Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 176 of 333
Found at i:57848614 original size:12 final size:12
Alignment explanation
Indices: 57848597--57848621 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57848587 TTTTGGATGA
57848597 ATTTGATTGAAT
1 ATTTGATTGAAT
57848609 ATTTGATTGAAT
1 ATTTGATTGAAT
57848621 A
1 A
57848622 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTTGATTGAAT
Found at i:57849058 original size:43 final size:43
Alignment explanation
Indices: 57848897--57849067 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
57848887 CATAGGATTC
* *
57848897 CGATATGTGATTTCGTGTAAGGCCACGTCTGGGA-TGTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * ** *
57848940 CGATTTGTGAATTTCTTGTAAGACCATGTCTGGGATA-TCAGTAT
1 CGATATGTG-ATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
* * * *
57848984 CG-TATATGAGTTCTGTAAGACC-CTTTTTGGGACAG-TGGCAT
1 CGATATGTGATTTCTGTAAGACCAC-GTCTGGGACAGTTGGCAT
*
57849025 CGATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATGTGATTTC-TGTAAGACCACGTCTGGGACAGTTGGCAT
57849068 TGTACAGGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 21 0.22
42 13 0.13
43 34 0.35
44 29 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTTCTGTAAGACCACGTCTGGGACAGTTGGCAT
Found at i:57857839 original size:26 final size:26
Alignment explanation
Indices: 57857806--57857882 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
57857796 GCCAACACAC
*
57857806 TAATATCGCAGCAAAGCTACCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* *
57857832 TAATATCGCAGCAGAGTTGCCAGTAA
1 TAATATCGCAGCAAAGCTGCCAGTAA
* * *
57857858 CAGTAACGCAGCAAAGCTGCCAGTA
1 TAATATCGCAGCAAAGCTGCCAGTA
57857883 TTAGTATATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
TAATATCGCAGCAAAGCTGCCAGTAA
Found at i:57858664 original size:17 final size:17
Alignment explanation
Indices: 57858642--57858676 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
57858632 TAATAATACT
57858642 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
57858659 TAATCCAAAAAGAACAC
1 TAATCCAAAAAGAACAC
57858676 T
1 T
57858677 CTTCTGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.23, G:0.06, T:0.14
Consensus pattern (17 bp):
TAATCCAAAAAGAACAC
Found at i:57864245 original size:27 final size:27
Alignment explanation
Indices: 57864214--57864391 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
57864204 TAAATTGTAC
57864214 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57864241 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57864267 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57864295 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57864323 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
57864350 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57864377 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57864392 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57864382 original size:82 final size:81
Alignment explanation
Indices: 57864211--57864391 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
57864201 GATTAAATTG
* *
57864211 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57864276 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57864292 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
57864356 AAGTGTGC-AAGTTGATTA
64 AAGTGTGCGAA-TTGACCA
* *
57864374 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57864392 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57872333 original size:27 final size:27
Alignment explanation
Indices: 57872302--57872479 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57872292 TAAATTGTAC
57872302 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57872329 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57872355 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57872383 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57872411 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57872438 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57872465 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57872480 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57872416 original size:82 final size:81
Alignment explanation
Indices: 57872303--57872458 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57872293 AAATTGTACA
* *
57872303 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57872367 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57872384 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57872449 TGCGAGTTGA
65 TGCGAATTGA
57872459 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57872470 original size:82 final size:81
Alignment explanation
Indices: 57872299--57872479 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57872289 GATTAAATTG
* *
57872299 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57872364 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57872380 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57872444 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57872462 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57872480 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57877711 original size:43 final size:42
Alignment explanation
Indices: 57877663--57877758 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
57877653 GTAGATATGG
* * *
57877663 TGGTCTTACATGAAA-TCCCGTATCGATGCCAATAGCCCAGCTA
1 TGGTCTTACA-CAAAGTCCCATATCGATGCC-ATAGCCCAGATA
* *
57877706 TGGTCTTACACAAAGTCTCATATCGATGCCATATCCCAGATA
1 TGGTCTTACACAAAGTCCCATATCGATGCCATAGCCCAGATA
57877748 TGGTCTTACAC
1 TGGTCTTACAC
57877759 GTAATCTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
42 24 0.51
43 23 0.49
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
TGGTCTTACACAAAGTCCCATATCGATGCCATAGCCCAGATA
Found at i:57881865 original size:71 final size:71
Alignment explanation
Indices: 57881744--57881930 Score: 295
Period size: 71 Copynumber: 2.6 Consensus size: 71
57881734 CCTTATAATG
* * * *
57881744 TAGCCTTTTAGCTACTGACTTATTTCACTTTGATACTTA-CGGCAAGGGTATCAAACCTTGGGCA
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTGATACTTATC-GCAAGGGTATCAAACCTTGGGCA
57881808 TATACTA
65 TATACTA
* *
57881815 TAGCATTTTAGCTACTTACTTATTTTAGTTTCATACTTATTGCAAGGGTATCAAACCTTGGGCAT
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTGATACTTATCGCAAGGGTATCAAACCTTGGGCAT
57881880 ATACTA
66 ATACTA
*
57881886 TAGCATTTTAGCTACTTACTTATTTTAGTCTGATACTTATCGCAA
1 TAGCATTTTAGCTACTTACTTATTTTAGTTTGATACTTATCGCAA
57881931 CCCTGGTCCT
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
71 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (71 bp):
TAGCATTTTAGCTACTTACTTATTTTAGTTTGATACTTATCGCAAGGGTATCAAACCTTGGGCAT
ATACTA
Found at i:57884709 original size:86 final size:85
Alignment explanation
Indices: 57884605--57884764 Score: 189
Period size: 86 Copynumber: 1.9 Consensus size: 85
57884595 ATATGTGTTA
* * * * *
57884605 TCGTGTAAGACCAGGTCTGGGAC-GTTGGCATCGAT-TTCTGATTTACGTGTAAGACCATGTCTA
1 TCGTCTAAGACCAGGTCTGAGACAG-TAGCATCGATATT-TGA-TTACATGTAAGACCACGTCTA
57884668 GAACATTGGCATCGTATATGATT
63 GAACATTGGCATCGTATATGATT
** * * *
57884691 TCGTCTAAGACCCTGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTTTGGGA
1 TCGTCTAAGACCAGGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTCTAGAA
57884756 CATTGGCAT
66 CATTGGCAT
57884765 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 28 0.45
86 31 0.50
87 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (85 bp):
TCGTCTAAGACCAGGTCTGAGACAGTAGCATCGATATTTGATTACATGTAAGACCACGTCTAGAA
CATTGGCATCGTATATGATT
Found at i:57884733 original size:43 final size:44
Alignment explanation
Indices: 57884632--57884746 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 44
57884622 TGGGACGTTG
* * *
57884632 GCATCGAT-TTCTGATTTACGTGTAAGACCATGTCTAGAACATTG
1 GCATCGATATT-TGATTTACGTCTAAGACCATGTCTAGAACAGTA
* *
57884676 GCATCG-TATATGATTT-CGTCTAAGACCCTGTCT-GAGACAGTA
1 GCATCGATATTTGATTTACGTCTAAGACCATGTCTAGA-ACAGTA
