Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 70 of 433
Found at i:20236833 original size:5 final size:5
Alignment explanation
Indices: 20236823--20236850 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20236813 TTATGTGTTC
20236823 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
20236851 TACAGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:20243925 original size:21 final size:20
Alignment explanation
Indices: 20243885--20243933 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
20243875 GACTCCAATG
20243885 TCAAGCAAGGAACAAGATGA
1 TCAAGCAAGGAACAAGATGA
20243905 CTCAAGCAA-GAACAAGAATGA
1 -TCAAGCAAGGAACAAG-ATGA
*
20243926 TGAAGCAA
1 TCAAGCAA
20243934 AAGATGGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.10
Consensus pattern (20 bp):
TCAAGCAAGGAACAAGATGA
Found at i:20250560 original size:48 final size:49
Alignment explanation
Indices: 20250452--20250571 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 49
20250442 CTTGTTATGT
* * * *
20250452 GTCAGTGTAAGACTTGTCTGGGACATGGTATCGGCACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
* * *
20250501 GCCAGTGTAAGACCTGTCTGGGACAT-GCATTGGC-CTCGATATATAAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGATAAAA
*
20250549 GTCAGTGTAAGACCTGTTTGGGA
1 GTCAGTGTAAGACCTGTCTGGGA
20250572 TACAGCATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.02
48 36 0.59
49 24 0.39
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATAAAA
Found at i:20252644 original size:43 final size:42
Alignment explanation
Indices: 20252597--20252698 Score: 159
Period size: 43 Copynumber: 2.4 Consensus size: 42
20252587 GTTAGGATAT
* *
20252597 TATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATGGGA
1 TATTAT-AGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
20252640 TATTATAAGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
1 TATTAT-AGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
20252683 TATTATAGGATATTAT
1 TATTATA-GATATTAT
20252699 TATGGGATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (42 bp):
TATTATAGATATTATCTCTTAGCAATTTGATTCCTAATGGCA
Found at i:20254600 original size:50 final size:49
Alignment explanation
Indices: 20254495--20254726 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
20254485 CTGGTACGCA
* *
20254495 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
* **
20254544 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGATACACG
* * * * * ** *
20254594 TGGTAGCCTGCACTTAGTACTACACATTTGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGATACACG
* * * * * *
20254645 TAGTTGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
* *
20254694 TAGTAGCCTGCACTTAGTACTATACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
20254727 TCACAATAGA
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 68 0.45
50 47 0.31
51 35 0.23
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGATACACG
Found at i:20258354 original size:30 final size:31
Alignment explanation
Indices: 20258318--20258381 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
20258308 ACTTAACAAG
*
20258318 CAAATGC-TTCTAAAATAAT-AACAAAATTAA
1 CAAATGCGTT-TAAAATAATAAAAAAAATTAA
20258348 CAAATGCGTTTAAAATAATAAAAAAAATTAA
1 CAAATGCGTTTAAAATAATAAAAAAAATTAA
20258379 CAA
1 CAA
20258382 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 16 0.52
31 15 0.48
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (31 bp):
CAAATGCGTTTAAAATAATAAAAAAAATTAA
Found at i:20258435 original size:22 final size:22
Alignment explanation
Indices: 20258410--20258452 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20258400 TATCCAAACA
20258410 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
20258432 ATAATATTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
20258453 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:20259358 original size:2 final size:2
Alignment explanation
Indices: 20259342--20259389 Score: 80
Period size: 2 Copynumber: 24.0 Consensus size: 2
20259332 AATGTTGAGG
20259342 TA TA TA T- TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20259384 TA TA TA
1 TA TA TA
20259390 CTCTTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20260894 original size:17 final size:17
Alignment explanation
Indices: 20260867--20260922 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
20260857 TAATTATTAC
*
20260867 TTTTAGTTTATTTTTCA
1 TTTTAATTTATTTTTCA
20260884 TTTTGAA-TTATTGATTT-A
1 TTTT-AATTTATT--TTTCA
20260902 TTTTAATTTACTTTTTCA
1 TTTTAATTTA-TTTTTCA
20260920 TTT
1 TTT
20260923 CAACGTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
17 14 0.44
18 13 0.41
19 5 0.16
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTAATTTATTTTTCA
Found at i:20261651 original size:7 final size:7
Alignment explanation
Indices: 20261620--20261671 Score: 60
Period size: 7 Copynumber: 8.0 Consensus size: 7
20261610 ATTTTTTAAA
20261620 AATATTT
1 AATATTT
20261627 -ATA-TT
1 AATATTT
20261632 AAT-TTT
1 AATATTT
20261638 -A-ATTT
1 AATATTT
20261643 AATATTT
1 AATATTT
20261650 AATATTT
1 AATATTT
20261657 AATAATTT
1 AAT-ATTT
20261665 AATATTT
1 AATATTT
20261672 TTTTACTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
5 6 0.15
6 8 0.21
7 18 0.46
8 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATATTT
Found at i:20261666 original size:15 final size:15
Alignment explanation
Indices: 20261620--20261671 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
20261610 ATTTTTTAAA
20261620 AATATTTATATTAATTT
1 AATATTTA-A-TAATTT
*
20261637 TA-ATTTAAT-ATTT
1 AATATTTAATAATTT
20261650 AATATTTAATAATTT
1 AATATTTAATAATTT
20261665 AATATTT
1 AATATTT
20261672 TTTTACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 8 0.26
15 12 0.39
16 5 0.16
17 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATTTAATAATTT
Found at i:20261747 original size:16 final size:15
Alignment explanation
Indices: 20261728--20261782 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
20261718 TAGTATTTAC
20261728 ATTATAATATATTATT
1 ATTATAATATATTA-T
**
20261744 ATTAATTTTATATTAT
1 ATT-ATAATATATTAT
*
20261760 ATAAATAATATATTAT
1 AT-TATAATATATTAT
20261776 ATTATAA
1 ATTATAA
20261783 ACTTGCAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.13
16 18 0.58
17 9 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATAATATATTAT
Found at i:20267631 original size:2 final size:2
Alignment explanation
Indices: 20267624--20267698 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
20267614 GCAAATAAAT
20267624 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
20267666 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
20267699 TATATATATA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20268559 original size:20 final size:21
Alignment explanation
Indices: 20268511--20268573 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
20268501 ATTCATTTCT
* *
20268511 ATCCGTATGAACT-GTAATTC
1 ATCCGTATAAACTAGTAGTTC
* *
20268531 ATTCATAT-AACTAGTAGTTC
1 ATCCGTATAAACTAGTAGTTC
*
20268551 ATCCGTATAAAC-AATAGTTC
1 ATCCGTATAAACTAGTAGTTC
20268571 ATC
1 ATC
20268574 ACTAATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 4 0.11
20 28 0.80
21 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (21 bp):
ATCCGTATAAACTAGTAGTTC
Found at i:20268623 original size:20 final size:20
Alignment explanation
Indices: 20268524--20268623 Score: 62
Period size: 20 Copynumber: 5.0 Consensus size: 20
20268514 CGTATGAACT
*
20268524 GTAATTCATTCATAT-AACTA
1 GTAATTCATCCATATAAAC-A
* *
20268544 GTAGTTCATCCGTATAAACA
1 GTAATTCATCCATATAAACA
* *
20268564 ATAGTTCAT-CACTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* * * * *
20268584 ATAATTTAACCGTATTAACA
1 GTAATTCATCCATATAAACA
20268604 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
20268624 CATATCTTAT
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.03
20 54 0.90
21 4 0.07
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:20268822 original size:23 final size:22
Alignment explanation
Indices: 20268796--20268859 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 22
20268786 AAGCTTCATT
20268796 GAGCTTAAACGATAAGCTC-TATC
1 GAGCTTAAAC-ATAAGCTCATA-C
*
20268819 GAGC-TGAACAGTAAGCTCATAC
1 GAGCTTAAACA-TAAGCTCATAC
*
20268841 GAGCTGAAACAATAAGCTC
1 GAGCTTAAAC-ATAAGCTC
20268860 CAATAAGCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 1 0.03
22 16 0.47
23 16 0.47
24 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (22 bp):
GAGCTTAAACATAAGCTCATAC
Found at i:20268836 original size:22 final size:22
Alignment explanation
Indices: 20268778--20268859 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 22
20268768 CTTGAGCTGA
*
20268778 TGAACAGTAAGCT-TCATTGAGC
1 TGAACAGTAAGCTCT-ATCGAGC
*
20268800 TTAA-ACGATAAGCTCTATCGAGC
1 TGAACA-G-TAAGCTCTATCGAGC
20268823 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
