC
1 ATGTATCGATACATTTCTCC
2571206 ATGTATCGATACATTATC-CC
1 ATGTATCGATACATT-TCTCC
2571226 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
2571243 ACTTAGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCC
Found at i:2571297 original size:20 final size:20
Alignment explanation
Indices: 2571274--2571321 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
2571264 TTTCATGTGT
**
2571274 CGATACAATTGAGTATGTAG
1 CGATACAATTGAACATGTAG
* *
2571294 CGATATAA-TGAACATGTAT
1 CGATACAATTGAACATGTAG
2571313 CGATACAAT
1 CGATACAAT
2571322 GTATCGATAC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (20 bp):
CGATACAATTGAACATGTAG
Found at i:2571325 original size:13 final size:13
Alignment explanation
Indices: 2571307--2571338 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2571297 TATAATGAAC
2571307 ATGTATCGATACA
1 ATGTATCGATACA
2571320 ATGTATCGATACA
1 ATGTATCGATACA
*
2571333 AAGTAT
1 ATGTAT
2571339 GATGTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2571436 original size:20 final size:20
Alignment explanation
Indices: 2571411--2571462 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
2571401 GTCAACCTTA
2571411 ATGTATCGATACAAATACTT
1 ATGTATCGATACAAATACTT
2571431 ATGTATCGATACAAATACTT
1 ATGTATCGATACAAATACTT
2571451 ATGTATCGATAC
1 ATGTATCGATAC
2571463 TTTGGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAAATACTT
Found at i:2574858 original size:13 final size:13
Alignment explanation
Indices: 2574840--2574872 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2574830 ACTTTTCACT
2574840 ATGTATCGATACA
1 ATGTATCGATACA
2574853 ATGTATCGATACA
1 ATGTATCGATACA
*
2574866 ATATATC
1 ATGTATC
2574873 ATGTATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2575856 original size:19 final size:18
Alignment explanation
Indices: 2575805--2575890 Score: 56
Period size: 19 Copynumber: 4.8 Consensus size: 18
2575795 ATTTCAACAA
*
2575805 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
2575824 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
*
2575844 TTTTGTATTGATAC--AA-
1 -TTTGTATCGATACATAAG
2575860 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
2575876 TGTTGTATTGATACA
1 T-TTGTATCGATACA
2575891 ATGTATCGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
13 10 0.19
15 2 0.04
17 2 0.04
19 22 0.42
20 2 0.04
21 14 0.27
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:2575867 original size:32 final size:32
Alignment explanation
Indices: 2575826--2575903 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
2575816 ACAAACAGTA
*
2575826 AATGTATCGATACATAAGTTTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATTGATAC
2575858 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATTGATAC
*
2575890 AATGTATCGCTACA
1 AATGTATCGATACA
2575904 AAGCTACTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATTGATAC
Found at i:2575940 original size:13 final size:13
Alignment explanation
Indices: 2575922--2575949 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2575912 ACCAAGAAAA
2575922 TGTATCGATACAT
1 TGTATCGATACAT
2575935 TGTATCGATACAT
1 TGTATCGATACAT
2575948 TG
1 TG
2575950 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2582597 original size:13 final size:13
Alignment explanation
Indices: 2582579--2582603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2582569 TTATGCTTTG
2582579 TATCGATACATTA
1 TATCGATACATTA
2582592 TATCGATACATT
1 TATCGATACATT
2582604 CACAATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2582677 original size:20 final size:19
Alignment explanation
Indices: 2582652--2582705 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
2582642 CTACCACTGT
2582652 TTGTATCAATACATG-GCACA
1 TTGTATCAATACATGAG-A-A
2582672 TTGTATCAATACATGATGAA
1 TTGTATCAATACATGA-GAA
2582692 TTGTATCAATACAT
1 TTGTATCAATACAT
2582706 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