* *
57884718 GCATCGATATTTGA-TTACATGTAAGACCA
1 GCATCGATATTTGATTTACGTCTAAGACCA
57884747 CGTTTGGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.47
43 22 0.38
44 7 0.12
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
GCATCGATATTTGATTTACGTCTAAGACCATGTCTAGAACAGTA
Found at i:57887831 original size:39 final size:40
Alignment explanation
Indices: 57887731--57887915 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
57887721 TTGAATGATG
* * *
57887731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
57887770 ATCCGGACTAACAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57887811 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57887850 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57887889 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57887916 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57887937 original size:79 final size:79
Alignment explanation
Indices: 57887784--57887948 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
57887774 GGACTAACAT
* ** *
57887784 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
57887849 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
57887863 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
57887926 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57887942 CCGAAGG
1 CCGAAGG
57887949 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:57895711 original size:40 final size:40
Alignment explanation
Indices: 57895625--57895845 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
57895615 ATGATGTCCA
* * * * * *
57895625 GGCTAAGTCCCGAAGGC-TTTGTACTAAGTGACCATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
57895665 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
57895705 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
57895744 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
57895784 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
57895824 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
57895846 AACAAGGAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:57895863 original size:80 final size:80
Alignment explanation
Indices: 57895695--57895878 Score: 205
Period size: 80 Copynumber: 2.3 Consensus size: 80
57895685 TGTGCGAGAT
* * *
57895695 ACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
** * *
57895759 GCATTTGTGCGAGTT
66 GCATTTGAACAAGTG
* * *
57895774 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
57895838 GGCATTTGAACAAG-G
65 GGCATTTGAACAAGTG
* * *
57895853 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
57895879 TACGCGATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 30 0.34
80 57 0.64
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
GCATTTGAACAAGTG
Found at i:57902463 original size:42 final size:43
Alignment explanation
Indices: 57902359--57902490 Score: 135
Period size: 42 Copynumber: 3.1 Consensus size: 43
57902349 TAGTATTTCA
* * *
57902359 ATATATG-TTATCGTGTAAG-CCACGTCTAGGACGTTGGCATTG
1 ATATATGATT-TCGTGTAAGACCATGTCTGGGACATTGGCATTG
* *
57902401 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCATTG
1 ATATATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATTG
* * * * *
57902445 -TATATGATTTCGTGTAAGACCCTATCTGGAACAGTGGCATCG
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTG
57902487 ATAT
1 ATAT
57902491 TTTATTACAT
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
42 33 0.45
43 21 0.28
44 20 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (43 bp):
ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTG
Found at i:57904265 original size:27 final size:26
Alignment explanation
Indices: 57904221--57904271 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
57904211 CTCGCTGCAA
*
57904221 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
57904248 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
57904272 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:57921839 original size:34 final size:34
Alignment explanation
Indices: 57921801--57921880 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
57921791 GCAAATAGTC
* *
57921801 TGGGCCTAAGCCC-TTAACAGTAGCAATATCAGTG
1 TGGGCCTTAGCCCATT-ACAGTAACAATATCAGTG
*
57921835 TGGGCCTTAGCCCATTACAGTAACAGTATCAGTG
1 TGGGCCTTAGCCCATTACAGTAACAATATCAGTG
57921869 TGGGCCTTAGCC
1 TGGGCCTTAGCC
57921881 TAATTCAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTACAGTAACAATATCAGTG
Found at i:57921890 original size:34 final size:34
Alignment explanation
Indices: 57921817--57921899 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
57921807 TAAGCCCTTA
* *
57921817 ACAGTAGCAATATCAGTGTGGGCCTTAGCCCATT
1 ACAGTAACAATATCAGTGTGGGCCTTAGCCAATT
*
57921851 ACAGTAACAGTATCAGTGTGGGCCTTAGCCTAATT
1 ACAGTAACAATATCAGTGTGGGCCTTAGCC-AATT
*
57921886 -CAGT-ACATTATCAG
1 ACAGTAACAATATCAG
57921900 AGATACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 9 0.20
34 32 0.73
35 3 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
ACAGTAACAATATCAGTGTGGGCCTTAGCCAATT
Found at i:57926660 original size:49 final size:47
Alignment explanation
Indices: 57926542--57926671 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 47
57926532 TATAATGCCA
* **
57926542 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAATCAAGCCG
* * * *
57926589 ATGCCATTTTCCAAACATGGTCTTACACTGGCT-ATCGTAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC--AATC-AAGCCG
*
57926638 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
57926672 TCACATATCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 3 0.04
47 30 0.44
48 3 0.04
49 32 0.47
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAATCAAGCCG
Found at i:57926740 original size:30 final size:30
Alignment explanation
Indices: 57926704--57926765 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
57926694 TGTCCCAGAC
* *
57926704 ATAGTCTTACATTGACACATCTCATAGTCG
1 ATAGTCTTACACTGACACATCTCATAGCCG
*
57926734 ATAGTCTTACACTGGCACATCTCATAGCCG
1 ATAGTCTTACACTGACACATCTCATAGCCG
57926764 AT
1 AT
57926766 CCATGTCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (30 bp):
ATAGTCTTACACTGACACATCTCATAGCCG
Found at i:57926817 original size:46 final size:45
Alignment explanation
Indices: 57926737--57926888 Score: 184
Period size: 46 Copynumber: 3.3 Consensus size: 45
57926727 ATAGTCGATA
* *
57926737 GTCTTACACTGGC--ACATCTCATAGCCGATCCATGTCCCAGACAT
1 GTCTTACACTGGCTTACATCTCA-AGCCAATGCATGTCCCAGACAT
*
57926781 GTCTTACACTGGCTTACATCTCAAGGCCAATGCATGTCGCAGACAT
1 GTCTTACACTGGCTTACATCTCAA-GCCAATGCATGTCCCAGACAT
* *
57926827 GTCTTACACTAGCTCT-CGTCTCAATGCCAATGCCATGTCCCAGACAT
1 GTCTTACACTGGCT-TACATCTCAA-GCCAATG-CATGTCCCAGACAT
57926874 GGTCTTACACTGGCT
1 -GTCTTACACTGGCT
57926889 CTCCAATAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
44 13 0.14
45 1 0.01
46 53 0.56
47 14 0.15
48 13 0.14
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGGCTTACATCTCAAGCCAATGCATGTCCCAGACAT
Found at i:57935550 original size:44 final size:42
Alignment explanation
Indices: 57935471--57935582 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 42
57935461 TCCAATATGT
* * * **
57935471 GATTTTGTGTAAGACCATGTCTGAGACTTTGGCATCGAT-TTGA
1 GATTTCGTGTAAGACCATGTCTGGGACATCAGCATC-ATATT-A
*
57935514 GATTTACGTGTAAGACCATGTCTGGGACATCAGCATCATATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACATCAGCATCATATTA
* *
57935557 GATTTCGTGTAAGACCTTTTCTGGGA
1 GATTTCGTGTAAGACCATGTCTGGGA
57935583 TAGTGGCATC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 19 0.32
43 12 0.20
44 28 0.47
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACATCAGCATCATATTA
Found at i:57935599 original size:43 final size:42
Alignment explanation
Indices: 57935465--57935621 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
57935455 TAGGATTCCA
* * * *
57935465 ATATGTGATTTTGTGTAAGACCATGTCTGAGACTTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGA-TATGGCATCG
* * *
57935508 AT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATCAGCATC-
