Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 141 of 410
Found at i:42854128 original size:57 final size:57
Alignment explanation
Indices: 42854015--42854143 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
42854005 GACAAGATTG
* * * * **
42854015 GCACTAAGTGTGCGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAAAATATA
*
42854072 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAAATATA
1 GCACTAAGTGTGCG-GCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAAAATATA
42854129 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
42854144 ATTCACTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
56 1 0.02
57 36 0.56
58 27 0.42
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGGCTGAAAATTATACAGCACTAAGTGTGCGAGTCTGAAAATATA
Found at i:42861789 original size:40 final size:40
Alignment explanation
Indices: 42861704--42861854 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
42861694 AATTGAATGA
* * *
42861704 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
42861744 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
42861785 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
42861824 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42861855 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:42861868 original size:40 final size:40
Alignment explanation
Indices: 42861741--42861870 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
42861731 ATGCTGGAAA
* * * *
42861741 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
42861781 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
42861821 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
42861861 TTATATCCGG
1 TTATATCCGG
42861871 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:42865440 original size:13 final size:13
Alignment explanation
Indices: 42865422--42865446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42865412 AGCCAAAATG
42865422 TTCCCTTTCTTAA
1 TTCCCTTTCTTAA
42865435 TTCCCTTTCTTA
1 TTCCCTTTCTTA
42865447 CTCTAAGCCG
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:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCCCTTTCTTAA
Found at i:42866484 original size:21 final size:20
Alignment explanation
Indices: 42866446--42866493 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
42866436 CCCCACATGG
*
42866446 TGTGTTGGTTGGTATTGGTGT
1 TGTGTTGGATGGTATTGG-GT
42866467 TGTGTTGGATGGCT-TTGGGT
1 TGTGTTGGATGG-TATTGGGT
*
42866487 TGGGTTG
1 TGTGTTG
42866494 CATTTTGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.04, C:0.02, G:0.46, T:0.48
Consensus pattern (20 bp):
TGTGTTGGATGGTATTGGGT
Found at i:42873881 original size:12 final size:12
Alignment explanation
Indices: 42873864--42873888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42873854 TTTTACCCCC
42873864 TAACTGATACTA
1 TAACTGATACTA
42873876 TAACTGATACTA
1 TAACTGATACTA
42873888 T
1 T
42873889 GCTAGGGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAACTGATACTA
Found at i:42879544 original size:5 final size:5
Alignment explanation
Indices: 42879529--42879589 Score: 56
Period size: 5 Copynumber: 12.4 Consensus size: 5
42879519 TGTTGGTTAA
* * *
42879529 ATATT AAATT ATA-T -TATT ATATC ATATT TTGAATT ATATT A-ATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT AT--ATT ATATT ATATT ATATT
42879578 ATATT ATATT AT
1 ATATT ATATT AT
42879590 TATAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
3 2 0.04
4 6 0.13
5 33 0.73
7 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:42879544 original size:10 final size:9
Alignment explanation
Indices: 42879529--42879593 Score: 57
Period size: 8 Copynumber: 7.3 Consensus size: 9
42879519 TGTTGGTTAA
42879529 ATATTAAATT
1 ATATT-AATT
42879539 ATATT-ATT
1 ATATTAATT
*
42879547 ATATCATATT
1 ATATTA-ATT
*
42879557 -T-TGAATT
1 ATATTAATT
42879564 ATATTAATT
1 ATATTAATT
42879573 ATATTATATT
1 ATATTA-ATT
42879583 ATATT-ATT
1 ATATTAATT
42879591 ATA
1 ATA
42879594 AATAAACTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
7 3 0.06
8 16 0.34
9 12 0.26
10 16 0.34
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATTAATT
Found at i:42880151 original size:16 final size:16
Alignment explanation
Indices: 42880125--42880171 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
42880115 ACATTTATTA
*
42880125 TAATTATTATTATAAT
1 TAATTAATATTATAAT
*
42880141 GT-ATTAATATTATTAT
1 -TAATTAATATTATAAT
42880157 TAATTAATATATATA
1 TAATTAATAT-TATA
42880172 TATAACCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 20 0.80
17 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATTAATATTATAAT
Found at i:42880359 original size:15 final size:15
Alignment explanation
Indices: 42880339--42880369 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42880329 ACTAAATGTA
42880339 ACACCCCATACCCGT
1 ACACCCCATACCCGT
42880354 ACACCCCATACCCGT
1 ACACCCCATACCCGT
42880369 A
1 A
42880370 TCCTGCGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.52, G:0.06, T:0.13
Consensus pattern (15 bp):
ACACCCCATACCCGT
Found at i:42881900 original size:46 final size:46
Alignment explanation
Indices: 42881775--42881981 Score: 179
Period size: 46 Copynumber: 4.4 Consensus size: 46
42881765 CAATGCTGTA
* * * * * *
42881775 TCCCAGACACGTCTTACACTGGCTTATACCTCAAGTCGAAGCCACG
1 TCCCAGACATGTCTTACACTGGCTTACATCTCAAGCCGATGCCATG
* * * *
42881821 TCCTAGACATGGTCTTACATTGAC-TATCATCTCGTAGCCGATG-CATG
1 TCCCAGACAT-GTCTTACACTGGCTTA-CATCTC-AAGCCGATGCCATG
*
42881868 TCCCAGACATGTCTTACACTGGCTTACGTCTCGAAGCCGATG-CATG
1 TCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCCGATGCCATG
** * *
42881914 TCCCAGACACATCTTACACTAGCACT-CATCTCAATGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GCCGATGCCATG
*
42881961 TCCCAAACATGGTCTTACACT
1 TCCCAGACAT-GTCTTACACT
42881982 TGCTCTCACA
Statistics
Matches: 130, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.02
46 71 0.55
47 42 0.32
48 15 0.12
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTTACATCTCAAGCCGATGCCATG
Found at i:42889274 original size:40 final size:40
Alignment explanation
Indices: 42889189--42889339 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
42889179 AATTGAATGA
* * *
42889189 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
42889229 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
42889270 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
42889309 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
42889340 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:42889353 original size:40 final size:40
Alignment explanation
Indices: 42889225--42889355 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
42889215 TATGCTGGAA
* * *
42889225 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
42889265 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
42889305 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
42889345 ATTATATCCGG
1 ATTATATCCGG
42889356 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:42891633 original size:13 final size:13
Alignment explanation
Indices: 42891615--42891639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42891605 CCTGGCACAC
42891615 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
42891628 GCCCGTGTCCTT
1 GCCCGTGTCCTT
42891640 CACACGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:42892704 original size:46 final size:46
Alignment explanation
Indices: 42892624--42892785 Score: 116
Period size: 46 Copynumber: 3.5 Consensus size: 46
42892614 TGGAAGCCAC
* *
42892624 GTCCCAGACAATGTCTTACACTGACTATCATCTCGTA-GCTGATGCAT
1 GTCCCAAAC-ATGTCTTACACTGACTATCATCTCG-AGGCCGATGCAT
* * * *
42892671 GTCCTAAACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATGTAT
1 GTCCCAAACATGTCTTACACTGACTAT-CATCTCGAGGCCGATGCAT
* * * * * *
42892717 GTCCCAGACACGTCTTACACTAGCACT-T-GTCTCAATGCCGATACCAT
1 GTCCCAAACATGTCTTACACT-G-ACTATCATCTCGAGGCCGAT-GCAT
*
42892764 GTCCCAGACATGGTCTTACACT
1 GTCCCAAACAT-GTCTTACACT
42892786 AGCTCTCACA
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
45 2 0.02
46 59 0.63
47 20 0.21
48 13 0.14
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCCCAAACATGTCTTACACTGACTATCATCTCGAGGCCGATGCAT
Found at i:42895386 original size:27 final size:27
Alignment explanation
Indices: 42895356--42895472 Score: 139
Period size: 27 Copynumber: 4.3 Consensus size: 27
42895346 TACTGAAATG
** *
42895356 CCCTCGATTTGTAGAATTACAATTTTA
1 CCCTCGATTTACAAAATTACAATTTTA
* *
42895383 CCCTCGATTTATAAAATTA-ACGTTTTA
1 CCCTCGATTTACAAAATTACA-ATTTTA
*
42895410 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACAATTTTA
*
42895437 CCCTC-AGTTTACAAAATTACCATTTTA
1 CCCTCGA-TTTACAAAATTACAATTTTA
42895464 CCCTCGATT
1 CCCTCGATT
42895473 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.03
27 77 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACAATTTTA
Found at i:42895428 original size:54 final size:54
Alignment explanation
Indices: 42895356--42895472 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
42895346 TACTGAAATG
** * * *
42895356 CCCTCGATTTGTAGAATTACAATTTTACCCTC-GATTTATAAAATTAACGTTTTA
1 CCCTCGATTTACAAAATTACAATTTTACCCTCAG-TTTACAAAATTAACATTTTA
* *
42895410 CCCTCGATTTACAAAATTACCATTTTACCCTCAGTTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACAATTTTACCCTCAGTTTACAAAATTAACATTTTA
42895464 CCCTCGATT
1 CCCTCGATT
42895473 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 54 0.98
55 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACAATTTTACCCTCAGTTTACAAAATTAACATTTTA