*
20268845 TGAAACAATAAGCTC
1 TG-AACAGTAAGCTC
20268860 CAATAAGCTG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.06
22 18 0.36
23 27 0.54
24 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:20268869 original size:45 final size:45
Alignment explanation
Indices: 20268778--20268892 Score: 117
Period size: 45 Copynumber: 2.5 Consensus size: 45
20268768 CTTGAGCTGA
* * * * *
20268778 TGAACAGTAAGCTTCAT-TGAGCTTAAACGATAAGCTCTATCGAGC
1 TGAACAGTAAGC-TCATACGAGCTGAAACAATAAGCTCAATCAAGC
20268823 TGAACAGTAAGCTCATACGAGCTGAAACAATAAGCTCCAAT-AAGC
1 TGAACAGTAAGCTCATACGAGCTGAAACAATAAGCT-CAATCAAGC
* *
20268868 TGAAAACAGTAAACTCTTACGAGCT
1 TG--AACAGTAAGCTCATACGAGCT
20268893 AATATATTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.07
45 33 0.56
46 3 0.05
47 19 0.32
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (45 bp):
TGAACAGTAAGCTCATACGAGCTGAAACAATAAGCTCAATCAAGC
Found at i:20272148 original size:49 final size:49
Alignment explanation
Indices: 20272085--20272259 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
20272075 CATCAAAGTT
* *
20272085 GATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATATTGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
* * * * * *
20272134 GATGCCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCC
* * * *
20272183 GATGCCATGTCCCAAACAGGTCTTACACTAACTTGT-ATATCTCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGCC
* *
20272232 GATG-GATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
20272260 AGCTCCCATC
Statistics
Matches: 102, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
48 22 0.22
49 78 0.76
50 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
Found at i:20272202 original size:98 final size:97
Alignment explanation
Indices: 20272085--20272356 Score: 241
Period size: 94 Copynumber: 2.8 Consensus size: 97
20272075 CATCAAAGTT
* * * *
20272085 GATGCCATGTCCCAGACAGGTCTTACATTGACTT-TCATATATTGAGGCCGATGCCG-TGTCCCA
1 GATGCCATGTCCCAAACAGGTCTTACACTAACTTGT-ATATATCGAGGCCGATG--GATGTCCCA
* * *
20272148 GATAGGTCTTACACTGGCTCTCATCTATCGGTGTC
63 GACAGGTCTTACACTAGCTCCCATCTATCGGTGTC
* *
20272183 GATGCCATGTCCCAAACAGGTCTTACACTAACTTGTATATCTCGAGGCTGATGGATGTCCCAGAC
1 GATGCCATGTCCCAAACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGAC
* ** *
20272248 ATGTCTTACACTAGCTCCCATC--TCAAT-AC
66 AGGTCTTACACTAGCTCCCATCTATCGGTGTC
* * ** * * ** * * *
20272277 TGAT-ACATGTCCTAGGCATGTTTTACACTGGCTTGTATATCTCGAGGCCGATGCATGTCCCATA
1 -GATGCCATGTCCCAAACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGA
*
20272341 CATGTCTTACACTAGC
65 CAGGTCTTACACTAGC
20272357 ACACATATCA
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
94 66 0.45
95 6 0.04
96 1 0.01
97 28 0.19
98 45 0.31
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (97 bp):
GATGCCATGTCCCAAACAGGTCTTACACTAACTTGTATATATCGAGGCCGATGGATGTCCCAGAC
AGGTCTTACACTAGCTCCCATCTATCGGTGTC
Found at i:20272254 original size:48 final size:48
Alignment explanation
Indices: 20272183--20272356 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 48
20272173 TATCGGTGTC
* * *
20272183 GATGCCATGTCCCAAACAGGTCTTACACTAACTTGTATATCTCGAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
* *** * **
20272232 GATGGATGTCCCAGACATGTCTTACACTAGC-T-CCCATCTCAATACT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
* * * * * *
20272278 GATACATGTCCTAGGCATGTTTTACACTGGCTTGTATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
*
20272326 GATGCATGTCCCATACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
20272357 ACACATATCA
Statistics
Matches: 94, Mismatches: 29, Indels: 5
0.73 0.23 0.04
Matches are distributed among these distances:
46 33 0.35
47 2 0.02
48 55 0.59
49 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCT
Found at i:20272365 original size:48 final size:48
Alignment explanation
Indices: 20272042--20272365 Score: 165
Period size: 49 Copynumber: 6.8 Consensus size: 48
20272032 ATATTGACAC
* * * * * **
20272042 CATGTCCCAGACATGGTCTTACACTGGCTAGCACA--TCAAAGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * ** * *
20272089 CCATGTCCCAGACAGGTCTTACA-TTGACTTTCATATATTGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAG-CTCGCATATCTCGAGGCCGATG
* * * * * * * *
20272138 CCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAG-GCCGATG
* * * * * *
20272187 CCATGTCCCAAACAGGTCTTACACTAACTTGTATATCTCGAGGCTGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * * ** * *
20272236 GATGTCCCAGACATGTCTTACACTAGCTC-C-CATCTCAATACTGATA
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * * * * *
20272282 CATGTCCTAGGCATGTTTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
* * *
20272330 CATGTCCCATACATGTCTTACACTAGCACACATATC
1 CATGTCCCAGACATGTCTTACACTAGCTCGCATATC
20272366 ACCCAATGGC
Statistics
Matches: 206, Mismatches: 62, Indels: 16
0.73 0.22 0.06
Matches are distributed among these distances:
46 36 0.17
47 13 0.06
48 75 0.36
49 79 0.38
50 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGCATATCTCGAGGCCGATG
Found at i:20282354 original size:17 final size:17
Alignment explanation
Indices: 20282328--20282366 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
20282318 TTTGAAAAAG
20282328 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
20282345 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
20282362 AAAAC
1 AAAAC
20282367 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:20289381 original size:2 final size:2
Alignment explanation
Indices: 20289374--20289403 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20289364 TCTCTTTTCG
20289374 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
20289404 TTGCCATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20289636 original size:49 final size:48
Alignment explanation
Indices: 20289482--20289654 Score: 170
Period size: 49 Copynumber: 3.6 Consensus size: 48
20289472 AGATGCCGAC
* *
20289482 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCATCTATC-GAGTCGAT
* * * * *
20289530 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAATCCATT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAGTCGA-T
* * * * *
20289579 GTCGTGTCCCAGACTGGTCTTACACTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATC-GAGTCGAT
* *
20289628 GCCATGTCCCAGAAAAGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
20289655 ACATATAACA
Statistics
Matches: 100, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
47 16 0.16
48 19 0.19
49 61 0.61
50 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCATCTATCGAGTCGAT
Found at i:20289741 original size:48 final size:46
Alignment explanation
Indices: 20289666--20289794 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
20289656 CATATAACAA
* * * * *
20289666 GCTGATGCCATGTCCCAGAAAAGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAG
* * *
20289715 GCTGATGCATGTTCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAG
*
20289761 GCTGATGCATGTGCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
20289795 ACACATATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 38 0.54
47 2 0.03
48 24 0.34
49 7 0.10
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAG
Found at i:20303055 original size:39 final size:39
Alignment explanation
Indices: 20302974--20303136 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20302964 TATGGTAACC
* *
20302974 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20303014 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20303053 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20303092 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20303131 CGCACA
1 CGCACA
20303137 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20311077 original size:40 final size:40
Alignment explanation
Indices: 20311013--20311121 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
20311003 GCTACTCGTT
* * ***
20311013 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATCACAACCCGCA
* * *
20311053 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATCACAACCCGCA
*
20311093 CAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATCA
20311122 TGCTCGCACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.08
39 9 0.15
40 45 0.76
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATCACAACCCGCA
Found at i:20311170 original size:28 final size:28
Alignment explanation
Indices: 20311098--20311175 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
20311088 TCGCACAATT
20311098 GCCTTCGGGCTTAGCCCGG-TATCATGC
1 GCCTTCGGGCTTAGCCCGGATATCATGC
* * **
20311125 TCGC-ACAAGC--AGCCCGGATATCATGC
1 GC-CTTCGGGCTTAGCCCGGATATCATGC
20311151 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
20311176 CAACTCGCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 9
0.69 0.15 0.16
Matches are distributed among these distances:
25 8 0.21
26 12 0.32
27 4 0.11
28 14 0.37
ACGTcount: A:0.18, C:0.33, G:0.27, T:0.22
Consensus pattern (28 bp):
GCCTTCGGGCTTAGCCCGGATATCATGC
Found at i:20311205 original size:39 final size:39
Alignment explanation
Indices: 20311151--20311225 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
20311141 GATATCATGC
20311151 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
20311190 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
20311226 TTCATACACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:20319214 original size:39 final size:39
Alignment explanation
Indices: 20319133--20319295 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20319123 TATGGTAACC
* *
20319133 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20319173 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20319212 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20319251 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20319290 CGCACA
1 CGCACA
20319296 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20321241 original size:47 final size:47
Alignment explanation
Indices: 20321171--20321561 Score: 647
Period size: 47 Copynumber: 8.3 Consensus size: 47
20321161 ATGAGATATA
* *
20321171 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20321218 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20321265 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20321312 TATATATGTGACAAGGCCTAATGGCGGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20321359 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20321406 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
20321453 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
20321500 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20321547 TATAAATGTGATAAG
1 TATATATGTGATAAG
20321562 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 326 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:20331091 original size:23 final size:23
Alignment explanation
Indices: 20331062--20331137 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
20331052 CCGATGAATA
*
20331062 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATCGAGCTGAAACG
*
20331085 GTAAGCTCTATCGAGCTG-AACA
1 GTAAGCTCTATCGAGCTGAAACG
*
20331107 GTAACCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-CGAGCTGAAACG
*
20331130 ATAAGCTC
1 GTAAGCTC
20331138 CAATAAGCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.04
22 17 0.38
23 26 0.58
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTGAAACG
Found at i:20331121 original size:22 final size:22
Alignment explanation
Indices: 20331056--20331126 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
20331046 CCTGAGCCGA
* * *
20331056 TGAATAGTAAGCTCTATTGAGC
1 TGAACAGTAACCTCTATCGAGC
* *
20331078 TGAAACGGTAAGCTCTATCGAGC
1 TG-AACAGTAACCTCTATCGAGC
20331101 TGAACAGTAACCTC-ATACGAGC
1 TGAACAGTAACCTCTAT-CGAGC
20331123 TGAA
1 TGAA
20331127 ACGATAAGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 21 0.50
23 19 0.45
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (22 bp):
TGAACAGTAACCTCTATCGAGC
Found at i:20331364 original size:23 final size:24
Alignment explanation
Indices: 20331330--20331385 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
20331320 GCATTTAATG
*
20331330 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
20331351 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
20331375 AT-ATATACATT
1 ATCATATACATT
20331386 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:20337499 original size:20 final size:21
Alignment explanation
Indices: 20337476--20337526 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
20337466 CAAGCTTATA
20337476 GCTCAACATA-GGTTGATT-TG
1 GCTCAACATAGGGTTG-TTGTG
20337496 GCTCAACATAGGGTTGTTGTG
1 GCTCAACATAGGGTTGTTGTG
20337517 GCTCAACATA
1 GCTCAACATA
20337527 AGGATGTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (21 bp):
GCTCAACATAGGGTTGTTGTG
Found at i:20338899 original size:16 final size:17
Alignment explanation
Indices: 20338880--20338912 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20338870 TTTTATAGGT
20338880 TAATTAATT-TAATTTA
1 TAATTAATTCTAATTTA
*
20338896 TAATTATTTCTAATTTA
1 TAATTAATTCTAATTTA
20338913 GGCTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTAATTCTAATTTA
Found at i:20341793 original size:28 final size:28
Alignment explanation
Indices: 20341747--20341850 Score: 70
Period size: 29 Copynumber: 3.6 Consensus size: 28
20341737 TATATACACG
*
20341747 CATATGGCCCACTT-GGCCCAATCTCATT
1 CATATGGCCCA-TTAAGCCCAATCTCATT
* *
20341775 CATATGGCCCATTAAGCCCGATTCACATT
1 CATATGGCCCATTAAGCCC-AATCTCATT
* * * * *
20341804 CTTATAGCCCA-TCAGTCTC-ATTTCATATT
1 CATATGGCCCATTAAG-CCCAATCTC--ATT
20341833 CATATGGCCCATTAAGCC
1 CATATGGCCCATTAAGCC
20341851 TAAATCACAT
Statistics
Matches: 56, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
27 4 0.07
28 18 0.32
29 31 0.55
30 3 0.05
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (28 bp):
CATATGGCCCATTAAGCCCAATCTCATT
Found at i:20342124 original size:16 final size:16
Alignment explanation
Indices: 20342076--20342127 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
20342066 CGCAGTCAAA
20342076 CTTTT-AGCTTTTTGG
1 CTTTTCAGCTTTTTGG
* *
20342091 CATTTCAGCTTTTCGG
1 CTTTTCAGCTTTTTGG
20342107 CTTTTC-GACTTTTTGG
1 CTTTTCAG-CTTTTTGG
20342123 CTTTT
1 CTTTT
20342128 GCCGATCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.08, C:0.19, G:0.17, T:0.56
Consensus pattern (16 bp):
CTTTTCAGCTTTTTGG
Found at i:20347357 original size:29 final size:29
Alignment explanation
Indices: 20347324--20347484 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
20347314 GTGACGAGAT
20347324 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
20347353 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
20347382 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
20347411 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
20347440 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
20347469 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
20347485 GGCTTAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 118 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:20349518 original size:28 final size:28
Alignment explanation
Indices: 20349474--20349570 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
20349464 ACATACACGC
*
20349474 ATATGGCCCA-CTTGGCCCAATCTCATTT
1 ATATGGCCCATC-AGGCCCAATCTCATTT
* *
20349502 ATATGGCCCATCAGGCCCGATTCACATTCT
1 ATATGGCCCATCAGGCCC-AATCTCATT-T
* * *
20349532 -TATAGCCCACCAGGCCC-ATTTCATATT
1 ATATGGCCCATCAGGCCCAATCTCAT-TT
20349559 CATATGGCCCAT
1 -ATATGGCCCAT
20349571 TAAGGCCAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
27 5 0.09
28 16 0.30
29 31 0.58
30 1 0.02
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAATCTCATTT
Found at i:20349539 original size:29 final size:29
Alignment explanation
Indices: 20349497--20349570 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
20349487 GGCCCAATCT
* *
20349497 CATTTATATGGCCCATCAGGCCCGA-TTCA
1 CATTCATATAGCCCATCAGGCCC-ATTTCA
* *
20349526 CATTCTTATAGCCCACCAGGCCCATTTCA
1 CATTCATATAGCCCATCAGGCCCATTTCA
* *
20349555 TATTCATATGGCCCAT
1 CATTCATATAGCCCAT
20349571 TAAGGCCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (29 bp):
CATTCATATAGCCCATCAGGCCCATTTCA
Found at i:20357719 original size:21 final size:21
Alignment explanation
Indices: 20357680--20357719 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20357670 TTAGAGATTA
*
20357680 ATTTAATTTCTTTAGATTATT
1 ATTTAATTTCTATAGATTATT
20357701 ATTTAATTTACTATA-ATTA
1 ATTTAATTT-CTATAGATTA
20357720 AACAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTTAATTTCTATAGATTATT
Found at i:20361855 original size:29 final size:29
Alignment explanation
Indices: 20361820--20361884 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
20361810 GTGACGAGAT
** *
20361820 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
20361849 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
20361878 CGGCACT
1 CGGCACT
20361885 GGGTGTGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:20363613 original size:40 final size:40
Alignment explanation
Indices: 20363568--20363734 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
20363558 CGGAATATAA
20363568 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
20363608 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
20363648 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
20363688 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
20363727 CCGGATAT
1 CCGGATAT
20363735 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:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:20363718 original size:80 final size:79
Alignment explanation