1 ATATT-TGATTT-CGTGTAAGACCATGTCTGGGATAT-GGCATCG
* *
57935551 ATATTTGATTTCGTGTAAGACCTTTTCTGGGATAGTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTCTGGGATA-TGGCATCG
* * *
57935594 ATATTTGATTACATGTAAGACCACGTCT
1 ATATTTGATTTCGTGTAAGACCATGTCT
57935622 TGTACTGCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 26 0.29
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (42 bp):
ATATTTGATTTCGTGTAAGACCATGTCTGGGATATGGCATCG
Found at i:57937455 original size:46 final size:46
Alignment explanation
Indices: 57937405--57937577 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
57937395 TGGTTGAGCA
57937405 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57937451 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* **
57937496 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57937544 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57937578 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 2 0.02
46 58 0.55
47 25 0.24
48 1 0.01
50 3 0.03
51 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57937561 original size:93 final size:93
Alignment explanation
Indices: 57937402--57937571 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
57937392 GGATGGTTGA
***
57937402 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
57937467 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* *
57937495 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
57937560 TGAGTCTGAGTT
66 TGAGTCCGAGTT
57937572 CACTTAGGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:57944589 original size:22 final size:22
Alignment explanation
Indices: 57944561--57944604 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
57944551 AACATACTAT
57944561 GTCATAACTTAATTTTGGCCTG
1 GTCATAACTTAATTTTGGCCTG
57944583 GTCATAACTTAATTTTGGCCTG
1 GTCATAACTTAATTTTGGCCTG
57944605 AAAGCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (22 bp):
GTCATAACTTAATTTTGGCCTG
Found at i:57952072 original size:40 final size:40
Alignment explanation
Indices: 57951886--57952102 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 40
57951876 CGGATGATAA
* * ** *
57951886 CCGGACTAAGATCCGAAGGCATTCATGCAAGTTGGTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
57951926 CCGGGCCATGTCCCGAAGGCATTTATGCTAA--TGATTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTG-TTATAT
* * *
57951966 CCGGGCTAAGACCCGAAGGCACTTGTGCGAGTTGTTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
* *
57952006 CCGGGCTAAGACCCGAAGGCACTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
57952046 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
57952086 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
57952103 ATGCTGGGTT
Statistics
Matches: 154, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 16 0.10
40 133 0.86
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:57959246 original size:27 final size:26
Alignment explanation
Indices: 57959216--57959419 Score: 192
Period size: 27 Copynumber: 7.5 Consensus size: 26
57959206 AAATTGTACA
57959216 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* *
57959243 GCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* * *
57959270 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
57959297 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
57959324 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * *
57959352 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
57959379 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
57959406 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57959420 GGCTCAATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:57959276 original size:54 final size:53
Alignment explanation
Indices: 57959216--57959419 Score: 221
Period size: 54 Copynumber: 3.8 Consensus size: 53
57959206 AAATTGTACA
* * *
57959216 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * ** *
57959270 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTA-GCACTAAGTGTGCGAATTGAATATGTG
* * *
57959324 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * *
57959379 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
57959420 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 77 0.61
55 48 0.38
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
Found at i:57959410 original size:109 final size:108
Alignment explanation
Indices: 57959216--57959419 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 108
57959206 AAATTGTACA
* * * *
57959216 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
57959281 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
** *
57959324 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
57959389 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
57959420 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 19 0.23
109 64 0.77
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:57967263 original size:27 final size:26
Alignment explanation
Indices: 57967233--57967436 Score: 183
Period size: 27 Copynumber: 7.5 Consensus size: 26
57967223 AAATTGTACA
57967233 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTT
* *
57967260 GCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* * *
57967287 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCG-ATTGACTATGTT
* **
57967314 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTT
*
57967341 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTT
* * * *
57967369 GCACTAAGTGTGTGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTT
* * *
57967396 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTT
*
57967423 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57967437 GGCTCAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.84
28 24 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTT
Found at i:57967293 original size:54 final size:53
Alignment explanation
Indices: 57967233--57967436 Score: 212
Period size: 54 Copynumber: 3.8 Consensus size: 53
57967223 AAATTGTACA
* * *
57967233 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTT
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * ** *
57967287 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTA-GCACTAAGTGTGCGAATTGAATATGTG
* * * *
57967341 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGTGATTTGATTACGTG
1 GCACTAAGTGTGCGA-T-TGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
* * *
57967396 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
57967437 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
53 1 0.01
54 76 0.61
55 47 0.38
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (53 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGTG
Found at i:57967427 original size:109 final size:108
Alignment explanation
Indices: 57967233--57967436 Score: 275
Period size: 109 Copynumber: 1.9 Consensus size: 108
57967223 AAATTGTACA
* * * *
57967233 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
57967298 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
* ** *
57967341 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGTGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
** * *
57967406 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
57967437 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 19 0.23
109 63 0.77
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:57971436 original size:5 final size:5
Alignment explanation
Indices: 57971426--57971451 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57971416 AAGTAAATGA
57971426 AACAT AACAT AACAT AACAT AACAT A
1 AACAT AACAT AACAT AACAT AACAT A
57971452 TCTCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AACAT
Found at i:57974521 original size:27 final size:27
Alignment explanation
Indices: 57974417--57974742 Score: 262
Period size: 27 Copynumber: 12.1 Consensus size: 27
57974407 TTTGCCGGAA
*
57974417 AGGGGTATTTCT-GTAATTTTACACTAC-
1 AGGGGTATTT-TAGTAATTTTACA-AACT
* * *
57974444 AAGGGTATTTTAATAATTTTACACTA-T