Found at i:42895494 original size:27 final size:26
Alignment explanation
Indices: 42895464--42895654 Score: 145
Period size: 27 Copynumber: 7.1 Consensus size: 26
42895454 TACCATTTTA
* **
42895464 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
42895491 CCCTG-TAGGATAGAATTACCAAAATAC
1 CCCTGAT-TG-TAAAATTACCAAAATAC
*
42895518 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
*
42895545 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * * *
42895572 CACTGGTTTGTGAAATTATCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
42895598 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
*
42895626 CCCTGATTTATAAAATTA-CAGAAATAC
1 CCCTGA-TTGTAAAATTACCA-AAATAC
42895653 CC
1 CC
42895655 TTGACTTTCT
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 7 0.05
27 121 0.89
28 6 0.04
29 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:42895545 original size:54 final size:52
Alignment explanation
Indices: 42895471--42895654 Score: 181
Period size: 54 Copynumber: 3.4 Consensus size: 52
42895461 TTACCCTCGA
* ** ** *
42895471 TTGTGAAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGTTTG-TAAAATTACCAAAATACCCCT-GT
*
42895525 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCT-GTTTGTAAAATTACCAAAATACCCCT-GT
* * * **
42895579 TTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCC-CTGTTTGTAAAATTACCAAAATACCCCTG-T
*
42895633 TTATAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
42895655 TTGACTTTCT
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.02
54 103 0.94
55 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (52 bp):
TTGTAAAATTACCAAAATACCCCTGTTTGTAAAATTACCAAAATACCCCTGT
Found at i:42895655 original size:54 final size:56
Alignment explanation
Indices: 42895504--42895655 Score: 199
Period size: 54 Copynumber: 2.8 Consensus size: 56
42895494 TGTAGGATAG
*
42895504 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
* * * *
42895558 AATTACCAAAATACCACTGGTTTGTGAAATTATC-GAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
*
42895612 AATTACCAAAATACCCCTGATTTATAAAATTA-CAGAAATACCCT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCT
42895656 TGACTTTCTA
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
53 1 0.01
54 83 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (56 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
Found at i:42895677 original size:29 final size:27
Alignment explanation
Indices: 42895476--42895710 Score: 128
Period size: 27 Copynumber: 8.6 Consensus size: 27
42895466 CTCGATTGTG
* **
42895476 AAATTACTGAAATACCCCTG-TAGGATA
1 AAATTACAGAAATACCCCTGAT-TTATA
* *
42895503 GAATTACCA-AAATACCCCT-AGTTTGTA
1 AAATTA-CAGAAATACCCCTGA-TTTATA
*
42895530 AAATTACCA-AAATACCCCT-AGTTTGTA
1 AAATTA-CAGAAATACCCCTGA-TTTATA
* * * *
42895557 AAATTACCA-AAATACCACTGGTTTGTG
1 AAATTA-CAGAAATACCCCTGATTTATA
* *
42895584 AAATTATC-GAAATA-CCCTCAATTTGTA
1 AAATTA-CAGAAATACCCCT-GATTTATA
42895611 AAATTACCA-AAATACCCCTGATTTATA
1 AAATTA-CAGAAATACCCCTGATTTATA
* *
42895638 AAATTACAGAAATACCCTTGACTTTCTAA
1 AAATTACAGAAATACCCCTGA-TTTAT-A
* ** * *
42895667 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCCTGATTTATA
*
42895694 AAATTACTGAAATACCC
1 AAATTACAGAAATACCC
42895711 TTGGTTTGTA
Statistics
Matches: 170, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
26 5 0.03
27 133 0.78
28 13 0.08
29 19 0.11
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACAGAAATACCCCTGATTTATA
Found at i:42895705 original size:27 final size:27
Alignment explanation
Indices: 42895666--42895717 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
42895656 TGACTTTCTA
42895666 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
42895693 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
42895718 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:42896683 original size:25 final size:24
Alignment explanation
Indices: 42896645--42896714 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
42896635 AGGAAGTGCT
*
42896645 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
42896669 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
42896694 AGAAAGGGCTTTACCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
42896715 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:42896727 original size:24 final size:24
Alignment explanation
Indices: 42896645--42896727 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 24
42896635 AGGAAGTGCT
* * *
42896645 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTACCCCAGTTTATC
*
42896669 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTACCCCAGTTTATC
*
42896694 AGAAAGGGCTTTACCCCAG-TTATT
1 A-AAAGGGCTTTACCCCAGTTTATC
42896718 AAAAGAGGCT
1 AAAAG-GGCT
42896728 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTACCCCAGTTTATC
Found at i:42896985 original size:31 final size:30
Alignment explanation
Indices: 42896934--42897016 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
42896924 TGCTTATAGT
*
42896934 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATAA
42896964 AAAGGCTTCGGCCTAGTGATATGATTTATAA
1 AAAGGCTTCGGCC-AGTGATATGATTTATAA
42896995 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
42897017 TCGAGACTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 18 0.36
31 30 0.60
32 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATAA
Found at i:42899977 original size:2 final size:2
Alignment explanation
Indices: 42899970--42900004 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42899960 ATATAAACGC
42899970 AT AT AT AT 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 AT AT AT AT A
42900005 AGTTCAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42902016 original size:17 final size:17
Alignment explanation
Indices: 42901990--42902023 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42901980 TATATATTTG
*
42901990 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
42902007 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
42902024 TTAAGTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:42903401 original size:26 final size:24
Alignment explanation
Indices: 42903341--42903450 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
42903331 GAAATGACAT
42903341 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
42903365 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
** * *
42903389 TGGCACTACATGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * *
42903414 -GGCACTATGTGTACAGG-TTAGCA
1 TGGCACTATGTGTGC-GGATTTGAA
42903437 TGGCACTATGTGTG
1 TGGCACTATGTGTG
42903451 TGAATTTCCT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.01
24 68 0.93
25 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:42905087 original size:46 final size:46
Alignment explanation
Indices: 42905032--42905123 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
42905022 AATGGCATAA
42905032 CTCAAAATATTCACAAAAATCAGATTCAAGCATGGGTCTTGTAGAT
1 CTCAAAATATTCACAAAAATCAGATTCAAGCATGGGTCTTGTAGAT
42905078 CTCAAAATATTCACAAAAATCAGATTCAAGCATGGGTCTTGTAGAT
1 CTCAAAATATTCACAAAAATCAGATTCAAGCATGGGTCTTGTAGAT
42905124 AACTTAGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (46 bp):
CTCAAAATATTCACAAAAATCAGATTCAAGCATGGGTCTTGTAGAT
Found at i:42905552 original size:14 final size:14
Alignment explanation
Indices: 42905535--42905564 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
42905525 TTAAATCACG
*
42905535 AAAAGTTCACACAT
1 AAAAATTCACACAT
42905549 AAAAATTCACACAT
1 AAAAATTCACACAT
42905563 AA
1 AA
42905565 TAAACACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAAATTCACACAT
Found at i:42916495 original size:51 final size:51
Alignment explanation
Indices: 42916435--42916538 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
42916425 ATAATAAGTA
42916435 TAATATCATATAAATATCATTAAATCACTTAAAATAAAAATTATGTTACCT
1 TAATATCATATAAATATCATTAAATCACTTAAAATAAAAATTATGTTACCT
42916486 TAATATCATATAAATATCATTAAATCACTTAAAATAAAAATTATGTTACCT
1 TAATATCATATAAATATCATTAAATCACTTAAAATAAAAATTATGTTACCT
42916537 TA
1 TA
42916539 TTTACACATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.38
Consensus pattern (51 bp):
TAATATCATATAAATATCATTAAATCACTTAAAATAAAAATTATGTTACCT
Found at i:42925856 original size:28 final size:28
Alignment explanation
Indices: 42925801--42925856 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
42925791 ATGAATTTGA
* *
42925801 ACTAACAATTTCAGCCAAAATTACTAAT
1 ACTAACAATCTCAGCCAAAATTAATAAT
*
42925829 ACTAACCAATCTCAGCCAACA-TAATAAT
1 ACTAA-CAATCTCAGCCAAAATTAATAAT
42925857 TTTGATAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.25
Consensus pattern (28 bp):
ACTAACAATCTCAGCCAAAATTAATAAT
Found at i:42933643 original size:40 final size:40
Alignment explanation
Indices: 42933588--42933745 Score: 149
Period size: 40 Copynumber: 4.0 Consensus size: 40
42933578 ATAAGCTGGA
*
42933588 AATTATGCTGGAAATTATATCCGGGCTAAGCCCCGAAGAC
1 AATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGAC
* *
42933628 AATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGC
1 AATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGAC
** * **** * *
42933668 AATTGCGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGC
1 AATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGAC
* * *
42933708 -ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAG
1 AATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAG
42933746 GCATTTGTGC