TTGTATCAATACATGAGAA
Found at i:2590335 original size:33 final size:33
Alignment explanation
Indices: 2590288--2590353 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2590278 GAGAGTTGAA
*
2590288 CACTTCACTTTCGCAGCACATGAATGAGCACTT
1 CACTTCACTATCGCAGCACATGAATGAGCACTT
* * *
2590321 CACTTTACTATCGCAGCATATGGATGAGCACTT
1 CACTTCACTATCGCAGCACATGAATGAGCACTT
2590354 TAGTGCACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (33 bp):
CACTTCACTATCGCAGCACATGAATGAGCACTT
Found at i:2594632 original size:13 final size:13
Alignment explanation
Indices: 2594614--2594639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2594604 TAGTGACCAA
2594614 GGCCGGACAAAAT
1 GGCCGGACAAAAT
2594627 GGCCGGACAAAAT
1 GGCCGGACAAAAT
2594640 TTGGTGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.31, T:0.08
Consensus pattern (13 bp):
GGCCGGACAAAAT
Found at i:2595132 original size:28 final size:28
Alignment explanation
Indices: 2595033--2595668 Score: 635
Period size: 28 Copynumber: 21.9 Consensus size: 28
2595023 TTTTAAAAAA
*
2595033 GGTGCCACTAACTTGTGTGGGCTTTGGAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTT-GAAAG
* *
2595064 AGTTGCCTCTGACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
* *
2595096 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2595124 GGTGCCACTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
2595152 GATGCCACTAACTTGTGGACCTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** *
2595181 AATGTCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2595209 GGTGCCACTAACTTGTGGGTTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** * *
2595238 AATGCCACTAACTTGTGGGATTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2595266 AGTGGCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2595294 GGTGCCATTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** * *
2595323 AGTTGCCACTGACTCATGTGCTTTAAAAAG
1 -GGTGCCACTGACTTGTGGGCTTT-GAAAG
*
2595353 CGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
2595381 GGTACCACTAACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2595409 GATGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
2595438 AGTTGCCA-TCGACTTGTGTGGGCTTTGAAAAG
1 -GGTGCCACT-GAC-T-TGTGGGCTTTG-AAAG
**
2595470 AATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
2595498 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2595526 GATGCCACTGACTTGTGTGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2595554 GATGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
2595583 AGTTGCCACCGACTCGTGTGGGCTTTAAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTT-GAAAG
** * *
2595615 AATGCCACTAAATTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2595643 GGTGCCACTGACTTATGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
2595669 GAGATGAATG
Statistics
Matches: 509, Mismatches: 77, Indels: 40
0.81 0.12 0.06
Matches are distributed among these distances:
28 274 0.54
29 110 0.22
30 42 0.08
31 28 0.06
32 55 0.11
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:2595147 original size:57 final size:57
Alignment explanation
Indices: 2595029--2595668 Score: 686
Period size: 57 Copynumber: 11.0 Consensus size: 57
2595019 TTTATTTTAA
* *
2595029 AAAAG-GTGCCACTAACTTGTGTGGGCTTTGGAAAGAGTTGCCTCTGACTCGTGTGGGCTTTG
1 AAAAGAGTGCCACTAAC-T-TGTGGGCTTT-GAAAG-GATGCCACTGACT--TGTGGGCTTTG
*
2595091 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2595148 AAAAGA-TGCCACTAACTTGTGGACCTTGAAAAGAATGTCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2595205 -AAAGGGTGCCACTAACTTGTGGGTTTTGAAAAGAATGCCACTAACTTGTGGGATTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2595262 -AAAGAGTGGCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* ** * *
2595318 AAAAGAGTTGCCACTGACTCATGTGCTTTAAAAAGCG-TGCCACTGACTTGTGGGCTTTG
1 AAAAGAG-TGCCACTAACTTGTGGGCTTT-GAAAG-GATGCCACTGACTTGTGGGCTTTG
* * * *
2595377 -AAAGGGTACCACTAACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2595433 AAAAGAGTTGCCA-TCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
1 AAAAGAG-TGCCACT-AAC-T-TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2595494 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGTGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2595550 AAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTA
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTG
* * * *
2595610 AAAAGAATGCCACTAAATTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
2595667 AA
1 AA
2595669 GAGATGAATG
Statistics
Matches: 499, Mismatches: 58, Indels: 47
0.83 0.10 0.08
Matches are distributed among these distances:
55 1 0.00
56 121 0.24
57 168 0.34
58 40 0.08
59 56 0.11
60 40 0.08
61 56 0.11
62 6 0.01
63 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (57 bp):
AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2595516 original size:145 final size:145
Alignment explanation
Indices: 2594986--2595668 Score: 790
Period size: 145 Copynumber: 4.7 Consensus size: 145
2594976 ACAGTGGTGA
* * * *
2594986 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTTATTTTAAAAAAGGTGCCACTAACTTGTGT
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGA----AAAGAA--TGCCACTGAC-T-TGT
* * *
2595051 GGGCTTTGGAAAGAGTTGCCTCTGACTCGTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
58 GGGCTTT-GAAAG-GGTGCCACTGACT--TGTGGGCTTTG-AAAGAATGCCACTAACTTGTGGGC
*
2595116 TTTGAAAGGGTGCCACTGACTTGTGGGC
118 TTTGAAAGGATGCCACTGACTTGTGGGC
** * * *
2595144 TTTGAAAAGA--TGCCACTAAC-T-TGTGGACCTTGAAAAGAATGTCACTGACTTGTGGGCTTTG
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
* * *
2595205 AAAGGGTGCCACTAACTTGTGGGTTTTGAAAAGAATGCCACTAACTTGTGGGATTTGAAA-GAGT
66 AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAATGCCACTAACTTGTGGGCTTTGAAAGGA-T
*
2595269 GGCACTGACTTGTGGGC
129 GCCACTGACTTGTGGGC
* ** * ** *
2595286 TTTG-AAAG-GGTGCCATTGAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGACTCATGTGCTTT
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGA-ATGCCACTGACTTGTGGGCTTT
* * ** * *
2595347 AAAAAGCGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTAACTTGTGGGCTTTAAAAGGAT
65 -GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTTTGAAAGGAT
*
2595412 GCCACTAACTTGTGGGC
129 GCCACTGACTTGTGGGC
*
2595429 TTTGAAAAGAGTTGCCATCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
* * *
2595494 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGTGCTTTGAAAGGATGC
66 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTTTGAAAGGATGC
2595559 CACTGACTTGTGGGC
131 CACTGACTTGTGGGC
* * * *
2595574 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTAAAAAGAATGCCACTAAATTGTGGGCTTTG
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
*
2595639 AAAGGGTGCCACTGACTTATGGGCTTTGAA
66 AAAGGGTGCCACTGACTTGTGGGCTTTGAA
2595669 GAGATGAATG
Statistics
Matches: 458, Mismatches: 57, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
141 5 0.01
142 85 0.19
143 63 0.14
144 41 0.09
145 177 0.39
146 29 0.06
147 18 0.04
148 8 0.02
150 5 0.01
154 9 0.02
155 1 0.00
156 8 0.02
158 9 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (145 bp):
TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTGGGC
Found at i:2596905 original size:12 final size:11
Alignment explanation
Indices: 2596892--2596953 Score: 58
Period size: 11 Copynumber: 5.5 Consensus size: 11
2596882 CCCATTTCTA
2596892 TTTTTTTTGTT
1 TTTTTTTTGTT
2596903 ATTTTTTCCTTGGTT
1 -TTTTTT--TT-GTT
2596918 TTTTTTTTG--
1 TTTTTTTTGTT
*
2596927 -TTTTTTTGGT
1 TTTTTTTTGTT
2596937 TTTTTTTTGTT
1 TTTTTTTTGTT
2596948 TTTTTT
1 TTTTTT
2596954 GGGTATGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
8 8 0.19
11 16 0.37
12 8 0.19
14 8 0.19
15 3 0.07
ACGTcount: A:0.02, C:0.03, G:0.11, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:2596909 original size:11 final size:10