1 AGGGGTATTTTAGTAATTTTACA-AACT
* *
57974471 AAGGGTA-TTTCGATAATTTTACAAACT
1 AGGGGTATTTTAG-TAATTTTACAAACT
*
57974498 AGGGGTATTTTAGTAATTTTACAAATT
1 AGGGGTATTTTAGTAATTTTACAAACT
* * * *
57974525 GGGGGTA-TTTCGAAAATTTTACAAACC
1 AGGGGTATTTTAG-TAATTTTACAAACT
** *
57974552 AGGGGTATTTCGGTAGTTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAAACT
* *
57974579 -GGGGTATTTCAGTAATTTTACAAATT
1 AGGGGTATTTTAGTAATTTTACAAACT
* *
57974605 GGGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAAACT
*
57974632 GGGGGTATTTT-GATAATTTTACAAACT
1 AGGGGTATTTTAG-TAATTTTACAAACT
*
57974659 -GAGGGTATTTTGGTAATTTTA-AAA-T
1 AG-GGGTATTTTAGTAATTTTACAAACT
*
57974684 CAGGGGTATTTT-GATAATTTTACAAACC
1 -AGGGGTATTTTAG-TAATTTTACAAACT
* * *
57974712 ACGGGTA-TTTCGATAATTTTACAAACC
1 AGGGGTATTTTAG-TAATTTTACAAACT
57974739 AGGG
1 AGGG
57974743 TCTTAATGAC
Statistics
Matches: 255, Mismatches: 27, Indels: 34
0.81 0.09 0.11
Matches are distributed among these distances:
25 2 0.01
26 57 0.22
27 188 0.74
28 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAAACT
Found at i:57974531 original size:54 final size:54
Alignment explanation
Indices: 57974417--57974736 Score: 314
Period size: 54 Copynumber: 6.0 Consensus size: 54
57974407 TTTGCCGGAA
* * * *
57974417 AGGGGTATTTCTG-TAATTTTACACTAC-AAGGGTATTTTAATAATTTTAC-ACTAT
1 AGGGGTATTTC-GATAATTTTACA-AACTAGGGGTATTTTAGTAATTTTACAAAT-T
*
57974471 AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * ** * *
57974525 GGGGGTATTTCGAAAATTTTACAAACCAGGGGTATTTCGGTAGTTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * *
57974579 -GGGGTATTTC-AGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCGA-TAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
* * * *
57974632 GGGGGTATTTTGATAATTTTACAAACT-GAGGGTATTTTGGTAATTTTA-AAATC
1 AGGGGTATTTCGATAATTTTACAAACTAG-GGGTATTTTAGTAATTTTACAAATT
* * * *
57974685 AGGGGTATTTTGATAATTTTACAAACCACGGGTA-TTTCGATAATTTTACAAA
1 AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAG-TAATTTTACAAA
57974737 CCAGGGTCTT
Statistics
Matches: 227, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
52 5 0.02
53 90 0.40
54 129 0.57
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
AGGGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATT
Found at i:57974615 original size:80 final size:80
Alignment explanation
Indices: 57974473--57974737 Score: 381
Period size: 80 Copynumber: 3.3 Consensus size: 80
57974463 TACACTATAA
57974473 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
1 GGGTATTTCGATAATTTTACAAACT-GGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
*
57974538 AAATTTTACAAACCAG
65 TAATTTTACAAACCAG
* * *
57974554 GGGTATTTCGGTAGTTTTACAAACTGGGGTATTTCAGTAATTTTACAAATTGGGGGTATTTC-AG
1 GGGTATTTCGATAATTTTACAAACTGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA-
**
57974618 TAATTTTACAAACTGG
65 TAATTTTACAAACCAG
* * ** *
57974634 GGGTATTTTGATAATTTTACAAACTGAGGGTATTTTGGTAATTTTA-AAATCAGGGGTATTTTGA
1 GGGTATTTCGATAATTTTACAAACTG-GGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
*
57974698 TAATTTTACAAACCAC
65 TAATTTTACAAACCAG
57974714 GGGTATTTCGATAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAAC
57974738 CAGGGTCTTA
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 121 0.74
81 41 0.25
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
GGGTATTTCGATAATTTTACAAACTGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGAT
AATTTTACAAACCAG
Found at i:57974624 original size:107 final size:107
Alignment explanation
Indices: 57974473--57974737 Score: 349
Period size: 107 Copynumber: 2.5 Consensus size: 107
57974463 TACACTATAA
* *
57974473 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCGA
1 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGA
* *
57974538 AAATTTTACAAACCAG-GGGTATTTCGGTAGTTTTACAAA-CTG
66 AAATTTTACAAA-CAGAGGGTATTTCGGTAATTTTA-AAATCAG
* * *
57974580 GGGTATTTC-AGTAATTTTACAAATTGGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTTG
1 GGGTATTTCGA-TAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCG
* * *
57974644 ATAATTTTACAAACTGAGGGTATTTTGGTAATTTTAAAATCAG
65 AAAATTTTACAAACAGAGGGTATTTCGGTAATTTTAAAATCAG
* * *
57974687 GGGTATTTTGATAATTTTACAAACCACGGGTATTTC-GATAATTTTACAAAC
1 GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAG-TAATTTTACAAAC
57974738 CAGGGTCTTA
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
106 7 0.05
107 130 0.94
108 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (107 bp):
GGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAGTAATTTTACAAACTGGGGGTATTTCGA
AAATTTTACAAACAGAGGGTATTTCGGTAATTTTAAAATCAG
Found at i:57979129 original size:16 final size:15
Alignment explanation
Indices: 57979105--57979134 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57979095 AACTGTTTTA
57979105 TTACAAATTTCACTC
1 TTACAAATTTCACTC
57979120 TTACATAATTTCACT
1 TTACA-AATTTCACT
57979135 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:57979498 original size:50 final size:50
Alignment explanation
Indices: 57979338--57979522 Score: 259
Period size: 49 Copynumber: 3.7 Consensus size: 50
57979328 GAAGTTATCC
* *
57979338 GGTACGCATAGTAGCCTAG-ACTTAGTACTACACATGCGACC-AACAATCT
1 GGTACACATAGTAGCCT-GCACTTAGTACTACACATGTGACCTAACAATCT
*
57979387 GGTACACATAGTAGCCTGCACTTAGTACTACACA-GTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
** * * * *
57979436 CATACACGTAGTAGCCTGCACTTAGTACTGCACATGTGACCTAACTATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
57979486 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
57979523 AACACCACAA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 6 0.05
49 68 0.57
50 46 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
Found at i:57980194 original size:6 final size:6
Alignment explanation
Indices: 57980185--57980338 Score: 102
Period size: 6 Copynumber: 24.8 Consensus size: 6
57980175 AATTAAAATG
* * *
57980185 AGAATC AGAATC AGAATC AGGGGA-C AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC A--GAATC AGAATC AGAATC AGAATC AGAAT--C
* *
57980235 AGAATC AGAATC AGGATC ACGTAA-C AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
57980284 AGAATT AGGTGAT- AGAATC AGAATT AGTATC AGGTAAT- AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
57980334 AGAAT
1 AGAAT
57980339 GTAAATGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
5 10 0.09
6 87 0.75
7 11 0.09
8 8 0.07
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:57980218 original size:25 final size:25
Alignment explanation
Indices: 57980185--57980278 Score: 143
Period size: 25 Copynumber: 3.8 Consensus size: 25
57980175 AATTAAAATG
*
57980185 AGAATCAGAATCAGAATCAGGGGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
57980210 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
57980235 AGAATCAGAATCAGGATCACGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
57980260 AGAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
57980279 AAATCAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:57980222 original size:31 final size:31
Alignment explanation
Indices: 57980185--57980316 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
57980175 AATTAAAATG
57980185 AGAATCAGAATCAGAATCAGGGGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
*
57980216 AGAATCAGAAT-----T-AGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
57980241 AGAATCAGGATCACGTAA-CA--GAATCAGAATC
1 AGAATCAGAATCA-G-AATCAGGGGA-CAGAATC
* * * *
57980272 AGAATCAAAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
57980303 AGAATTAGTATCAG
1 AGAATCAGAATCAG
57980317 GTAATAGAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
25 22 0.29
26 1 0.01
29 2 0.03
30 3 0.04
31 46 0.61
32 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGGGACAGAATC
Found at i:57980237 original size:19 final size:19
Alignment explanation
Indices: 57980215--57980310 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 19
57980205 GGGACAGAAT