Indices: 20363584--20363734 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
20363574 ATAATCACGT
*
20363584 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
20363649 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
20363664 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
20363727 CCGGATAT
64 CCGGATAT
20363735 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:20364579 original size:17 final size:19
Alignment explanation
Indices: 20364556--20364601 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
20364546 AAGAAGCATG
20364556 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
20364574 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
20364592 AATCATGCTC
1 AATCATGCTC
20364602 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:20369271 original size:40 final size:40
Alignment explanation
Indices: 20369186--20369335 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
20369176 AATTGAATGA
* * * **
20369186 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
20369226 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
20369267 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
20369306 TATCCGGGCTAAGA-CCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
20369336 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 17 0.19
40 73 0.80
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:20369349 original size:39 final size:40
Alignment explanation
Indices: 20369223--20369351 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
20369213 ATGCTGGAAA
* * *
20369223 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
20369263 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
20369303 TTCTATCCGGGCTAAGA-CCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
20369342 TTATATCCGG
1 TTATATCCGG
20369352 TTATATTCCG
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.01
39 26 0.36
40 46 0.63
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:20378166 original size:40 final size:39
Alignment explanation
Indices: 20378007--20378168 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20377997 TGTGTATGAA
*
20378007 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
20378046 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
20378085 TGTGCGAGCTAT-ATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
20378123 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
20378163 TGTGCG
1 TGTGCG
20378169 GGTTACCATA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:20378184 original size:40 final size:39
Alignment explanation
Indices: 20378007--20378199 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
20377997 TGTGTATGAA
* *
20378007 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
20378046 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
20378085 TGTGCGAGCTAT-ATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
20378123 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
20378163 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
20378200 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 36 0.26
39 61 0.44
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:20378221 original size:80 final size:77
Alignment explanation
Indices: 20378024--20378237 Score: 225
Period size: 77 Copynumber: 2.7 Consensus size: 77
20378014 ATTGTGATAT
** * *
20378024 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
* *
20378089 CGAGCTATATAT
66 CGAGCTACATAA
** * *
20378101 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
20378166 GCGGGTTACCATAA
65 GCGAGCTA-CATAA
* ** *
20378180 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
20378238 TATGTGATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
77 48 0.40
78 21 0.18
79 25 0.21
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACATAA
Found at i:20385092 original size:28 final size:27
Alignment explanation
Indices: 20385018--20385123 Score: 104
Period size: 28 Copynumber: 3.8 Consensus size: 27
20385008 AATCTTATAG
* *
20385018 AAAGAAACGCCTTTGTGGCGATCTCTGTA
1 AAAGAAA--CCTTTGTGGTGATCTCTGTT
* *
20385047 AAAGAAACCTTTATGGTGGTCTCTGTT
1 AAAGAAACCTTTGTGGTGATCTCTGTT
**
20385074 AAAGAAAGTTTTTGTGGTGATCTCTGTT
1 AAAGAAA-CCTTTGTGGTGATCTCTGTT
* *
20385102 AAATGAAGCATTTGTGGTGATC
1 AAA-GAAACCTTTGTGGTGATC
20385124 ATTGTAAAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 23 0.36
28 31 0.48
29 10 0.16
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (27 bp):
AAAGAAACCTTTGTGGTGATCTCTGTT
Found at i:20385137 original size:28 final size:28
Alignment explanation
Indices: 20385029--20385137 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
20385019 AAGAAACGCC
* * *
20385029 TTTGTGGCGATCTCTGTAAAA-GAAACC
1 TTTGTGGTGATCTCTGTAAAAGGAAGCA
* * * * **
20385056 TTTATGGTGGTCTCTGTTAAAGAAAGTT
1 TTTGTGGTGATCTCTGTAAAAGGAAGCA
* *
20385084 TTTGTGGTGATCTCTGTTAAATGAAGCA
1 TTTGTGGTGATCTCTGTAAAAGGAAGCA
20385112 TTTGTGGTGATCAT-TGTAAAAGGAAG
1 TTTGTGGTGATC-TCTGTAAAAGGAAG
20385138 TCTTTATGGC
Statistics
Matches: 64, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
27 17 0.27
28 46 0.72
29 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.37
Consensus pattern (28 bp):
TTTGTGGTGATCTCTGTAAAAGGAAGCA
Found at i:20388578 original size:47 final size:47
Alignment explanation
Indices: 20388509--20388631 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
20388499 ATCCATAAGT
20388509 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* *
20388556 GAACTCGGACTCAACTCAACGAGCTCGGATGTCTAGTTACATCTCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
20388603 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
20388632 ACTCAACCAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:20394888 original size:40 final size:39
Alignment explanation
Indices: 20394831--20395015 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
20394821 ATTAAATGAT
* * *
20394831 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
20394871 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
20394911 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
20394951 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
20394991 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
20395016 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:20394967 original size:80 final size:80
Alignment explanation
Indices: 20394830--20395036 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20394820 AATTAAATGA
* * ** * *
20394830 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
20394895 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
20394908 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
20394973 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
20394990 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
20395037 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:20395021 original size:40 final size:39
Alignment explanation
Indices: 20394829--20395036 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
20394819 CAATTAAATG
* * ** *
20394829 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
20394869 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
20394909 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
20394949 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
20394989 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
20395029 ATATCCGG
1 ATATCCGG
20395037 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:20402871 original size:40 final size:39
Alignment explanation
Indices: 20402814--20402998 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
20402804 ATTAAATGAT
* * *
20402814 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
20402854 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
20402894 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
20402934 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
20402974 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
20402999 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:20402950 original size:80 final size:80
Alignment explanation
Indices: 20402813--20403019 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20402803 AATTAAATGA
* * ** * *
20402813 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
20402878 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
20402891 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
20402956 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
20402973 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
20403020 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:20403004 original size:40 final size:39
Alignment explanation
Indices: 20402812--20403019 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
20402802 CAATTAAATG
* * ** *
20402812 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