Alignment explanation
Indices: 2596892--2596953 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 10
2596882 CCCATTTCTA
2596892 TTTTTTTTGTT
1 TTTTTTTTG-T
2596903 ATTTTTTCCTTGGT
1 -TTTTTT--TT-GT
2596917 TTTTTTTT-T
1 TTTTTTTTGT
*
2596926 GTTTTTTTGGT
1 -TTTTTTTTGT
2596937 TTTTTTTTGT
1 TTTTTTTTGT
2596947 TTTTTTT
1 TTTTTTT
2596954 GGGTATGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 1 0.02
10 23 0.53
11 3 0.07
12 6 0.14
13 6 0.14
14 3 0.07
15 1 0.02
ACGTcount: A:0.02, C:0.03, G:0.11, T:0.84
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:2596930 original size:10 final size:10
Alignment explanation
Indices: 2596917--2596953 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
2596907 TTTCCTTGGT
2596917 TTTTTTTTTG
1 TTTTTTTTTG
*
2596927 -TTTTTTTGG
1 TTTTTTTTTG
2596936 TTTTTTTTTG
1 TTTTTTTTTG
2596946 TTTTTTTT
1 TTTTTTTT
2596954 GGGTATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:2596932 original size:9 final size:9
Alignment explanation
Indices: 2596918--2596954 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
2596908 TTCCTTGGTT
2596918 TTTTTTTTG
1 TTTTTTTTG
*
2596927 TTTTTTTGG
1 TTTTTTTTG
2596936 TTTTTTTTTG
1 -TTTTTTTTG
2596946 TTTTTTTTG
1 TTTTTTTTG
2596955 GGTATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:2596941 original size:19 final size:20
Alignment explanation
Indices: 2596912--2596952 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
2596902 TATTTTTTCC
2596912 TTGGTTTTTTTTTTGTTTTT
1 TTGGTTTTTTTTTTGTTTTT
2596932 TTGG-TTTTTTTTTGTTTTT
1 TTGGTTTTTTTTTTGTTTTT
2596951 TT
1 TT
2596953 TGGGTATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTGGTTTTTTTTTTGTTTTT
Found at i:2596953 original size:20 final size:19
Alignment explanation
Indices: 2596893--2596955 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 19
2596883 CCATTTCTAT
2596893 TTTTTTTGTTATTTTTTCCTTGG
1 TTTTTTT-TT-TTTTTT--TTGG
2596916 TTTTTTTTTTGTTTTTTTGG
1 TTTTTTTTTT-TTTTTTTGG
2596936 TTTTTTTTTGTTTTTTTTGG
1 TTTTTTTTT-TTTTTTTTGG
2596956 GTATGAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 22 0.58
21 2 0.05
22 7 0.18
23 7 0.18
ACGTcount: A:0.02, C:0.03, G:0.14, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTTTTTTTTTGG
Found at i:2610925 original size:20 final size:20
Alignment explanation
Indices: 2610898--2610955 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
2610888 GTAAAAAGAC
2610898 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
*
2610918 AGAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
2610938 AAAATGTATCGATACATT
1 AAAATGTATCGATACATT
2610956 TGGGTACTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:2611853 original size:28 final size:28
Alignment explanation
Indices: 2611754--2612328 Score: 592
Period size: 28 Copynumber: 19.9 Consensus size: 28
2611744 TTTTAAAAAA
*
2611754 GGTGCCACTAACTTGTGTGGGCTTTGGAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTT-GAAAG
* * *
2611785 AGTTGCCTCCGACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
* *
2611817 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2611845 GGTGCCACTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
2611873 GATGCCACTAACTTGTGGACTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** *
2611902 AATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2611930 GGTGCCACTAACTTGTGGGTTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** *
2611959 AATGCCACTGACTTGTGGGATTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2611987 AGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2612015 GGTGCCATTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** * *
2612044 AGTTGCCACCAACTCGTGGGCTTTAAAAAG
1 -GGTGCCACTGACTTGTGGGCTTT-GAAAG
* * *