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 3 0.03
40 93 0.97
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
AATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGAC
Found at i:42933769 original size:40 final size:40
Alignment explanation
Indices: 42933602--42933771 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
42933592 ATGCTGGAAA
* * * * ***
42933602 TTATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGG
* * * *
42933642 TTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
42933682 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42933722 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42933762 TTATATCCGG
1 TTATATCCGG
42933772 TTATATTCCG
Statistics
Matches: 101, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
39 1 0.01
40 100 0.99
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42933770 original size:80 final size:80
Alignment explanation
Indices: 42933602--42933771 Score: 202
Period size: 80 Copynumber: 2.1 Consensus size: 80
42933592 ATGCTGGAAA
* *
42933602 TTATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGG
1 TTATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGG
42933667 CAATTGCGCTAGTGG
66 CAATTGCGCTAGTGG
* * * * * *
42933682 CTACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAA
1 TTATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAA
* *
42933745 GGCATTTGTGC-ACGTGG
64 GGCAATTGCGCTA-GTGG
42933762 TTATATCCGG
1 TTATATCCGG
42933772 TTATATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
TTATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGG
CAATTGCGCTAGTGG
Found at i:42941662 original size:40 final size:40
Alignment explanation
Indices: 42941596--42941746 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
42941586 AAATTGAATG
* *
42941596 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
42941635 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
42941675 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
42941715 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
42941747 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:42941760 original size:40 final size:40
Alignment explanation
Indices: 42941633--42941762 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
42941623 ATGCTGGAAA
* * *
42941633 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
42941673 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
42941713 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
42941753 TTATATCCGG
1 TTATATCCGG
42941763 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:42941761 original size:80 final size:79
Alignment explanation
Indices: 42941596--42941762 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
42941586 AAATTGAATG
*
42941596 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
42941661 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
42941675 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
42941738 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
42941755 ATATCCGG
1 ATATCCGG
42941763 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:42948145 original size:40 final size:40
Alignment explanation
Indices: 42948100--42948266 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
42948090 CGGAATATAA
42948100 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
42948140 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
42948180 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
42948220 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
42948259 CCGGATAT
1 CCGGATAT
42948267 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:42954661 original size:40 final size:39
Alignment explanation
Indices: 42954577--42954761 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
42954567 TCGAATGATG
* *
42954577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* *
42954616 ATCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42954657 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
* *
42954696 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
42954735 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
42954762 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:42954715 original size:79 final size:81
Alignment explanation
Indices: 42954577--42954761 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
42954567 TCGAATGATG
* *
42954577 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
42954641 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
42954656 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
42954718 TTTATGCGAGTTACTATA
64 TTTATGCGAGTTACTATA
* *
42954736 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42954762 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:42954783 original size:79 final size:79
Alignment explanation
Indices: 42954632--42954794 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 79
42954622 ACTAAGATCT
* * **
42954632 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
42954697 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
*
42954711 GAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
42954774 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
42954790 GAAGG
1 GAAGG
42954795 TACGTGATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:42964758 original size:47 final size:47
Alignment explanation
Indices: 42964704--42964929 Score: 353
Period size: 49 Copynumber: 4.7 Consensus size: 47
42964694 GATTTTACGC
42964704 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
42964751 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
42964798 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
42964847 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
42964896 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAATGTGTATATATGTGATAAGGCC
42964930 GATGAATGTG
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.45
48 4 0.02
49 87 0.53
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:42964828 original size:96 final size:97
Alignment explanation
Indices: 42964704--42964929 Score: 372
Period size: 96 Copynumber: 2.4 Consensus size: 97
42964694 GATTTTACGC
42964704 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
42964766 GTATATATGTGATAAGGCCGAATGGCCA-ATGT
66 ATATATATGTGATAAGGCCGAATGG-CAGATGT
*
42964798 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42964863 TATATATATGTGATAAGGCCTAATGGCAGATGT
65 TATATATATGTGATAAGGCCGAATGGCAGATGT
42964896 GATGAATGTGAAG-GTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCC
42964930 GATGAATGTG
Statistics
Matches: 123, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
94 10 0.08
95 2 0.02
96 64 0.52
97 8 0.07
98 39 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCGAATGGCAGATGT
Found at i:42964920 original size:16 final size:16
Alignment explanation
Indices: 42964901--42964956 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
42964891 GATGTGATGA
42964901 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
*
42964917 ATGTGATAAGGCCG-ATGA-
1 ATGTG--AAGG-TGTAT-AT
42964935 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
42964951 ATGTGA
1 ATGTGA
42964957 TAGGGCCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
18 11 0.34
19 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGTGAAGGTGTATAT
Found at i:42964935 original size:34 final size:34
Alignment explanation
Indices: 42964896--42964965 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
42964886 TGGCAGATGT
42964896 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
*
42964930 GATGAATGTGAAGGTGTATATATGTGATAGGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
42964964 GA
1 GA
42964966 GTGGCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCC
Found at i:42964986 original size:81 final size:83
Alignment explanation
Indices: 42964847--42965007 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 83
42964837 TGGCCGATGT
* * *
42964847 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
*
42964912 TATATATGTGATAAGGCC
66 TATAAATGTGATAAGGCC
* * * *
42964930 GATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-CAGACGTGATGAATGTGAAAGT
42964992 GTATAAATGTGATAAG
65 GTATAAATGTGATAAG
42965008 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 54 0.78
82 5 0.07
83 10 0.14
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.29
Consensus pattern (83 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
TATAAATGTGATAAGGCC
Found at i:42967039 original size:40 final size:40
Alignment explanation
Indices: 42966941--42967102 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
42966931 CTCGACGATG
* * *
42966941 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG--ATAT
* *
42966983 ATCCGGGTTAAGTCCCGTAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
42967023 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * * *
42967063 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
42967103 GTATTCGGGC
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 72 0.70
42 31 0.30
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:42967144 original size:43 final size:43
Alignment explanation
Indices: 42967095--42967358 Score: 456
Period size: 43 Copynumber: 6.1 Consensus size: 43
42967085 CAGTCATGCT
42967095 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
42967138 AGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