20402852 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
20402892 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
20402932 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
20402972 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
20403012 ATATCCGG
1 ATATCCGG
20403020 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:20406574 original size:47 final size:47
Alignment explanation
Indices: 20406520--20406896 Score: 571
Period size: 47 Copynumber: 8.1 Consensus size: 47
20406510 TTAGGATTTT
** * * *
20406520 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20406567 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20406614 ATGTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20406661 ATGTGATGAATGTGAACATGCATAT-GGTGATAAGG-CGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20406706 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20406753 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20406800 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
20406847 ATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
20406894 ATG
1 ATG
20406897 CGAAATGTGT
Statistics
Matches: 306, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 35 0.11
46 18 0.06
47 250 0.82
48 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20406790 original size:186 final size:186
Alignment explanation
Indices: 20406520--20406860 Score: 592
Period size: 186 Copynumber: 1.8 Consensus size: 186
20406510 TTAGGATTTT
** *
20406520 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
20406585 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATATGAACATGCATATATGTGATAAGG
*
20406650 CCGAATGGCCAATGTGATGAATGTGAACATGCATATGGTGATAAGGCGAATGGCCA
131 CAGAATGGCCAATGTGATGAATGTGAACATGCATATGGTGATAAGGCGAATGGCCA
* * *
20406706 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCTAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
20406771 TGCATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATATGAACATGCATATATGTGATAAGG
20406836 CAGAATGGCCAATGTGATGAATGTG
131 CAGAATGGCCAATGTGATGAATGTG
20406861 GAAGTGTATA
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
186 145 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (186 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGACCAATGTGATGAATATGAACATGCATATATGTGATAAGG
CAGAATGGCCAATGTGATGAATGTGAACATGCATATGGTGATAAGGCGAATGGCCA
Found at i:20406926 original size:46 final size:46
Alignment explanation
Indices: 20406870--20407006 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
20406860 GGAAGTGTAT
*
20406870 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
20406916 ATATGAGGTAAAGCCGAATGGCTAATGTGAAACGTGTACGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
20406962 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATG
20407007 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:20408756 original size:40 final size:40
Alignment explanation
Indices: 20408493--20408747 Score: 420
Period size: 40 Copynumber: 6.4 Consensus size: 40
20408483 AGAGTTATAT
20408493 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
20408533 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
20408573 ATATATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
20408613 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
20408653 ATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
**
20408693 ATATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
20408733 ATATATCCAGGCTAA
1 ATATATCCGGGCTAA
20408748 ACCTCGAAGG
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 202 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:20410531 original size:40 final size:40
Alignment explanation
Indices: 20410446--20410596 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
20410436 AATTGAATGA
* * * **
20410446 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
20410486 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
20410527 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
20410566 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
20410597 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:20410610 original size:40 final size:40
Alignment explanation
Indices: 20410483--20410612 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
20410473 ATGCTGGAAA
* * *
20410483 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
20410523 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
20410563 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
20410603 TTATATCCGG
1 TTATATCCGG
20410613 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:20412048 original size:28 final size:27
Alignment explanation
Indices: 20412008--20412164 Score: 109
Period size: 28 Copynumber: 5.6 Consensus size: 27
20411998 GATTTATGAG
* *
20412008 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AACCGA
* * * **
20412036 GCACTATGTGTGCCAGATCAGTAGTTGCG-
1 GCACTATGTGTGCGAGTTC-TTA--ACCGA
*
20412065 GCACTATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCGAGTTCTT-AACCGA
** **
20412093 GCACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAACCGA
20412121 GGCACTATGTGTGCGAGTTCTTTAACCGA
1 -GCACTATGTGTGCGAGTTC-TTAACCGA
**
20412150 GTGCTATGTGTGCGA
1 GCACTATGTGTGCGA
20412165 AATCAGTCAG
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
27 2 0.02
28 54 0.53
29 43 0.43
30 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAACCGA
Found at i:20412095 original size:57 final size:56
Alignment explanation
Indices: 20412007--20412192 Score: 221
Period size: 57 Copynumber: 3.3 Consensus size: 56
20411997 GGATTTATGA
* * *
20412007 GGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGTTG
1 GGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAGTTG
* ** *
20412063 CGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAATTG
1 -GGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAGTTG
* ** *
20412120 AGGCACTATGTGTGCGAGTTCTTTAACCGAGTGCTATGTGTGCGAAATCAGTCAG-TG
1 -GGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGT-AGTTG
* *
20412177 GGCACTGTGTATGCGA
1 GGCACTATGTGTGCGA
20412193 AGTGTGTTTC
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
56 14 0.13
57 95 0.86
58 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (56 bp):
GGCACTATGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCAGTAGTTG
Found at i:20412135 original size:29 final size:29
Alignment explanation
Indices: 20412036--20412137 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
20412026 CTTCAACCGA
* * * *
20412036 GCACTATGTGTGCCAGATCAGTAGTTGCG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
** *
20412065 GCACTATGTGTGCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
*
20412093 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
20412122 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
20412138 TTCTTTAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:20415446 original size:9 final size:9
Alignment explanation
Indices: 20415432--20415465 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
20415422 TTCTTAGTGA
20415432 AGAGTAGTC
1 AGAGTAGTC
20415441 AGAGTAGTC
1 AGAGTAGTC
20415450 AGAGTAGTC
1 AGAGTAGTC
20415459 A-AGTAGT
1 AGAGTAGT
20415466 AAAATAGGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.24
9 19 0.76
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (9 bp):
AGAGTAGTC
Found at i:20415908 original size:47 final size:47
Alignment explanation
Indices: 20415854--20416232 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
20415844 TTAGGATTTT
** * * *
20415854 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20415901 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20415948 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20415995 ATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20416042 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
20416089 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
20416136 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
20416183 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
20416230 ATG
1 ATG
20416233 CGAAATGTGT
Statistics
Matches: 309, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
47 306 0.99
48 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20416048 original size:22 final size:22
Alignment explanation
Indices: 20416022--20416095 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
20416012 ATGCATATAG
20416022 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* *
20416044 GTGATGAATG-TGAACAT-G-CATAT
1 GTGAT-AAGGCCG-A-ATGGCCA-AT
20416067 GTGTGATAAGGCCGAATGGCCAAT
1 --GTGATAAGGCCGAATGGCCAAT
20416091 GTGAT
1 GTGAT
20416096 GAATGTGAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 13 0.33
23 9 0.23
24 9 0.23
25 8 0.21
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:20416142 original size:22 final size:22