57980215 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
*
57980234 CAGAATCAGAATCAGGATCACGTAA
1 CAGAATCAGAATTAGG-T---G--A
* *
57980259 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTGA
*
57980276 TCAAAATCAGAATTAGGTGA
1 -CAGAATCAGAATTAGGTGA
*
57980296 TAGAATCAGAATTAG
1 CAGAATCAGAATTAG
57980311 TATCAGGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 12 0.20
19 29 0.48
20 2 0.03
23 1 0.02
24 1 0.02
25 15 0.25
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:57980276 original size:62 final size:62
Alignment explanation
Indices: 57980209--57980338 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
57980199 AATCAGGGGA
*
57980209 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
* * * * *
57980271 CAGAATCAAAATCAGAATTAGGTGATAGAATCAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
57980333 CAGAAT
1 CAGAAT
57980339 GTAAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
Found at i:57980300 original size:25 final size:25
Alignment explanation
Indices: 57980259--57980338 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
57980249 GATCACGTAA
*
57980259 CAGAATCA-G-AATCAGAATCAAAAT
1 CAGAATCAGGTAAT-AGAATCAGAAT
* *
57980283 CAGAATTAGGTGATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
* *
57980308 TAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
57980333 CAGAAT
1 CAGAAT
57980339 GTAAATGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 7 0.16
25 36 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (25 bp):
CAGAATCAGGTAATAGAATCAGAAT
Found at i:57980332 original size:31 final size:30
Alignment explanation
Indices: 57980209--57980338 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 30
57980199 AATCAGGGGA
*
57980209 CAGAATCAGAATCAG-AATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTAA-TAGAAT--CAGAAT
* *
57980240 CAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
* *
57980271 CAGAATCAAAATCAG-AATTAGGTGAT-AGAAT
1 CAGAATCAGAATCAGTAA-TA-G-AATCAGAAT
* *
57980302 CAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
57980333 CAGAAT
1 CAGAAT
57980339 GTAAATGCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 60 0.76
32 8 0.10
33 5 0.06
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (30 bp):
CAGAATCAGAATCAGTAATAGAATCAGAAT
Found at i:57980493 original size:27 final size:26
Alignment explanation
Indices: 57980456--57980563 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
57980446 AGCATGGCTG
* *
57980456 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
57980482 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
57980509 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
57980536 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
57980563 C
1 C
57980564 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 54 0.75
28 7 0.10
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:57980750 original size:22 final size:22
Alignment explanation
Indices: 57980722--57980786 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
57980712 GCAAATACGT
*
57980722 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
57980744 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
57980766 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
57980787 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:57981204 original size:27 final size:27
Alignment explanation
Indices: 57981174--57981258 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
57981164 GGGCAAAATG
* * *
57981174 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
57981201 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
57981227 GATAATTCTACCCTATAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
57981255 GTAA
1 GTAA
57981259 CTTTGTAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:57981329 original size:27 final size:27
Alignment explanation
Indices: 57981299--57981475 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
57981289 TATAAATTAG
* * *
57981299 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** **
57981326 GGGTATTTCAGTAATTTTACAGGTCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * * *
57981353 GGGTATTTTAGTAAATTCACAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
57981380 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
57981406 GGTGTATTTTGGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTACAAATCAA
* *
57981434 GGGTATTTTGGTAATTTT-TAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
57981460 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
57981476 CTACCCTACA
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 26 0.20
27 100 0.77
28 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:57981341 original size:54 final size:54
Alignment explanation
Indices: 57981265--57981451 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 54
57981255 GTAACTTTGT
*** * * * *
57981265 AAATCGAGGGTAAAACAATAATTCTATAAATTAGGGGTACTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
* ** * * * * *
57981319 AAGTCGAGGGTATTTCAGTAATTTTACAGGTCAAGGGTATTTTAGTAAATTCAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
** * *
57981373 AAATCGAGGGTATTTTGGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
* * **
57981427 AAACCAAGGGTATTTTGGTAATTTT
1 AAATCGAGGGTATTTCAGTAATTTT
57981452 TAAACCAAGG
Statistics
Matches: 104, Mismatches: 29, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGGTAATTTTAC
Found at i:57983392 original size:6 final size:6
Alignment explanation
Indices: 57983383--57983558 Score: 114
Period size: 6 Copynumber: 28.8 Consensus size: 6
57983373 AATAAAAATG
* * * * *
57983383 AGAATT AGAATT AGAATC AGTGA-C AGAATC AGAATT AGAATC AGAATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
57983431 AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C A-AATC AGAATT AGAATT
1 AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
57983480 AGAATC A-ATATC AGGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGA-ATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
57983529 AGTATT AGGTAAT- AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
57983559 GTGAATGCAA
Statistics
Matches: 137, Mismatches: 16, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
4 2 0.01
5 10 0.07
6 109 0.80
7 10 0.07
8 5 0.04
9 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (6 bp):
AGAATC
Found at i:57983398 original size:12 final size:12
Alignment explanation
Indices: 57983362--57983558 Score: 75
Period size: 12 Copynumber: 16.2 Consensus size: 12
57983352 AAGAAACATT
*
57983362 ATCAGAACTAGA
1 ATCAGAATTAGA
* * *
57983374 ATAAAAATGAGA
1 ATCAGAATTAGA
*
57983386 ATTAGAATTAGA
1 ATCAGAATTAGA
* *
57983398 ATCAGTGA-CAGA
1 ATCAG-AATTAGA
57983410 ATCAGAATTAGA
1 ATCAGAATTAGA
57983422 ATCAGAATTAG-
1 ATCAGAATTAGA
* *
57983433 GTGACAGAATCAGA
1 AT--CAGAATTAGA
* *
57983447 ATCAGTATCAGGTA
1 ATCAGAATTA-G-A
*
57983461 A-CA-AATCAGA
1 ATCAGAATTAGA
*
57983471 ATTAGAATTAGA
1 ATCAGAATTAGA
*
57983483 ATCA-ATATCAGGTA
1 ATCAGA-ATTA-G-A
*
57983497 A-CAGAATCAGA
1 ATCAGAATTAGA
*
57983508 ATCAGAATCAGA
1 ATCAGAATTAGA
* *
57983520 ATCAGAATCAGT
1 ATCAGAATTAGA
*
57983532 ATTAGGTAA-TAGA
1 ATCA-G-AATTAGA
*
57983545 ATCAGAATCAGA
1 ATCAGAATTAGA
57983557 AT
1 AT
57983559 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 27, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
10 2 0.01
11 9 0.06
12 97 0.69
13 25 0.18
14 8 0.06
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.22
Consensus pattern (12 bp):
ATCAGAATTAGA
Found at i:57983447 original size:25 final size:25
Alignment explanation
Indices: 57983412--57983558 Score: 113
Period size: 25 Copynumber: 5.7 Consensus size: 25
57983402 GTGACAGAAT
* *
57983412 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
57983437 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
57983462 CA-AATCAGAATTAGAATTAGAATCAATA
1 CAGAATCAGAATCAGAATTAG-GT--A-A
*
57983490 TCAGGTAA-CAGAATCAGAATCA-G-AA
1 -CA-G-AATCAGAATCAGAATTAGGTAA
*