2612074 CGTGCCACTAACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2612102 GGTGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2612130 GATACCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2612158 GGTGCCACTGACATGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2612186 GATGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2612214 GATGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * *
2612243 AGTTACCACCGACTCGTGTGGGCTTTAAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTT-GAAAG
**
2612275 AATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2612303 GGTACCATTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
2612329 GAGATGAACG
Statistics
Matches: 459, Mismatches: 72, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
28 276 0.60
29 96 0.21
30 31 0.07
31 19 0.04
32 37 0.08
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:2611868 original size:57 final size:57
Alignment explanation
Indices: 2611750--2612328 Score: 643
Period size: 57 Copynumber: 10.0 Consensus size: 57
2611740 TTTATTTTAA
* * *
2611750 AAAAG-GTGCCACTAACTTGTGTGGGCTTTGGAAAGAGTTGCCTCCGACTCGTGTGGGCTTTG
1 AAAAGAGTGCCACTAAC-T-TGTGGGCTTT-GAAAG-GATGCCACTGACT--TGTGGGCTTTG
*
2611812 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
2611869 AAAAGA-TGCCACTAACTTGTGGACTTTGAAAAGAATGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2611926 -AAAGGGTGCCACTAACTTGTGGGTTTTGAAAAGAATGCCACTGACTTGTGGGATTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
* *
2611983 -AAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2612039 AAAAGAGTTGCCACCAACTCGTGGGCTTTAAAAAGCG-TGCCACTAACTTATGGGCTTTG
1 AAAAGAG-TGCCACTAACTTGTGGGCTTT-GAAAG-GATGCCACTGACTTGTGGGCTTTG
* * * *
2612098 -AAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATACCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
2612154 -AAAGGGTGCCACTGACATGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
2612210 AAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTA
1 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTG
* * * * *
2612270 AAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTACCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
2612327 AA
1 AA
2612329 GAGATGAACG
Statistics
Matches: 453, Mismatches: 50, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.00
56 145 0.32
57 158 0.35
58 33 0.07
59 43 0.09
60 25 0.06
61 31 0.07
62 6 0.01
63 11 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (57 bp):
AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2621100 original size:79 final size:79
Alignment explanation
Indices: 2620909--2621296 Score: 368
Period size: 79 Copynumber: 4.9 Consensus size: 79
2620899 TAGAGATGAC
* * * *
2620909 AACGGGGCTGGAGTATCCCCTGATTATGGAAAATCGATGTTTTGGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCC-GATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAG
*
2620974 TATCCCCT-TAGAAAT
65 TATCCCCTCGA-AAAT
** * * ** * *
2620989 AATAGGGTTGAAGCATCCTTGATTAT-AGAAAATCGACATTTTAAAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGA-AAAATCGATATTTTAGAAATAAAATCGGGGTTGGAG
*
2621053 CATCCCCTCGAAAAT
65 TATCCCCTCGAAAAT
* * * *** *
2621068 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCTA-AGCTTTAGAAATAAGGCCGGGGTTGGAC
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTAGAAATAAAATCGGGGTTGGAG
* * *
2621132 TATCTCCGCCAAAAT
65 TATCCCCTCGAAAAT
* * * * * * ** *
2621147 AACGGGGCTGGAGTATCCCTGATTGTGAGAAATCAATAATTTAGAAATAAAGCCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGT
*
2621212 ATTCCCTCGAAAAT
66 ATCCCCTCGAAAAT
* * * * *
2621226 AACGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTAGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGT
2621291 ATCCCC
66 ATCCCC
2621297 AAGATGAAAA
Statistics
Matches: 244, Mismatches: 59, Indels: 11
0.78 0.19 0.04
Matches are distributed among these distances:
78 1 0.00
79 227 0.93
80 16 0.07
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGT
ATCCCCTCGAAAAT
Done.