Alignment explanation
Indices: 20416068--20416142 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
20416058 CATGCATATG
*
20416068 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
* *
20416090 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCTG-A-ATGGC-CA-A
20416115 TGTGATAAGGCTGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
20416137 TGTGAT
1 TGTGAT
20416143 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 14 0.34
23 9 0.22
24 9 0.22
25 9 0.22
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCTGAATGGCCAA
Found at i:20416262 original size:46 final size:46
Alignment explanation
Indices: 20416206--20416342 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
20416196 GGAAGTGTAT
20416206 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
20416252 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
20416298 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
20416343 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:20426897 original size:29 final size:31
Alignment explanation
Indices: 20426864--20426922 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
20426854 AATGTGTATC
*
20426864 TATTTATT-TAATGGATGAAAT-T-GAGATAG
1 TATTTATTATAATAGAT-AAATGTGGAGATAG
20426893 TATTTATTATAATAGATAAATGTGGAGATA
1 TATTTATTATAATAGATAAATGTGGAGATA
20426923 TTAGATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
30 8 0.31
31 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (31 bp):
TATTTATTATAATAGATAAATGTGGAGATAG
Found at i:20440038 original size:27 final size:27
Alignment explanation
Indices: 20440000--20440054 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20439990 TAATGAGATC
20440000 TCAAACCATTTTAAAATTCAACCCCAA
1 TCAAACCATTTTAAAATTCAACCCCAA
20440027 TCAAACCATTTTAAAATTCAACCCCAA
1 TCAAACCATTTTAAAATTCAACCCCAA
20440054 T
1 T
20440055 TTTGGTCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (27 bp):
TCAAACCATTTTAAAATTCAACCCCAA
Found at i:20442389 original size:29 final size:29
Alignment explanation
Indices: 20442357--20442429 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
20442347 CTTCGAGCTC
* *
20442357 GCACACCCAGTGCCGTCTATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
20442386 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
20442415 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
20442430 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:20449604 original size:13 final size:13
Alignment explanation
Indices: 20449586--20449610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20449576 TAAGGTTGGT
20449586 TTAAAATTTGGAG
1 TTAAAATTTGGAG
20449599 TTAAAATTTGGA
1 TTAAAATTTGGA
20449611 AGTGTAACAC
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TTAAAATTTGGAG
Found at i:20455466 original size:46 final size:46
Alignment explanation
Indices: 20455406--20455587 Score: 251
Period size: 46 Copynumber: 4.0 Consensus size: 46
20455396 TTTGACATGA
* * * * *
20455406 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
20455452 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20455498 TGTCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCT
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG-T
* *
20455545 T-CCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
20455588 AGAGCACACT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.03
46 117 0.95
47 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:20458001 original size:29 final size:30
Alignment explanation
Indices: 20457951--20458018 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
20457941 CACCCTTAAA
* * *
20457951 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
20457981 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
20458010 AGTATTTAC
1 A-TATTTAC
20458019 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:20460360 original size:11 final size:11
Alignment explanation
Indices: 20460331--20460383 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
20460321 ATATTGTTAT
20460331 ACATGATATG-
1 ACATGATATGC
*
20460341 ACATAATATGC
1 ACATGATATGC
20460352 ACATGATATG-
1 ACATGATATGC
** *
20460362 TTATGAGATGC
1 ACATGATATGC
20460373 ACATGATATGC
1 ACATGATATGC
20460384 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:20460387 original size:21 final size:21
Alignment explanation
Indices: 20460331--20460388 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
20460321 ATATTGTTAT
* *
20460331 ACATGATATGAC-ATAATATGC
1 ACATGATATG-CTATGAGATGC
*
20460352 ACATGATATGTTATGAGATGC
1 ACATGATATGCTATGAGATGC
20460373 ACATGATATGCTATGA
1 ACATGATATGCTATGA
20460389 TATACTCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (21 bp):
ACATGATATGCTATGAGATGC
Found at i:20464699 original size:17 final size:17
Alignment explanation
Indices: 20464679--20464715 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
20464669 CGCTTATGCT
20464679 TCACGACAGCTTAAGCC
1 TCACGACAGCTTAAGCC
20464696 TCACGACAGCTTAAGCC
1 TCACGACAGCTTAAGCC
20464713 TCA
1 TCA
20464716 TGAGGTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.16, T:0.19
Consensus pattern (17 bp):
TCACGACAGCTTAAGCC
Found at i:20468501 original size:21 final size:21
Alignment explanation
Indices: 20468477--20468517 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20468467 GTGACATAAT
* *
20468477 ATGCACATGATATGTTATGAG
1 ATGCACATGACATGCTATGAG
20468498 ATGCACATGACATGCTATGA
1 ATGCACATGACATGCTATGA
20468518 TATACTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (21 bp):
ATGCACATGACATGCTATGAG
Found at i:20471992 original size:47 final size:47
Alignment explanation
Indices: 20471911--20472120 Score: 148
Period size: 46 Copynumber: 4.5 Consensus size: 47
20471901 GCCGATGCTG
* * * * *
20471911 TGTCCCAGACACGGTCTTCCATTGGCTTAT-ATCTC-AAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGAAGCCGAAG-CA
* *
20471958 TGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCGACGCA
1 TGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCGAAGCA
* * * * *
20472005 TGTCCCAGACAT-GTCTTACACTGGCT-TACGTTTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGACTAT-CATCTCGAAGCCGAAGCA
* * *
20472051 TGTCCCAAACAT-GTCTTACACTAGA--ACTCATCTC-AATTCCGATACCA
1 TGTCCCAGACATGGTCTTACACT-GACTA-TCATCTCGAA-GCCGA-AGCA
* *
20472098 AGTCCAAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
20472121 AGCTCTCACG
Statistics
Matches: 130, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 58 0.45
47 54 0.42
48 16 0.12
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCGAAGCA
Found at i:20474782 original size:19 final size:20
Alignment explanation
Indices: 20474739--20474783 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
20474729 AGCACATGCA
* * *
20474739 TTCATAAAATTTTAGAATTT
1 TTCATTAAATTTTACAATCT
20474759 TTCATTAAATTTTACAA-CT
1 TTCATTAAATTTTACAATCT
20474778 TTCATT
1 TTCATT
20474784 TTAGTCCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATTAAATTTTACAATCT
Found at i:20477280 original size:25 final size:25
Alignment explanation
Indices: 20477233--20477280 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
20477223 TAAATTCGTA
* *
20477233 TTGAGTTTAATATGTTTGATGATTG
1 TTGAATTTAATATGTATGATGATTG
20477258 TTGAATTTAATTATGTATG-TGAT
1 TTGAATTTAA-TATGTATGATGAT
20477281 CATATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (25 bp):
TTGAATTTAATATGTATGATGATTG
Found at i:20477289 original size:2 final size:2
Alignment explanation
Indices: 20477282--20477324 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
20477272 GTATGTGATC
* *
20477282 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20477324 A
1 A
20477325 ACTAATGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20481559 original size:39 final size:39
Alignment explanation
Indices: 20481364--20481557 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
20481354 TCGTTCAACC
* * * * * *
20481364 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
20481404 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
20481444 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* * *
20481483 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
20481522 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
20481558 TTCATACACA
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 100 0.70
40 42 0.30
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:20489247 original size:39 final size:39
Alignment explanation
Indices: 20489052--20489245 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
20489042 TCGTTCAACC
* * * * * *
20489052 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
20489092 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
20489132 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* * *
20489171 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