57983515 TCAGAATCAGAATCAGTATTAGGTAA
1 -CAGAATCAGAATCAGAATTAGGTAA
*
57983541 TAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
57983559 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
23 2 0.02
24 28 0.29
25 45 0.47
26 3 0.03
27 1 0.01
28 1 0.01
29 2 0.02
31 12 0.12
32 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:57983468 original size:43 final size:42
Alignment explanation
Indices: 57983419--57983552 Score: 145
Period size: 43 Copynumber: 3.3 Consensus size: 42
57983409 AATCAGAATT
57983419 AGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATTA-GT-ACAGAATCAGAATCAGTATCAGGTAAC
* *
57983463 A-AATCAGAA-T--T--AGAATTAGAATCAATATCAGGTAAC
1 AGAATCAGAATTAGTACAGAATCAGAATCAGTATCAGGTAAC
* * * *
57983499 AGAATCAGAATCAGAATCAGAATCAGAATCAGTATTAGGTAAT
1 AGAATCAGAATTAGTA-CAGAATCAGAATCAGTATCAGGTAAC
57983542 AGAATCAGAAT
1 AGAATCAGAAT
57983553 CAGAATGTGA
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
36 24 0.32
37 8 0.11
39 1 0.01
42 1 0.01
43 40 0.53
44 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (42 bp):
AGAATCAGAATTAGTACAGAATCAGAATCAGTATCAGGTAAC
Found at i:57983478 original size:61 final size:61
Alignment explanation
Indices: 57983383--57983555 Score: 185
Period size: 61 Copynumber: 2.8 Consensus size: 61
57983373 AATAAAAATG
* * * * * *
57983383 AGAATTAGAATTAGAATCAGTGA-CAGAATCAGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAG-AATCAGAATTAGAATTAGAATCAGAATCAGGTAACAGAATC
*
57983444 AGAATCAGTATCAGGTAA-CA-AATCAGAATTAGAATTAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCA-G-AATCAGAATCAGAATTAGAATTAGAATCAGA-ATCAGGTAACAGAATC
*
57983505 AGAATCAGAATCAGAATCAGAATCAGTATTAGGTAA-TAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAGAATCAGAATTA-G-AATTAGAATCAGAATCAG
57983556 AATGTGAATG
Statistics
Matches: 94, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
59 2 0.02
60 5 0.05
61 65 0.69
62 17 0.18
63 5 0.05
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (61 bp):
AGAATCAGAATCAGAATCAGAATCAGAATTAGAATTAGAATCAGAATCAGGTAACAGAATC
Found at i:57983716 original size:27 final size:26
Alignment explanation
Indices: 57983675--57983760 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
57983665 AACATGGCTG
* *
57983675 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAGAGCCA
* *
57983701 CCAGATATAGTTATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTGTGACAGAGCCA
* *
57983728 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAATAGATA-TTGTGACAGAGCCA
*
57983755 CTAGAA
1 CCAGAA
57983761 ACAGATAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAGAGCCA
Found at i:57983772 original size:27 final size:27
Alignment explanation
Indices: 57983675--57983780 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
57983665 AACATGGCTG
* * *
57983675 CCAGAACAGATAT-TGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* * *
57983701 CCAGATATAGTTAT-TGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAAAGCCA
* * *
57983728 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
57983755 CTAGAAACAGATA-ATGTGGCAAAGCC
1 CCAG-AACAGATATATGTGGCAAAGCC
57983781 GCTTAATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.18
27 48 0.72
28 7 0.10
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAAAGCCA
Found at i:57983976 original size:22 final size:22
Alignment explanation
Indices: 57983940--57984005 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
57983930 GGCAAATACG
57983940 TTGGCACACAA-CCATAATCAGA
1 TTGGCACA-AAGCCATAATCAGA
* *
57983962 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGA
* *
57983984 TTGGCGCAAAGCCGTAATCAGA
1 TTGGCACAAAGCCATAATCAGA
57984006 ATAATTGCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:57984513 original size:26 final size:24
Alignment explanation
Indices: 57984484--57984588 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 24
57984474 GGTAAAACGA
*
57984484 TAATTCTATAAATTAGGGTACTTTGG
1 TAATT-TACAAATTAGGGTA-TTTGG
* * *
57984510 TAATTTTACAAGTGAGGGTATTTCAG
1 TAA-TTTACAAATTAGGGTATTT-GG
*
57984536 TAATTTACAAACTAGGTGTATTTGG
1 TAATTTACAAATTAGG-GTATTTGG
* *
57984561 TAATTTACAAA-CAAGGTA-TTGG
1 TAATTTACAAATTAGGGTATTTGG
57984583 TAATTT
1 TAATTT
57984589 TAAACCAAGG
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
22 10 0.15
23 3 0.05
24 2 0.03
25 25 0.38
26 24 0.36
27 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (24 bp):
TAATTTACAAATTAGGGTATTTGG
Found at i:57984563 original size:25 final size:24
Alignment explanation
Indices: 57984497--57984588 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
57984487 TTCTATAAAT
*
57984497 TAGGGTACTTTGGTAATTTTAC-AAG
1 TAGGGTA-TTTGGTAA-TTTACAAAC
*
57984522 TGAGGGTATTTCAGTAATTTACAAAC
1 T-AGGGTATTT-GGTAATTTACAAAC
57984548 TAGGTGTATTTGGTAATTTACAAAC
1 TAGG-GTATTTGGTAATTTACAAAC
*
57984573 -AAGGTA-TTGGTAATTT
1 TAGGGTATTTGGTAATTT
57984589 TAAACCAAGG
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.17
23 3 0.05
24 2 0.03
25 25 0.42
26 19 0.32
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (24 bp):
TAGGGTATTTGGTAATTTACAAAC
Found at i:57984585 original size:22 final size:22
Alignment explanation
Indices: 57984535--57984602 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
57984525 GGGTATTTCA
*
57984535 GTAATTTACAAACTAGGTGTATTTG
1 GTAATTTACAAAC-AAG-GTA-TTG
57984560 GTAATTTACAAACAAGGTATTG
1 GTAATTTACAAACAAGGTATTG
*
57984582 GTAATTTTA-AACCAAGGTATT
1 GTAA-TTTACAAACAAGGTATT
57984603 TAGTAATCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
22 18 0.45
23 7 0.17
24 2 0.05
25 13 0.32
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (22 bp):
GTAATTTACAAACAAGGTATTG
Found at i:57999242 original size:16 final size:15
Alignment explanation
Indices: 57999218--57999247 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57999208 AACTGTTTTA
57999218 TTACAAATTTCACTC
1 TTACAAATTTCACTC
57999233 TTACATAATTTCACT
1 TTACA-AATTTCACT
57999248 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:57999611 original size:50 final size:50
Alignment explanation
Indices: 57999451--57999635 Score: 259
Period size: 49 Copynumber: 3.7 Consensus size: 50
57999441 GAAGTTATCC
* *
57999451 GGTACGCATAGTAGCCTAG-ACTTAGTACTACACATGCGACC-AACAATCT
1 GGTACACATAGTAGCCT-GCACTTAGTACTACACATGTGACCTAACAATCT
*
57999500 GGTACACATAGTAGCCTGCACTTAGTACTACACA-GTGACCTAACCATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
** * * * *
57999549 CATACACGTAGTAGCCTGCACTTAGTACTGCACATGTGACCTAACTATTT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
57999599 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGT
57999636 AACACCACAA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
48 6 0.05
49 68 0.57
50 46 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
Found at i:58000306 original size:6 final size:6
Alignment explanation
Indices: 58000297--58000450 Score: 102
Period size: 6 Copynumber: 24.8 Consensus size: 6
58000287 AATTAAAATG
* * *
58000297 AGAATC AGAATC AGAATC AGGGGA-C AGAATC AGAATC AGAATT AG-GTGAC
1 AGAATC AGAATC AGAATC A--GAATC AGAATC AGAATC AGAATC AGAAT--C
* *
58000347 AGAATC AGAATC AGGATC ACGTAA-C AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC
* * * *
58000396 AGAATT AGGTGAT- AGAATC AGAATT AGTATC AGGTAAT- AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
58000446 AGAAT
1 AGAAT
58000451 GTAAATGCAA
Statistics
Matches: 116, Mismatches: 17, Indels: 30
0.71 0.10 0.18
Matches are distributed among these distances:
5 10 0.09
6 87 0.75
7 11 0.09
8 8 0.07
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:58000330 original size:25 final size:25
Alignment explanation
Indices: 58000297--58000390 Score: 143
Period size: 25 Copynumber: 3.8 Consensus size: 25
58000287 AATTAAAATG
*
58000297 AGAATCAGAATCAGAATCAGGGGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
58000322 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
58000347 AGAATCAGAATCAGGATCACGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