42967181 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* *
42967224 GGTGATATGTATTCGGGTCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
42967267 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* * **
42967310 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
42967353 GGTGAT
1 GGTGAT
42967359 TCGAGCAAGG
Statistics
Matches: 211, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 211 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:42971150 original size:47 final size:47
Alignment explanation
Indices: 42971096--42971321 Score: 353
Period size: 49 Copynumber: 4.7 Consensus size: 47
42971086 GATTTTACGC
42971096 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
42971143 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
42971190 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
42971239 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGT
1 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
42971288 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAATGTGTATATATGTGATAAGGCC
42971322 GATGAATGTG
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.45
48 4 0.02
49 87 0.53
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:42971220 original size:96 final size:97
Alignment explanation
Indices: 42971096--42971321 Score: 372
Period size: 96 Copynumber: 2.4 Consensus size: 97
42971086 GATTTTACGC
42971096 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GT
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
42971158 GTATATATGTGATAAGGCCGAATGGCCA-ATGT
66 ATATATATGTGATAAGGCCGAATGG-CAGATGT
*
42971190 GATGAATGTGAAAGTGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
42971255 TATATATATGTGATAAGGCCTAATGGCAGATGT
65 TATATATATGTGATAAGGCCGAATGGCAGATGT
42971288 GATGAATGTGAAG-GTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCC
42971322 GATGAATGTG
Statistics
Matches: 123, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
94 10 0.08
95 2 0.02
96 64 0.52
97 8 0.07
98 39 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (97 bp):
GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCGAATGGCAGATGT
Found at i:42971312 original size:16 final size:16
Alignment explanation
Indices: 42971293--42971348 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
42971283 GATGTGATGA
42971293 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
*
42971309 ATGTGATAAGGCCG-ATGA-
1 ATGTG--AAGG-TGTAT-AT
42971327 ATGTGAAGGTGTATAT
1 ATGTGAAGGTGTATAT
42971343 ATGTGA
1 ATGTGA
42971349 TAGGGCCGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 17 0.53
18 11 0.34
19 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (16 bp):
ATGTGAAGGTGTATAT
Found at i:42971327 original size:34 final size:34
Alignment explanation
Indices: 42971288--42971357 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
42971278 TGGCAGATGT
42971288 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
*
42971322 GATGAATGTGAAGGTGTATATATGTGATAGGGCC
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCC
42971356 GA
1 GA
42971358 GTGGCCAACG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCC
Found at i:42971378 original size:81 final size:83
Alignment explanation
Indices: 42971239--42971399 Score: 220
Period size: 81 Copynumber: 2.0 Consensus size: 83
42971229 TGGCCGATGT
* * *
42971239 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
*
42971304 TATATATGTGATAAGGCC
66 TATAAATGTGATAAGGCC
* * * *
42971322 GATGAATGTG-AAG-GTGTATATATGTGATAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGG-CAGACGTGATGAATGTGAAAGT
42971384 GTATAAATGTGATAAG
65 GTATAAATGTGATAAG
42971400 TCCCGAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 54 0.78
82 5 0.07
83 10 0.14
ACGTcount: A:0.33, C:0.06, G:0.32, T:0.29
Consensus pattern (83 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCAGACGTGATGAATGTGAAAGTG
TATAAATGTGATAAGGCC
Found at i:42976530 original size:29 final size:29
Alignment explanation
Indices: 42976459--42976583 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
42976449 AAGTTTACAT
* *
42976459 ACATGCATATGGCCCAGTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* **
42976487 TCATTCATATGGCCCATTAGGCCCAAAGG
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
42976516 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
42976545 ACATTCATATGGACCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
42976574 GCATTCATAT
1 ACATTCATAT
42976584 ACATGCTTTC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 21 0.25
29 63 0.75
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:42979251 original size:27 final size:27
Alignment explanation
Indices: 42979220--42979300 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
42979210 TCTTTTTATC
* * *
42979220 CTACAGGGGTATGTCGGTCATTTTACA
1 CTACAAGGGTATATCGGTAATTTTACA
* **
42979247 GTACAAGGGTATATTAGTAATTTTACA
1 CTACAAGGGTATATCGGTAATTTTACA
* *
42979274 CTACAAGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATATCGGTAATTTTACA
42979301 AATCGGGGGT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (27 bp):
CTACAAGGGTATATCGGTAATTTTACA
Found at i:42979310 original size:27 final size:27
Alignment explanation
Indices: 42979279--42979611 Score: 318
Period size: 27 Copynumber: 12.3 Consensus size: 27
42979269 TTACACTACA
*
42979279 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* * * * **
42979306 GGGGTGCTTTAG-TAATTTTAC-ACTACA
1 AGGGT-ATTTCGATAATTTTACAAAT-TG
* * *
42979333 AGGATATTTCGATAATATTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATTG
* * *
42979360 AGGGTGTTT-TAGTAATTTTACAAATTA
1 AGGGTATTTCGA-TAATTTTACAAATTG
* *
42979387 AGGGTATTTTGGTAATTTTACAAATT-
1 AGGGTATTTCGATAATTTTACAAATTG
*
42979413 AGGGGTATTT-TAGTAATTTTACAAATTG
1 A-GGGTATTTCGA-TAATTTTACAAATTG
**
42979441 AGGGTATTTCGGGAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
* * *
42979468 AAGGTATTTTGGTAATTTTACAAATT-
1 AGGGTATTTCGATAATTTTACAAATTG
*
42979494 AGGGGTATTTCGATAATTTTACAAATCG
1 A-GGGTATTTCGATAATTTTACAAATTG
* * *
42979522 GGGGTACTTCGATAATTTTCCAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
42979549 AGGGTATTTCGATAATTTTCCAAATTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
42979576 AGGGTATTTCGATAATTTTACAAACTG
1 AGGGTATTTCGATAATTTTACAAATTG
*
42979603 GGGGTATTT
1 AGGGTATTT
42979612 TAGTAATTTC
Statistics
Matches: 252, Mismatches: 42, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
26 9 0.04
27 236 0.94
28 7 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATTG
Found at i:42979318 original size:54 final size:54
Alignment explanation
Indices: 42979253--42979599 Score: 351
Period size: 54 Copynumber: 6.4 Consensus size: 54
42979243 TACAGTACAA
* * *
42979253 GGGTATATTAGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTTAGTAATTTTACAAAT-TAAGGGTATTTCGATAATTTTACAAATCGG
** * * * * *
42979307 GGGTGCTTTAGTAATTTTAC-ACTACAAGGATATTTCGATAATATTACAAATCGA
1 GGGTATTTTAGTAATTTTACAAAT-TAAGGGTATTTCGATAATTTTACAAATCGG
* * * **
42979361 GGGTGTTTTAGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTAGTAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAATCGG
* ** * *
42979415 GGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGGGAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAATCGG
* * *
42979469 AGGTATTTTGGTAATTTTACAAATTAGGGGTATTTCGATAATTTTACAAATCGG
1 GGGTATTTTAGTAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAATCGG
* * * * * * *
42979523 GGGTA-CTTCGATAATTTTCCAAATTGAGGGTATTTCGATAATTTTCCAAATTGA
1 GGGTATTTTAG-TAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAATCGG
*
42979577 GGGTA-TTTCGATAATTTTACAAA
1 GGGTATTTTAG-TAATTTTACAAA
42979600 CTGGGGGTAT
Statistics
Matches: 250, Mismatches: 41, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
53 3 0.01
54 245 0.98
55 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATTAAGGGTATTTCGATAATTTTACAAATCGG
Found at i:42979364 original size:81 final size:81
Alignment explanation
Indices: 42979279--42979599 Score: 362
Period size: 81 Copynumber: 4.0 Consensus size: 81
42979269 TTACACTACA
* * ** * * * * *
42979279 AGGGTATTTCGATAATTTTACAAATCGGGGGTGCTTTAGTAATTTTAC-ACTACAAGGATATTTC
1 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAAT-TAGGGGTATTTC
*
42979343 GATAATATTACAAATCG
65 GATAATTTTACAAATCG
* * *
42979360 AGGGTGTTT-TAGTAATTTTACAAATTAAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTT-
1 AGGGTATTTCGA-TAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTC
* *
42979423 TAGTAATTTTACAAATTG
65 GA-TAATTTTACAAATCG
** *
42979441 AGGGTATTTCGGGAATTTTACAAATTGAAGGTATTTTGGTAATTTTACAAATTAGGGGTATTTCG
1 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTCG
42979506 ATAATTTTACAAATCG
66 ATAATTTTACAAATCG
* * * * * *
42979522 GGGGTACTTCGATAATTTTCCAAATTGAGGGTATTTCGATAATTTTCCAAATT-GAGGGTATTTC
1 AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTAG-GGGTATTTC
42979586 GATAATTTTACAAA
65 GATAATTTTACAAA
42979600 CTGGGGGTAT
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.01
81 196 0.97
82 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTCG
ATAATTTTACAAATCG
Found at i:42979972 original size:28 final size:28
Alignment explanation
Indices: 42979937--42980006 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
42979927 TGGCCCCTTT
* * *
42979937 AGGCCCAATCTCGTTCACATGGACCATC
1 AGGCCCAATCACATACACATGGACCATC
* * *
42979965 AGTCCCAATCACATACATATGGCCCATC
1 AGGCCCAATCACATACACATGGACCATC
42979993 AGGCCCAATCACAT