*
20489210 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
20489246 TTCATACACA
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 100 0.70
40 42 0.30
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:20492331 original size:40 final size:40
Alignment explanation
Indices: 20492236--20492414 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
20492226 CGAATGGTGT
* * *
20492236 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
20492277 CTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
20492317 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
20492357 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
20492397 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
20492415 ACAATCGAGC
Statistics
Matches: 115, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.77
41 24 0.21
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:20492376 original size:80 final size:81
Alignment explanation
Indices: 20492236--20492414 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 81
20492226 CGAATGGTGT
* * * *
20492236 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACTGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTCAATTCCCGAAGGCAATT
20492301 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * * *
20492317 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTC-AATTCCCGAAGGCAAT
* * * *
20492380 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
20492397 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
20492415 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.04
80 55 0.66
81 25 0.30
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGTCAATTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:20492435 original size:40 final size:41
Alignment explanation
Indices: 20492236--20492440 Score: 145
Period size: 40 Copynumber: 5.1 Consensus size: 41
20492226 CGAATGGTGT
** * * * *
20492236 CCGGGCTAA-GTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGC-GAGTCACTATAA
* * * * * *
20492277 CTGGG-TCAAT-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * *
20492317 CCGGGTTAA-GTCCCGAAGGCATTCGTGCGAGTTACTA-AA
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* *
20492356 TCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
* * * *
20492397 CCGGGC-AATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
20492437 CCGG
1 CCGG
20492441 TTAAATCCGA
Statistics
Matches: 137, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.04
40 106 0.77
41 26 0.19
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
CCGGGCTAATGTCCCGAAGGCAATCGTGCGAGTCACTATAA
Found at i:20492439 original size:80 final size:80
Alignment explanation
Indices: 20492284--20492440 Score: 190
Period size: 80 Copynumber: 2.0 Consensus size: 80
20492274 AAACTGGGTC
* * * * * * *
20492284 AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGT
*
20492349 TACTAAATCCGGGCT
66 CACTAAATCCGGGCT
* *
20492364 AATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAG
1 AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAA-GTCCCGAAGACAATCGAGCGAG
* *
20492428 TCGCTATATCCGG
65 TCACTAAATCCGG
20492441 TTAAATCCGA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.03
80 62 0.97
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (80 bp):
AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGT
CACTAAATCCGGGCT
Found at i:20496749 original size:40 final size:39
Alignment explanation
Indices: 20496692--20496876 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
20496682 ATTAAATGAT
* * *
20496692 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
20496732 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
20496772 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
20496812 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
20496852 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
20496877 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:20496828 original size:80 final size:80
Alignment explanation
Indices: 20496691--20496897 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20496681 AATTAAATGA
* * ** * *
20496691 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
20496756 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
20496769 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
20496834 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
20496851 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
20496898 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:20496882 original size:40 final size:39
Alignment explanation
Indices: 20496690--20496897 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
20496680 CAATTAAATG
* * ** *
20496690 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
20496730 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
20496770 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
20496810 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
20496850 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
20496890 ATATCCGG
1 ATATCCGG
20496898 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:20504733 original size:40 final size:39
Alignment explanation
Indices: 20504676--20504860 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
20504666 ATTAAATGAT
* * *
20504676 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
20504716 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
20504756 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
20504796 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
20504836 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
20504861 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:20504812 original size:80 final size:80
Alignment explanation
Indices: 20504675--20504881 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20504665 AATTAAATGA
* * ** * *
20504675 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
20504740 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
20504753 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
20504818 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
20504835 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
20504882 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:20504866 original size:40 final size:39
Alignment explanation
Indices: 20504674--20504881 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
20504664 CAATTAAATG
* * ** *
20504674 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
20504714 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
20504754 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
20504794 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
20504834 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
20504874 ATATCCGG
1 ATATCCGG
20504882 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:20506328 original size:44 final size:44
Alignment explanation
Indices: 20506265--20507144 Score: 1140
Period size: 44 Copynumber: 20.1 Consensus size: 44
20506255 TACAACACCG
* * * **
20506265 ATCTGTTATTTTTGATCTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * **** *
20506309 ATCTGTCATCTTTGATCTGCTC-CCTTGATAATACAGAGACTCCAA
1 ATCTGTTATCTTCGATCTGCTCTCC--GCCGCTACAGAGACGCCAA
* * * *
20506354 ATCCGTTATCTTCGATCTGCTCTCTGTCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20506398 ATCTGTTATCTTCGATCTACTCTCCGTCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
20506442 ATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
20506486 ATCTGCTATCTTCGATTTGCTCTCTGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
20506530 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20506574 ATC----ATCTTCGATCTACTTTCCGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
20506614 ATCTGTTATCTTCGATCTGCTCTCCGCCGTTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
20506658 ATCTGCTATCTTTGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
20506702 ATATGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20506746 ATCTGCTATCTTCGATCTGCTCTCCGTCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
20506790 ATCTGTTATCTTTGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20506834 ATCTGTTATCTTCGATCTACTCTTCGCCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
20506878 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20506922 ATCTGTTATCTTCAATCTGCTCTCCGCTGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
20506966 ATCTGTTATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * ** *
20507010 ACCTGTTATCTTCAATCTACTCTCCGTTGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20507054 ATATGTTATCTTCGATATGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
20507098 ATTTGTTATCTTCGATCTGCTCTCCGCCTCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
20507142 ATC
1 ATC
20507145 ATATTGGATT