1 AGGCCCAATCACAT
42980007 TTATACGGCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.36, G:0.14, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATACACATGGACCATC
Found at i:42980016 original size:28 final size:28
Alignment explanation
Indices: 42979960--42980028 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
42979950 TTCACATGGA
* *
42979960 CCATCAGTCCCAATCACATACATATGGC
1 CCATCAGGCCCAATCACATACATACGGC
**
42979988 CCATCAGGCCCAATCACATTTATACGGC
1 CCATCAGGCCCAATCACATACATACGGC
*
42980016 CTATCAGGCCCAA
1 CCATCAGGCCCAA
42980029 CTACTTTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.20
Consensus pattern (28 bp):
CCATCAGGCCCAATCACATACATACGGC
Found at i:42983236 original size:2 final size:2
Alignment explanation
Indices: 42983229--42983260 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42983219 GACTATACGC
42983229 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
42983261 GGATGGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42986587 original size:17 final size:17
Alignment explanation
Indices: 42986565--42986603 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
42986555 TAAGTGTCAG
42986565 AAAAGTTTTGATCAGTT
1 AAAAGTTTTGATCAGTT
42986582 AAAAGTTTTGATCAGTT
1 AAAAGTTTTGATCAGTT
42986599 AAAAG
1 AAAAG
42986604 CTTTATTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (17 bp):
AAAAGTTTTGATCAGTT
Found at i:42992555 original size:54 final size:54
Alignment explanation
Indices: 42992479--42992599 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
42992469 AATACTTTAG
* *** * *
42992479 TTTACTAAATTACCAAAGTACCCCCGATTTATAGAATTACTGTTCTACCCTCGA
1 TTTACAAAATTACCATTTTACCCCCGATTTAGAGAATTACTATTCTACCCTCGA
* * * *
42992533 TTTATAGAATTACCATTTTACCCTCGATTTAGAGAATTACTATTTTACCCTCGA
1 TTTACAAAATTACCATTTTACCCCCGATTTAGAGAATTACTATTCTACCCTCGA
42992587 TTTACAAAATTAC
1 TTTACAAAATTAC
42992600 TAAAATACTC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
TTTACAAAATTACCATTTTACCCCCGATTTAGAGAATTACTATTCTACCCTCGA
Found at i:42992600 original size:27 final size:27
Alignment explanation
Indices: 42992497--42992779 Score: 176
Period size: 27 Copynumber: 10.4 Consensus size: 27
42992487 ATTACCAAAG
* * * *
42992497 TACCCCCGATTTATAGAATTACTGTTC
1 TACCCTCGATTTATAAAATTACTATTT
* *
42992524 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTATTT
* *
42992551 TACCCTCGATTTAGAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTATTT
* ***
42992578 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTATTT
* * ***
42992605 TACTCCT-GGTTTGTAAAATTACTAAAA
1 TAC-CCTCGATTTATAAAATTACTATTT
* * * **
42992632 TACCCCTTGATTTGTAAAATTATTGA-AA
1 TA-CCCTCGATTTATAAAATTACT-ATTT
* * ***
42992660 TACCCTTGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACTATTT
* *
42992688 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTATTT
* * *
42992715 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTATTT
* * **
42992742 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTATTT
42992769 TACCCTCGATT
1 TACCCTCGATT
42992780 GTGAAATTAC
Statistics
Matches: 216, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.01
27 172 0.80
28 40 0.19
29 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTATTT
Found at i:42992678 original size:28 final size:28
Alignment explanation
Indices: 42992592--42992692 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
42992582 CTCGATTTAC
* **
42992592 AAAATTACTAAAATACTCC-TGGTTTGT
1 AAAATTACTAAAATACCCCTTGACTTGT
*
42992619 AAAATTACTAAAATACCCCTTGATTTGT
1 AAAATTACTAAAATACCCCTTGACTTGT
* *
42992647 AAAATTATTGAAATA-CCCTTGACTTGT
1 AAAATTACTAAAATACCCCTTGACTTGT
* *
42992674 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
42992693 TCGATTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 29 0.47
28 31 0.50
29 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCTTGACTTGT
Found at i:42992699 original size:55 final size:54
Alignment explanation
Indices: 42992578--42992710 Score: 142
Period size: 55 Copynumber: 2.4 Consensus size: 54
42992568 ATTACTATTT
* ** *
42992578 TACCCTCGATTTACAAAATTACTAAAATACTCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACTCCTGACTTGTAAAATTACCAAAA
* * * * *
42992632 TACCCCTTGATTTGTAAAATTATTGAAATAC-CCTTGACTTGTAAAAATTACCAAAG
1 TA-CCCTCGATTTATAAAATTACTAAAATACTCC-TGACTTGT-AAAATTACCAAAA
*
42992688 TACCCTCGATTTATAGAATTACT
1 TACCCTCGATTTATAAAATTACT
42992711 GTTTTACCCT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
54 4 0.06
55 46 0.73
56 13 0.21
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACTCCTGACTTGTAAAATTACCAAAA
Found at i:42992814 original size:27 final size:27
Alignment explanation
Indices: 42992784--42993409 Score: 801
Period size: 27 Copynumber: 23.3 Consensus size: 27
42992774 TCGATTGTGA
* *
42992784 AATTACTGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
42992811 AATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
42992838 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
42992865 AATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
42992892 AATTACCG-AATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42992918 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42992945 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
42992972 AATTATTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42992999 AAATACAGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42993026 AAATACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
42993053 AAATACCGAAATACCTTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42993080 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42993107 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
42993134 AATTACTGAAACACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42993161 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
42993188 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
42993215 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42993242 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
42993269 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
42993296 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
42993323 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
42993350 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
42993377 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
42993403 AATTACC
1 AATTACC
42993410 ATTTTGCCCC
Statistics
Matches: 526, Mismatches: 68, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
26 40 0.08
27 485 0.92
28 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:42993664 original size:27 final size:26
Alignment explanation
Indices: 42993626--42993677 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
42993616 CTCGCTGCAA
*
42993626 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
42993653 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
42993678 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:42993715 original size:67 final size:67
Alignment explanation
Indices: 42993607--42993760 Score: 290
Period size: 67 Copynumber: 2.3 Consensus size: 67
42993597 GAGGAAGCGT
*
42993607 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
42993672 TA
66 TA
42993674 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
42993739 TA
66 TA
*
42993741 TCTGGTAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
42993761 TTCTGTGGTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
TA
Found at i:42993731 original size:27 final size:26
Alignment explanation
Indices: 42993693--42993743 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
42993683 CTCGCTGCAA
*
42993693 TCTGGTGGCTTCGCCACATATATCTAT
1 TCTGGTGACTTCGCCACA-ATATCTAT
*
42993720 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACTTCGCCACAATATCT
42993744 GGTAGCCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTAT
Found at i:42993895 original size:6 final size:6
Alignment explanation
Indices: 42993863--42993944 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
42993853 TTGCATTCAC
* *
42993863 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
42993912 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
42993945 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:42993942 original size:31 final size:31
Alignment explanation
Indices: 42993863--42993935 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
42993853 TTGCATTCAC
* * *
42993863 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
42993894 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
42993925 ATTCTGATTCT
1 ATTCTGATTCT
42993936 AGTTCTGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:42997845 original size:15 final size:15
Alignment explanation
Indices: 42997825--42997880 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
42997815 GTATCTTGGG
42997825 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
42997840 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
42997855 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
42997870 TTTCTTTATTC
1 TTTCTTTATTC
42997881 AGTTTTCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 4 0.11
15 27 0.77
16 4 0.11
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43000144 original size:49 final size:50
Alignment explanation
Indices: 43000014--43000200 Score: 229
Period size: 49 Copynumber: 3.8 Consensus size: 50
43000004 AATGATCTAT
* * * * *
43000014 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAAC
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA--C-TAGAC
* *
43000067 TGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
*
43000114 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
* *
43000164 TGT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
43000201 TGCGTACCAG
Statistics
Matches: 120, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
47 5 0.04
48 2 0.02
49 72 0.60
50 3 0.03
51 33 0.28
53 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (50 bp):
TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
Found at i:43000160 original size:23 final size:23
Alignment explanation
Indices: 43000083--43000160 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
43000073 CACGTGTGTA
43000083 GTACTAAGTGCAGGCTACTACGT
1 GTACTAAGTGCAGGCTACTACGT
* **
43000106 GTATTAGATGTG-AGG-TCACGTGTGT
1 GTACTA-A-GTGCAGGCT-AC-TACGT
43000131 AGTACTAAGTGCAGGCTACTACGT
1 -GTACTAAGTGCAGGCTACTACGT
43000155 GTACTA
1 GTACTA
43000161 GACTGTTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
23 12 0.29
24 12 0.29
25 12 0.29
26 6 0.14
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (23 bp):
GTACTAAGTGCAGGCTACTACGT
Found at i:43005839 original size:17 final size:18
Alignment explanation
Indices: 43005797--43005845 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
43005787 AGTTGAAAAG
43005797 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
43005816 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
43005833 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
43005846 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:43006734 original size:40 final size:40
Alignment explanation
Indices: 43006668--43006834 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
43006658 AAATTGAATG
* *
43006668 ATATCCGGGCTAAG-CCCGAAGACAATTGTGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
43006707 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
43006747 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43006787 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43006827 ATATCCGG
1 ATATCCGG
43006835 TTATATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 16 0.15
40 88 0.83
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43006801 original size:80 final size:79
Alignment explanation
Indices: 43006668--43006834 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 79
43006658 AAATTGAATG
*
43006668 ATATCCGGGCTAAGCCCGAAGACAATTGTGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTGTGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
43006733 TTGTGCTA-GTGGTT
66 TTGTGC-ACGTGATT
* ** *
43006747 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAA-GCCCGAAGACAATT-GTGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
43006810 CATTTGTGCACGTGATT
63 CAATTGTGCACGTGATT
43006827 ATATCCGG
1 ATATCCGG
43006835 TTATATTCCG
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
79 18 0.23
80 59 0.77
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTGTGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCACGTGATT
Found at i:43013984 original size:5 final size:5
Alignment explanation
Indices: 43013974--43014005 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
43013964 ATACGTGTGA
43013974 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
43014006 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43013999 original size:9 final size:9
Alignment explanation
Indices: 43013975--43014005 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
43013965 TACGTGTGAA
43013975 AAATAAAAT
1 AAATAAAAT
43013984 AAAATAAAAT
1 -AAATAAAAT
43013994 AAATAAAAT
1 AAATAAAAT
43014003 AAA
1 AAA
43014006 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:43046032 original size:27 final size:27
Alignment explanation
Indices: 43045991--43046117 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
43045981 CCTCACATAG
* *
43045991 GGGCAAAATAGTCATTTTACCTCAAAA
1 GGGCAAAACAGTCATTTTACCACAAAA
* *
43046018 GGGAAAAACAATCATTTTACCACAAAA
1 GGGCAAAACAGTCATTTTACCACAAAA
* * *
43046045 GGGCAAAATAGTTATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACAAAA
*
43046072 GGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACAAAA
* *
43046099 GGGTAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
43046118 TTAATTTGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACAAAA
Found at i:43046074 original size:54 final size:54
Alignment explanation
Indices: 43045991--43046117 Score: 191
Period size: 54 Copynumber: 2.4 Consensus size: 54
43045981 CCTCACATAG
*
43045991 GGGCAAAATAGTCATTTTACCTCAAAAGGGAAAAACAATCATTTTACCACAAAA
1 GGGCAAAATAGTCATTTTACCACAAAAGGGAAAAACAATCATTTTACCACAAAA
* * * * *
43046045 GGGCAAAATAGTTATTTTACCACATAAGGGCAAAACAGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTACCACAAAAGGGAAAAACAATCATTTTACCACAAAA
*
43046099 GGGTAAAATAGTCATTTTA
1 GGGCAAAATAGTCATTTTA
43046118 TTAATTTGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (54 bp):
GGGCAAAATAGTCATTTTACCACAAAAGGGAAAAACAATCATTTTACCACAAAA
Found at i:43049333 original size:18 final size:18
Alignment explanation
Indices: 43049293--43049340 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
43049283 CTTGGCCCAT
43049293 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAATAG
* *
43049311 AGCAGTAACAGT-AATCTG
1 TGCAGTAACAGTAAAT-AG
43049329 TGCAGTAACAGT
1 TGCAGTAACAGT
43049341 TTAAACAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:43049765 original size:27 final size:27
Alignment explanation
Indices: 43049694--43049902 Score: 217
Period size: 27 Copynumber: 7.7 Consensus size: 27
43049684 TATCTCACAT
* *
43049694 AGGGACAAAATAGTCAATTTACCATGTA
1 AGGG-CAAAATAGTCATTTTACCATATA
* ** * **
43049722 GGGGC-ATTTCAGCCATTTTACCATGGA
1 AGGGCAAAAT-AGTCATTTTACCATATA
* *
43049749 AGGGCAAAACAGTCATTTTACC-TCATC
1 AGGGCAAAATAGTCATTTTACCAT-ATA
43049776 AGGG-ACAAATAGTCATTTTACCATATA
1 AGGGCA-AAATAGTCATTTTACCATATA
*
43049803 GGGGCAAAATAGTCATTTTACCATATA
1 AGGGCAAAATAGTCATTTTACCATATA
* *
43049830 AGGGAAAAATAGTCATTTTACCACATA
1 AGGGCAAAATAGTCATTTTACCATATA
*
43049857 AGGGCAAAATAGTCATTTTACCACATA
1 AGGGCAAAATAGTCATTTTACCATATA
* *
43049884 AGGGTAAAACAGTCATTTT
1 AGGGCAAAATAGTCATTTT
43049903 TTTAATTTTT
Statistics
Matches: 152, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
26 4 0.03
27 142 0.93
28 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (27 bp):
AGGGCAAAATAGTCATTTTACCATATA
Found at i:43049844 original size:81 final size:82
Alignment explanation
Indices: 43049689--43049902 Score: 256
Period size: 81 Copynumber: 2.6 Consensus size: 82
43049679 ATAAATATCT
* * ** * *
43049689 CACAT-AGGGACAAAATAGTCAATTTACCATGTAGGGGC-ATTTCAGCCATTTTACCATGGAAGG
1 CACATAAGGGACAAAATAGTCATTTTACCATATAGGGGCAAAAT-AGTCATTTTACCATAGAAGG
*
43049752 GCAAAACAGTCATTTTAC
65 GAAAAACAGTCATTTTAC
* * *
43049770 CTCATCAGGGAC-AAATAGTCATTTTACCATATAGGGGCAAAATAGTCATTTTACCATATAAGGG
1 CACATAAGGGACAAAATAGTCATTTTACCATATAGGGGCAAAATAGTCATTTTACCATAGAAGGG
*
43049834 AAAAATAGTCATTTTAC
66 AAAAACAGTCATTTTAC
* * * *
43049851 CACATAAGGG-CAAAATAGTCATTTTACCACATAAGGGTAAAACAGTCATTTT
1 CACATAAGGGACAAAATAGTCATTTTACCATATAGGGGCAAAATAGTCATTTT
43049903 TTTAATTTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 105 0.92
82 8 0.07
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (82 bp):
CACATAAGGGACAAAATAGTCATTTTACCATATAGGGGCAAAATAGTCATTTTACCATAGAAGGG
AAAAACAGTCATTTTAC
Found at i:43054002 original size:40 final size:40
Alignment explanation
Indices: 43053936--43054087 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
43053926 AAATTGAATG
* * ** *
43053936 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* ***
43053975 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
*
43054015 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* *
43054055 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA
43054088 CATGGTTATA
Statistics
Matches: 95, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:43054100 original size:40 final size:40
Alignment explanation
Indices: 43053973--43054102 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
43053963 ATGCTGGAAA
* *
43053973 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
* * **
43054013 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
*
43054053 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-TGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-AGTGG
43054093 TTATATCCGG
1 TTATATCCGG
43054103 TTATATTCCG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 76 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGG
Found at i:43061140 original size:52 final size:52
Alignment explanation
Indices: 43061062--43061167 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
43061052 GCACACATTA
43061062 TTGACATGATTCCATTAGCTTATATTCTTTCTTTAGGTTTAGATTTGTTCTC
1 TTGACATGATTCCATTAGCTTATATTCTTTCTTTAGGTTTAGATTTGTTCTC
43061114 TTGACATGATTCCATTAGCTTATATTCTTTCTTTAGGTTTAGATTTGTTCTC
1 TTGACATGATTCCATTAGCTTATATTCTTTCTTTAGGTTTAGATTTGTTCTC
43061166 TT
1 TT
43061168 TCTTTTTTAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.19, C:0.15, G:0.13, T:0.53
Consensus pattern (52 bp):
TTGACATGATTCCATTAGCTTATATTCTTTCTTTAGGTTTAGATTTGTTCTC
Found at i:43063441 original size:25 final size:25
Alignment explanation
Indices: 43063413--43063463 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
43063403 GACAAATGTC
43063413 AAGTAAGTGCAGTCTGAGTGCACCA
1 AAGTAAGTGCAGTCTGAGTGCACCA
43063438 AAGTAAGTGCAGTCTGAGTGCACCA
1 AAGTAAGTGCAGTCTGAGTGCACCA
43063463 A
1 A
43063464 CTCAACAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
AAGTAAGTGCAGTCTGAGTGCACCA
Found at i:43068083 original size:16 final size:15
Alignment explanation
Indices: 43068063--43068095 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
43068053 GCTTTCTTAG
43068063 GTTTTTATAATTTTA
1 GTTTTTATAATTTTA
43068078 GTTTTTATAATTTTA
1 GTTTTTATAATTTTA
43068093 GTT
1 GTT
43068096 CAATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (15 bp):
GTTTTTATAATTTTA
Found at i:43069862 original size:20 final size:20
Alignment explanation
Indices: 43069834--43069874 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
43069824 TAGGTTTCGG
*
43069834 TCAAGCCATGTTTTCTTGCA
1 TCAAACCATGTTTTCTTGCA
43069854 TCAAACCATGTTTTCTTGCA
1 TCAAACCATGTTTTCTTGCA
43069874 T
1 T
43069875 GGTATGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (20 bp):
TCAAACCATGTTTTCTTGCA
Found at i:43073120 original size:30 final size:30
Alignment explanation
Indices: 43073079--43073139 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
43073069 TTCCCGAGCC
43073079 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* * *
43073109 TAGGGGTAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
43073139 T
1 T
43073140 GTACTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:43073617 original size:46 final size:46
Alignment explanation
Indices: 43073567--43073739 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
43073557 TGGTTGAGCA
43073567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
43073613 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
43073658 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
43073706 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43073740 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 61 0.57
47 29 0.27
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:43073723 original size:93 final size:93
Alignment explanation
Indices: 43073564--43073734 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
43073554 GGATGGTTGA
*
43073564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
43073629 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
43073657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
43073722 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43073735 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:43081804 original size:36 final size:36
Alignment explanation
Indices: 43081757--43081828 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
43081747 CTAAATAATG
*
43081757 AGTAAGTTATGAAATTGAAGCTTAATGAGTCTATTT
1 AGTAAGTTATGAAATTGAAGCATAATGAGTCTATTT
43081793 AGTAAGTTATGAAATTGAAGCATAATGAGTCTATTT
1 AGTAAGTTATGAAATTGAAGCATAATGAGTCTATTT
43081829 TCATGTGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (36 bp):
AGTAAGTTATGAAATTGAAGCATAATGAGTCTATTT
Found at i:43086174 original size:79 final size:81
Alignment explanation
Indices: 43086073--43086257 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
43086063 ACGACTCGCT
** * *
43086073 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACT-
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCT-ACTC
* *
43086135 CGGGTTTAGTAACTT-GCA
63 CGGATATAGTAACTTAGCA
* *
43086153 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTACTCCGG
*
43086217 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
43086233 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43086258 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 52 0.57
80 34 0.37
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTACTCCGG
ATATAGTAACTTAGCA
Found at i:43086257 original size:40 final size:39
Alignment explanation
Indices: 43086066--43086257 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 39
43086056 GGATATAACG
* ** * *
43086066 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
43086106 ACTCGCACGAATGCCTTCGGGACTTAACTCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43086146 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43086185 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
43086225 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
43086258 CATCATTCGA
Statistics
Matches: 119, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 78 0.66
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43090246 original size:95 final size:91
Alignment explanation
Indices: 43090083--43090341 Score: 263
Period size: 95 Copynumber: 2.8 Consensus size: 91
43090073 TACTTGTGTA
* *
43090083 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGATAGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTCT
* *
43090148 GGGACATGGTATCGATG-TAGAGAATGAGCG
66 GGGACA-CGCATCG--GCTA-AGAAT-AGCG
* * * *
43090178 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCCAGTGTAAGA-CGTGTC
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AAGATGATAGCCAGTGTAAGACCATGTC
* * *
43090242 TGGGACACGCATCGGCTAAGAGTTGTG
65 TGGGACACGCATCGGCTAAGAATAGCG
* * * * * *
43090269 CTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGTATAGACGAGAGCTAGTATAAGACCATG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCA--CA-AGATGATAGCCAGTGTAAGACCATG
43090333 TCTGGGACA
63 TCTGGGACA
43090342 TGGCATCAGA
Statistics
Matches: 137, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
90 1 0.01
91 33 0.24
92 20 0.15
93 14 0.10
94 5 0.04
95 45 0.33
96 19 0.14
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (91 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTCT
GGGACACGCATCGGCTAAGAATAGCG
Found at i:43090376 original size:49 final size:47
Alignment explanation
Indices: 43090083--43090397 Score: 243
Period size: 49 Copynumber: 6.6 Consensus size: 47
43090073 TACTTGTGTA
* * * *
43090083 CCAGTGTAAGACATGTCTAGGACATGCATCAGCCACAAT-ATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGATGATGATAG
* * * **
43090129 CCAGTGTAAGACCATGTCTGGGACATGGTATC-GATGTAGA-GAATGAGCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGA-CTCGATG-ATGATAG
* * *
43090178 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGATGATGATAG
* * * * *
43090225 CCAGTGTAAGACGTGTCTGGGACACGCATC-GGCTAAGA-GTTG-T-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGACT-CGATGATGATAG
* * *
43090269 CTAGTGTAAGACATGTCTGGGACATGCATCAG-CAT-GTATAGACGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGAC-TCG-AT-GATGATAG
* *
43090317 CTAGTATAAGACCATGTCTGGGACATGGCATCAGACTCGATGATGATAG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGACTCGATGATGATAG
* *
43090366 CCAGTGTAAGACCATGTCCGGGATATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATC
43090398 GGTTACATAT
Statistics
Matches: 217, Mismatches: 33, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 3 0.01
46 19 0.09
47 56 0.26
48 32 0.15
49 64 0.29
50 10 0.05
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGACTCGATGATGATAG
Found at i:43095157 original size:14 final size:15
Alignment explanation
Indices: 43095130--43095171 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
43095120 AATGATAAGA
43095130 AAATAATAAGAAAAT
1 AAATAATAAGAAAAT
43095145 AAATAAT-AGAAAAT
1 AAATAATAAGAAAAT
43095159 AAATGAA-AAGAAA
1 AAAT-AATAAGAAA
43095172 GAAATCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (15 bp):
AAATAATAAGAAAAT
Found at i:43096726 original size:48 final size:48
Alignment explanation
Indices: 43096655--43096759 Score: 183
Period size: 48 Copynumber: 2.2 Consensus size: 48
43096645 GGAGACAATC
*
43096655 AAACCTTATGGATTCACGATCAATCTTAATACAATTAGTCTCTTTTGT
1 AAACCTTATGGATTCACGATCAATCTTAATACAATCAGTCTCTTTTGT
*
43096703 AAACCTTATGGATTCACGATCAATCTTAATATAATCAGTCTCTTTTGT
1 AAACCTTATGGATTCACGATCAATCTTAATACAATCAGTCTCTTTTGT
*
43096751 AAACTTTAT
1 AAACCTTAT
43096760 ATTGTCGATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (48 bp):
AAACCTTATGGATTCACGATCAATCTTAATACAATCAGTCTCTTTTGT
Found at i:43100738 original size:24 final size:25
Alignment explanation
Indices: 43100677--43100738 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
43100667 ATAAAATTTT
*
43100677 AATT-TAATTCTTTAAAAATTATATA
1 AATTATAATT-TTTTAAAATTATATA
*
43100702 AA-TATAGA-CTTTTAAAATTATA-A
1 AATTATA-ATTTTTTAAAATTATATA
43100725 AATTATAATTTTTT
1 AATTATAATTTTTT
43100739 TATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
23 4 0.13
24 21 0.70
25 4 0.13
26 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (25 bp):
AATTATAATTTTTTAAAATTATATA
Found at i:43103500 original size:14 final size:14
Alignment explanation
Indices: 43103481--43103527 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
43103471 AAGTAAACTT
43103481 ATATAACAAAAGTA
1 ATATAACAAAAGTA
* * *
43103495 ATATAA-TAAACTT
1 ATATAACAAAAGTA
43103508 ATATAACAAAAGTA
1 ATATAACAAAAGTA
43103522 ATATAA
1 ATATAA
43103528 TAATAAAGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (14 bp):
ATATAACAAAAGTA
Found at i:43103540 original size:30 final size:27
Alignment explanation
Indices: 43103474--43103530 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
43103464 ACAAATAAAG
43103474 TAAACTTATATAACAAAAGTAATATAA
1 TAAACTTATATAACAAAAGTAATATAA
43103501 TAAACTTATATAACAAAAGTAATATAA
1 TAAACTTATATAACAAAAGTAATATAA
43103528 TAA
1 TAA
43103531 TAAAGTTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.30
Consensus pattern (27 bp):
TAAACTTATATAACAAAAGTAATATAA
Found at i:43105479 original size:25 final size:25