Statistics
Matches: 728, Mismatches: 101, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
40 35 0.05
43 1 0.00
44 656 0.90
45 35 0.05
46 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:20507437 original size:56 final size:56
Alignment explanation
Indices: 20507351--20507466 Score: 153
Period size: 61 Copynumber: 2.0 Consensus size: 56
20507341 TCATGTATCC
20507351 ATGCTTATGCCAAATAATTAGGATGCTAT-GAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATAGAATCAAATGCTCCTAACTAAATGTG
* * *
20507406 ATGCTTTATGTCAAATAATTAGGATGTTATGAAACGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTAT---A-GAATCAAATGCTCCTAACTAAATGTG
20507467 TTATTATATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
55 4 0.08
56 23 0.44
61 25 0.48
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (56 bp):
ATGCTTATGCCAAATAATTAGGATGCTATAGAATCAAATGCTCCTAACTAAATGTG
Found at i:20511078 original size:40 final size:39
Alignment explanation
Indices: 20511033--20511240 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
20511023 CGGAATACAA
*
20511033 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20511073 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
20511113 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
20511153 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
20511193 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
20511233 CCGGATAT
1 CCGGATAT
20511241 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:20511173 original size:80 final size:81
Alignment explanation
Indices: 20511033--20511238 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
20511023 CGGAATACAA
* * *
20511033 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
20511097 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
20511113 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
20511176 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
20511193 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
20511239 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:20514616 original size:19 final size:19
Alignment explanation
Indices: 20514592--20514639 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
20514582 GGGAAAATCT
20514592 AATGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
*
20514611 AATGCACATGATGCAATGC
1 AATGCAAATGATGCAATGC
20514630 AATGCAAATG
1 AATGCAAATG
20514640 CATGGGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:20514652 original size:24 final size:24
Alignment explanation
Indices: 20514602--20514655 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
20514592 AATGCAAATG
*
20514602 ATGCAATGCAATGCACATGATGCA
1 ATGCAATGCAATGCACAGGATGCA
**
20514626 ATGCAATGCAAATGCATGGGATG-A
1 ATGCAATGC-AATGCACAGGATGCA
20514650 ATGCAA
1 ATGCAA
20514656 AGGAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (24 bp):
ATGCAATGCAATGCACAGGATGCA
Found at i:20518286 original size:12 final size:11
Alignment explanation
Indices: 20518257--20518286 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
20518247 TTGTAAACAA
20518257 AAATAAAAAAG
1 AAATAAAAAAG
20518268 AAATAAAAAAG
1 AAATAAAAAAG
20518279 AAACTAAA
1 AAA-TAAA
20518287 GAACAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (11 bp):
AAATAAAAAAG
Found at i:20520077 original size:4 final size:4
Alignment explanation
Indices: 20520068--20520100 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
20520058 AGCAAACGTG
20520068 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
20520101 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:20524471 original size:6 final size:6
Alignment explanation
Indices: 20524456--20524487 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
20524446 TTACTATCTC
20524456 TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
20524488 GCCACAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:20532950 original size:12 final size:12
Alignment explanation
Indices: 20532933--20532960 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
20532923 CAACTCTCTT
20532933 TTTTTATTAAAA
1 TTTTTATTAAAA
20532945 TTTTTATTAAAA
1 TTTTTATTAAAA
20532957 TTTT
1 TTTT
20532961 CGTAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTATTAAAA
Found at i:20535484 original size:19 final size:20
Alignment explanation
Indices: 20535455--20535492 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20535445 AATAGATTGA
20535455 GGTTAAAAAATCAATAAATC
1 GGTTAAAAAATCAATAAATC
*
20535475 GGTT-AAAAATTAATAAAT
1 GGTTAAAAAATCAATAAAT
20535493 TTATTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.29
Consensus pattern (20 bp):
GGTTAAAAAATCAATAAATC
Found at i:20536885 original size:43 final size:43
Alignment explanation
Indices: 20536838--20536922 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
20536828 GGATAAATCT
20536838 AACAACCCAAGATTATATTCTCCTCTTTTTAAATTCTTTTTTC
1 AACAACCCAAGATTATATTCTCCTCTTTTTAAATTCTTTTTTC
* *
20536881 AACAACCCAAGATTATCTTCTTCTCTTTTTAAATTCTTTTTT
1 AACAACCCAAGATTATATTCTCCTCTTTTTAAATTCTTTTTT
20536923 TTCTAGGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.02, T:0.48
Consensus pattern (43 bp):
AACAACCCAAGATTATATTCTCCTCTTTTTAAATTCTTTTTTC
Found at i:20548431 original size:41 final size:42
Alignment explanation
Indices: 20548374--20548457 Score: 152
Period size: 41 Copynumber: 2.0 Consensus size: 42
20548364 GTTCTAGAAA
*
20548374 ATTAGAATTTATTAAATAAGAAAAGAGAATG-TAAGTAGTGT
1 ATTAGAATTTATTAAATAACAAAAGAGAATGTTAAGTAGTGT
20548415 ATTAGAATTTATTAAATAACAAAAGAGAATGTTAAGTAGTGT
1 ATTAGAATTTATTAAATAACAAAAGAGAATGTTAAGTAGTGT
20548457 A
1 A
20548458 CAAACACACC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 30 0.73
42 11 0.27
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (42 bp):
ATTAGAATTTATTAAATAACAAAAGAGAATGTTAAGTAGTGT
Found at i:20555244 original size:17 final size:17
Alignment explanation
Indices: 20555222--20555262 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
20555212 CACAGTTTCC
20555222 ATTCCAGATAGGCCTTA
1 ATTCCAGATAGGCCTTA
20555239 ATTCCAGATAGGCCTTA
1 ATTCCAGATAGGCCTTA
*
20555256 ATACCAG
1 ATTCCAG
20555263 TCTCTTAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (17 bp):
ATTCCAGATAGGCCTTA
Found at i:20570894 original size:39 final size:39
Alignment explanation
Indices: 20570851--20571105 Score: 386
Period size: 39 Copynumber: 6.5 Consensus size: 39
20570841 GTGTGAGATA
* *
20570851 TATATCCGGGCTAATTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20570890 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20570929 TATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20570968 TATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20571007 TATACCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * * *
20571046 TATATCCGGGCTAAGTCCTGAAGGC-TTTGTGTTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
20571084 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
20571106 CATGCTTTGT
Statistics
Matches: 200, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
38 20 0.10
39 173 0.87
40 7 0.04
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:20574181 original size:20 final size:20
Alignment explanation
Indices: 20574156--20574196 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
20574146 TAATGAATCC
20574156 AACCTTAATCACATAACATA
1 AACCTTAATCACATAACATA
20574176 AACCTTAATCACATAACATA
1 AACCTTAATCACATAACATA
20574196 A
1 A
20574197 GCCATATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
AACCTTAATCACATAACATA
Found at i:20574208 original size:20 final size:20
Alignment explanation
Indices: 20574156--20574202 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
20574146 TAATGAATCC
*
20574156 AACCTTAATCACATAACATA
1 AACCATAATCACATAACATA
*
20574176 AACCTTAATCACATAACATA
1 AACCATAATCACATAACATA
*
20574196 AGCCATA
1 AACCATA
20574203 TGCACACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (20 bp):
AACCATAATCACATAACATA
Found at i:20576263 original size:80 final size:80
Alignment explanation
Indices: 20576179--20576327 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
20576169 TATGGTAACC
* * * *
20576179 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
20576243 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
20576259 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
20576324 CCGG
66 CCGG
20576328 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:20576269 original size:40 final size:38
Alignment explanation
Indices: 20576220--20576327 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
20576210 ATCACGATTT
*
20576220 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20576260 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20576300 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20576328 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Done.