Alignment explanation
Indices: 43105442--43105494 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
43105432 AGGTTGAGCC
*
43105442 ATTCAAAGTTTTCATCTAGTTTTGG
1 ATTCAAAGATTTCATCTAGTTTTGG
43105467 ATTCAAAGATTTCATCTAGTTTTGG
1 ATTCAAAGATTTCATCTAGTTTTGG
43105492 ATT
1 ATT
43105495 TAGTTCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (25 bp):
ATTCAAAGATTTCATCTAGTTTTGG
Found at i:43113437 original size:11 final size:11
Alignment explanation
Indices: 43113421--43113445 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43113411 ATATGATATT
43113421 TTATTATTTTA
1 TTATTATTTTA
43113432 TTATTATTTTA
1 TTATTATTTTA
43113443 TTA
1 TTA
43113446 GTATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:43121180 original size:49 final size:49
Alignment explanation
Indices: 43121120--43121242 Score: 201
Period size: 49 Copynumber: 2.5 Consensus size: 49
43121110 TACATATATG
*
43121120 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
43121169 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
43121218 TGTAATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
43121243 AAAATATATG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
Found at i:43121391 original size:37 final size:37
Alignment explanation
Indices: 43121345--43121423 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
43121335 GTTCCGGGCG
*
43121345 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACTCGATGACTACGTGTGGAGATTATGACCGGGTA
43121382 AGACTCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACTCGATGACTACGTGTGGAGATTATGACCGGGTA
43121419 AGACT
1 AGACT
43121424 TCTTTTATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.23
Consensus pattern (37 bp):
AGACTCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:43124957 original size:28 final size:28
Alignment explanation
Indices: 43124888--43124988 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43124878 GACAAGATTG
* * * *
43124888 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
43124918 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43124946 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
43124975 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43124989 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43132910 original size:28 final size:28
Alignment explanation
Indices: 43132841--43132941 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43132831 GACAAGATTG
* * * *
43132841 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
43132871 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43132899 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
43132928 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43132942 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43134607 original size:29 final size:29
Alignment explanation
Indices: 43134575--43134793 Score: 393
Period size: 29 Copynumber: 7.6 Consensus size: 29
43134565 CGTTAACCGA
43134575 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
43134604 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
43134633 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
43134662 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
43134691 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
43134720 GCACTATGTGTGCGAAATCAGTAATGGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
43134749 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
43134778 GCACTGTGTGTACGAG
1 GCACTATGTGTGCGAG
43134794 TTTTTCAACA
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 184 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:43134614 original size:58 final size:58
Alignment explanation
Indices: 43134543--43134788 Score: 388
Period size: 58 Copynumber: 4.2 Consensus size: 58
43134533 CGAATGATTA
* * *
43134543 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAATCGAGGCACTATGTGTGCGAGATCAGTAATC
*
43134601 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
*
43134659 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
* *
43134717 GAGGCACTATGTGTGCGAAATCAGTAATGGAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
*
43134775 GAGGCACTGTGTGT
1 GAGGCACTATGTGT
43134789 ACGAGTTTTT
Statistics
Matches: 178, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
57 6 0.03
58 170 0.96
59 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:43134644 original size:87 final size:87
Alignment explanation
Indices: 43134543--43134793 Score: 398
Period size: 87 Copynumber: 2.9 Consensus size: 87
43134533 CGAATGATTA
* * *
43134543 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATCGAGGC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGC
43134606 ACTATGTGTGCGAGATCAGTAATC
64 ACTATGTGTGCGAGATCAGTAATC
*
43134630 GAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
1 GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
43134695 TATGTGTGCGAGATCAGTAATC
66 TATGTGTGCGAGATCAGTAATC
* *
43134717 GAGGCACTATGTGTGCGAAATCAGTAATGGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
1 GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
* *
43134782 TGTGTGTACGAG
66 TATGTGTGCGAG
43134794 TTTTTCAACA
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
86 6 0.04
87 145 0.95
88 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (87 bp):
GAGGCACTATGTGTGCGAAATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
TATGTGTGCGAGATCAGTAATC
Found at i:43135375 original size:40 final size:41
Alignment explanation
Indices: 43135277--43135375 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
43135267 TTCGAATGGT
* ** * *
43135277 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
43135318 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-A
43135359 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
43135376 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:43138590 original size:49 final size:49
Alignment explanation
Indices: 43138473--43138743 Score: 454
Period size: 49 Copynumber: 5.5 Consensus size: 49
43138463 TACATATATG
*
43138473 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--TGTATA
*
43138524 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
43138573 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43138622 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43138671 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
43138720 TGT-ATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
43138744 AAAATATATG
Statistics
Matches: 211, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
48 20 0.09
49 148 0.70
51 43 0.20
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:43138896 original size:37 final size:37
Alignment explanation
Indices: 43138846--43138923 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
43138836 GTTCCGGGCG
*
43138846 AGACCCGATGACTACGTGTGGAGATTATGACTGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
*
43138883 AGACCCGATGACTACTTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
43138920 AGAC
1 AGAC
43138924 TTCTTTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:43140526 original size:28 final size:28
Alignment explanation
Indices: 43140495--43140627 Score: 115
Period size: 29 Copynumber: 4.7 Consensus size: 28
43140485 ACTGACCGAT
**
43140495 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCAATT-ACAGAA
* * *
43140523 CTCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACATAGTG-CTCAATTACAGAA
* *
43140552 CTCGCACACATAGTGCTCAGTTAAAGGAA
1 CTCGCACACATAGTGCTCAATTACA-GAA
* * * * * *
43140581 TTTGCACACACAGTCCTCAATTACCGAT
1 CTCGCACACATAGTGCTCAATTACAGAA
43140609 CTCGCACACATAGTGCTCA
1 CTCGCACACATAGTGCTCA
43140628 GTTAAAGGAA
Statistics
Matches: 80, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
28 39 0.49
29 41 0.51
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCAATTACAGAA
Found at i:43140558 original size:57 final size:58
Alignment explanation
Indices: 43140489--43140656 Score: 286
Period size: 57 Copynumber: 2.9 Consensus size: 58
43140479 GTGCCCACTG
* * * *
43140489 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGTGCCTCAATT
43140546 ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGT-CCTCAATT
1 ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGTGCCTCAATT
43140603 ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGTGCCTC
43140657 TAATCATTCG
Statistics
Matches: 105, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
57 86 0.82
58 19 0.18
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCAGTTAAAGGAATTTGCACACACAGTGCCTCAATT
Found at i:43140560 original size:29 final size:30
Alignment explanation
Indices: 43140489--43140632 Score: 117
Period size: 28 Copynumber: 5.0 Consensus size: 30
43140479 GTGCCCACTG
**
43140489 ACCGATCTCGCACACATAGTG-CTCGGTTGA
1 ACCGATCTCGCACACATAGTGCCTCAATT-A
* *
43140519 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACATAGTGCCTCAATTA
*
43140546 ACCGATCTCGCACACATAGTG-CTCAGTTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
** * *
43140575 AAGGAAT-TTGCACACACAGT-CCTCAATT-
1 ACCG-ATCTCGCACACATAGTGCCTCAATTA
*
43140603 ACCGATCTCGCACACATAGTG-CTCAGTTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
43140632 A
1 A
43140633 AGGAATTTGC
Statistics
Matches: 88, Mismatches: 17, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
27 3 0.03
28 41 0.47
29 41 0.47
30 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (30 bp):
ACCGATCTCGCACACATAGTGCCTCAATTA
Done.