58000372 AGAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
58000391 AAATCAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:58000334 original size:31 final size:31
Alignment explanation
Indices: 58000297--58000428 Score: 93
Period size: 31 Copynumber: 4.5 Consensus size: 31
58000287 AATTAAAATG
58000297 AGAATCAGAATCAGAATCAGGGGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
*
58000328 AGAATCAGAAT-----T-AGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
58000353 AGAATCAGGATCACGTAA-CA--GAATCAGAATC
1 AGAATCAGAATCA-G-AATCAGGGGA-CAGAATC
* * * *
58000384 AGAATCAAAATCAGAATTAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGGGGACAGAATC
* *
58000415 AGAATTAGTATCAG
1 AGAATCAGAATCAG
58000429 GTAATAGAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
25 22 0.29
26 1 0.01
29 2 0.03
30 3 0.04
31 46 0.61
32 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGGGACAGAATC
Found at i:58000349 original size:19 final size:19
Alignment explanation
Indices: 58000327--58000422 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 19
58000317 GGGACAGAAT
58000327 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTGA
*
58000346 CAGAATCAGAATCAGGATCACGTAA
1 CAGAATCAGAATTAGG-T---G--A
* *
58000371 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTGA
*
58000388 TCAAAATCAGAATTAGGTGA
1 -CAGAATCAGAATTAGGTGA
*
58000408 TAGAATCAGAATTAG
1 CAGAATCAGAATTAG
58000423 TATCAGGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
17 1 0.02
18 12 0.20
19 29 0.48
20 2 0.03
23 1 0.02
24 1 0.02
25 15 0.25
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTGA
Found at i:58000388 original size:62 final size:62
Alignment explanation
Indices: 58000321--58000450 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 62
58000311 AATCAGGGGA
*
58000321 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
* * * * *
58000383 CAGAATCAAAATCAGAATTAGGTGATAGAATCAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
58000445 CAGAAT
1 CAGAAT
58000451 GTAAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATTAGGTGACAGAATCAGAATCAGGATCACGTAACAGAATCAGAAT
Found at i:58000412 original size:25 final size:25
Alignment explanation
Indices: 58000371--58000450 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
58000361 GATCACGTAA
*
58000371 CAGAATCA-G-AATCAGAATCAAAAT
1 CAGAATCAGGTAAT-AGAATCAGAAT
* *
58000395 CAGAATTAGGTGATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
* *
58000420 TAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGGTAATAGAATCAGAAT
58000445 CAGAAT
1 CAGAAT
58000451 GTAAATGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
24 7 0.16
25 36 0.80
26 2 0.04
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (25 bp):
CAGAATCAGGTAATAGAATCAGAAT
Found at i:58000444 original size:31 final size:30
Alignment explanation
Indices: 58000321--58000450 Score: 97
Period size: 31 Copynumber: 4.2 Consensus size: 30
58000311 AATCAGGGGA
*
58000321 CAGAATCAGAATCAG-AATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTAA-TAGAAT--CAGAAT
* *
58000352 CAGAATCAGGATCACGTAACAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
* *
58000383 CAGAATCAAAATCAG-AATTAGGTGAT-AGAAT
1 CAGAATCAGAATCAGTAA-TA-G-AATCAGAAT
* *
58000414 CAGAATTAGTATCAGGTAATAGAATCAGAAT
1 CAGAATCAGAATCA-GTAATAGAATCAGAAT
58000445 CAGAAT
1 CAGAAT
58000451 GTAAATGCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
29 2 0.03
30 4 0.05
31 60 0.76
32 8 0.10
33 5 0.06
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (30 bp):
CAGAATCAGAATCAGTAATAGAATCAGAAT
Found at i:58000605 original size:27 final size:26
Alignment explanation
Indices: 58000568--58000675 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
58000558 AGCATGGCTG
* *
58000568 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
58000594 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
58000621 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
58000648 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
58000675 C
1 C
58000676 TTAACAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.15
27 54 0.75
28 7 0.10
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:58000862 original size:22 final size:22
Alignment explanation
Indices: 58000834--58000898 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
58000824 GCAAATACGT
*
58000834 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
58000856 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
58000878 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
58000899 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:58001317 original size:27 final size:27
Alignment explanation
Indices: 58001287--58001371 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
58001277 GGGCAAAATG
* * *
58001287 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
58001314 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58001340 GATAATTCTACCCTATAAGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
58001368 GTAA
1 GTAA
58001372 CTTTGTAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:58001569 original size:27 final size:27
Alignment explanation
Indices: 58001412--58001588 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
58001402 TATAAATTAG
* ** *
58001412 GGGTACTTTGGTAA-TTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** ***
58001438 GGGTATTTCAGTAATTTTACAGGTCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * * *
58001465 GGGTATTTTAGTAAATTCACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
58001492 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCAA
58001518 GGTGTATTTTGGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTACAAACCAA
**
58001546 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
58001573 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
58001589 CTACCCTACA
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
26 15 0.12
27 110 0.85
28 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:58001576 original size:81 final size:81
Alignment explanation
Indices: 58001412--58001588 Score: 187
Period size: 81 Copynumber: 2.2 Consensus size: 81
58001402 TATAAATTAG
* * ***
58001412 GGGTACTTTGGTAA-TTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTAG
* *
58001476 TAAATTCACAAATCGA
66 TAAATTCACAAACCAA
* ** *
58001492 GGGTATTTTGGTAATTTTACAA-ACTAGGTGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAGACGAGG-GTATTTCAGTAATTTTACAAACCAAGGGTATTTTA
* ***
58001556 GTAATTTTTTAAACCAA
65 GTAAATTCACAAACCAA
*
58001573 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
58001589 CTACCCTACA
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 17 0.22
81 62 0.78
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTAG
TAAATTCACAAACCAA
Found at i:58003544 original size:6 final size:6
Alignment explanation
Indices: 58003535--58003688 Score: 111
Period size: 6 Copynumber: 25.0 Consensus size: 6
58003525 AATCAAGTGA
* * * *
58003535 CAGAAT CAGAAT TAGAAT CAGAAT TAG-GT GACAGAAT CAGAAT CAGTAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * *
58003584 CAGGTAA- CAAAAT CAGAAT TAGAAT TAGAAT CA-ATAT CAGGTAA- CAGAAT
1 CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGA-AT CA-G-AAT CAGAAT
* *
58003634 CAGAAT CAGAAT CAGAAT CAGAAT CAGTAT TAGGTAAT -AGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
58003683 CAGAAT
1 CAGAAT
58003689 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
5 9 0.08
6 95 0.80
7 9 0.08
8 5 0.04
9 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
CAGAAT
Found at i:58003545 original size:25 final size:25
Alignment explanation
Indices: 58003511--58003608 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
58003501 AATAAAAATG
*
58003511 AGAATTAGAATTAGAATCAAGTGAC
1 AGAATCAGAATTAGAATCAAGTGAC
58003536 AGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATTAGAATC---A--A-GTGAC
* * * *
58003567 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATTAGAATCAAGTGAC
*
58003592 AAAATCAGAATTAGAAT
1 AGAATCAGAATTAGAAT
58003609 TAGAATCAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
25 35 0.59
28 2 0.03
30 1 0.02
31 21 0.36
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAAGTGAC
Found at i:58003576 original size:37 final size:35
Alignment explanation
Indices: 58003535--58003653 Score: 96
Period size: 37 Copynumber: 3.6 Consensus size: 35
58003525 AATCAAGTGA
*
58003535 CAGAATCAGAATTAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATTAGAATCA-AA-TAGGTAACAGAAT
*
58003572 CAGAATCAG---T---ATC----AGGTAACAAAAT
1 CAGAATCAGAATTAGAATCAAATAGGTAACAGAAT
*
58003597 CAGAATTAGAATTAGAATCAATATCAGGTAACAGAAT
1 CAGAATCAGAATTAGAATCAA-AT-AGGTAACAGAAT
*
58003634 CAGAATCAGAATCAGAATCA
1 CAGAATCAGAATTAGAATCA
58003654 GAATCAGTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
25 18 0.28
28 1 0.02
31 6 0.09
34 1 0.02
37 38 0.59
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (35 bp):
CAGAATCAGAATTAGAATCAAATAGGTAACAGAAT
Found at i:58003615 original size:43 final size:43
Alignment explanation
Indices: 58003566--58003688 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 43
58003556 AATTAGGTGA
58003566 CAGAATCAGAATCAGTATCAGGTAAC---A--A-AATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
* * *
58003603 TAGAATTAGAATCAATATCAGGTAACAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
* *
58003646 CAGAATCAGAATCAGTATTAGGTAATAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
58003689 GTGAATGCAA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
37 23 0.32
40 1 0.01
42 1 0.01
43 47 0.65
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (43 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
Found at i:58003632 original size:31 final size:31
Alignment explanation
Indices: 58003511--58003654 Score: 134
Period size: 31 Copynumber: 4.6 Consensus size: 31
58003501 AATAAAAATG
* * *
58003511 AGAATTAGAATTAGAATCAAGTGACAGAATC
1 AGAATTAGAATCAGAATCAGGTAACAGAATC
* *
58003542 AGAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATTAGAATCAGAATCAGGTAACAGAATC
* * * *
58003573 AGAATCAGTATCAGGTAA-CA--AAATCAGAATT
1 AGAATTAGAATCA-G-AATCAGGTAA-CAGAATC
58003604 AGAATTAGAATCA-ATATCAGGTAACAGAATC
1 AGAATTAGAATCAGA-ATCAGGTAACAGAATC
*
58003635 AGAATCAGAATCAGAATCAG
1 AGAATTAGAATCAGAATCAG
58003655 AATCAGTATT
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 3 0.03
31 79 0.87
32 5 0.05
33 2 0.02
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAATTAGAATCAGAATCAGGTAACAGAATC
Found at i:58003634 original size:19 final size:19
Alignment explanation
Indices: 58003572--58003635 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
58003562 GTGACAGAAT
*
58003572 CAGAATCAGTATCAGGTAA
1 CAGAATCAATATCAGGTAA
* *
58003591 CAAAATCAGA-ATTA-G-AA
1 CAGAATCA-ATATCAGGTAA
*
58003608 TTAGAATCAATATCAGGTAA
1 -CAGAATCAATATCAGGTAA
58003628 CAGAATCA
1 CAGAATCA
58003636 GAATCAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 10
0.66 0.14 0.20
Matches are distributed among these distances:
17 3 0.09
18 10 0.30
19 18 0.55
20 2 0.06
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
CAGAATCAATATCAGGTAA
Found at i:58003660 original size:37 final size:37
Alignment explanation
Indices: 58003566--58003688 Score: 144
Period size: 37 Copynumber: 3.3 Consensus size: 37
58003556 AATTAGGTGA
* *
58003566 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
* *
58003603 TAGAATTAGAATCA-ATATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAGA-ATCAGGTAACAGAATCAGAAT
**
58003640 CAGAATCAGAATCAGAATCA-GTATTAGGTAAT-AGAAT
1 CAGAATCAGAATCAGAATCAGGTAACA-G-AATCAGAAT
58003677 CAGAATCAGAAT
1 CAGAATCAGAAT
58003689 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
36 4 0.05
37 66 0.89
38 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:58003847 original size:27 final size:26
Alignment explanation
Indices: 58003806--58003891 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
58003796 AACATGGCTG
* *
58003806 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAATAGATATTGTGACAGAGCCA
* *
58003832 CCAGATATAGTTATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTGTGACAGAGCCA
* *
58003859 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAATAGATA-TTGTGACAGAGCCA
*
58003886 CTAGAA
1 CCAGAA
58003892 ACAGATAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAATAGATATTGTGACAGAGCCA
Found at i:58003903 original size:27 final size:27
Alignment explanation
Indices: 58003806--58003911 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
58003796 AACATGGCTG
* * *
58003806 CCAGAACAGATAT-TGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* * *
58003832 CCAGATATAGTTAT-TGTGGCAGAGCCA
1 CCAGA-ACAGATATATGTGGCAAAGCCA
* * *
58003859 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
58003886 CTAGAAACAGATA-ATGTGGCAAAGCC
1 CCAG-AACAGATATATGTGGCAAAGCC
58003912 GCTTAATAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.18
27 48 0.72
28 7 0.10
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAAAGCCA
Found at i:58004108 original size:22 final size:22
Alignment explanation
Indices: 58004072--58004137 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
58004062 GCAAATACGT
58004072 TTGGCACACAA-CCATAATCAGA
1 TTGGCACA-AAGCCATAATCAGA
* *
58004094 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGA
* *
58004116 TTGGCGCAAAGCCGTAATCAGA
1 TTGGCACAAAGCCATAATCAGA
58004138 ATAATTGCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGA
Found at i:58004554 original size:27 final size:27
Alignment explanation
Indices: 58004524--58004607 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
58004514 GGGCAAAATG
* *
58004524 GTAATTTTACCCTACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
58004551 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
58004577 G-ATATTCTACCCTACAAGGGTATTTCA
1 GTA-ATTCTACCCTACAAGGGTATTTCA
58004604 GTAA
1 GTAA
58004608 CTTTGTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 22 0.46
27 24 0.50
28 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:58004675 original size:54 final size:54
Alignment explanation
Indices: 58004617--58004723 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
58004607 ACTTTGTAAA
* *
58004617 TCGAGGGTAAAAC-GATAATTCTATAAATTAGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTAAAACAG-TAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAAG
*** * * *
58004671 TCGAGGGTATTTCAGTAATTTTACAAACTAGGTGTATTTTGGTAATTTTACAA
1 TCGAGGGTAAAACAGTAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAA
58004724 ACCAAGGGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
54 43 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (54 bp):
TCGAGGGTAAAACAGTAATTCTACAAACTAGGGGTACTTTGGTAATTTTACAAG
Found at i:58004678 original size:27 final size:26
Alignment explanation
Indices: 58004648--58004771 Score: 131
Period size: 27 Copynumber: 4.6 Consensus size: 26
58004638 TATAAATTAG
* * *
58004648 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACAA
** *
58004675 GGGTATTTCAGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACAA
58004701 GGTGTATTTTGGTAATTTTACAAACCAA
1 GG-GTATTTTGGTAATTTTACAAA-CAA
**
58004729 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
58004756 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
58004772 CTACCCTATA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.05
27 76 0.90
28 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:58013135 original size:19 final size:19
Alignment explanation
Indices: 58013111--58013149 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58013101 ATTTACAAGC
58013111 TTAGGGG-AATAAATGTAAT
1 TTAGGGGCAA-AAATGTAAT
*
58013130 TTAGGGGCAAAATTGTAAT
1 TTAGGGGCAAAAATGTAAT
58013149 T
1 T
58013150 ATTCCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (19 bp):
TTAGGGGCAAAAATGTAAT
Found at i:58013496 original size:27 final size:27
Alignment explanation
Indices: 58013455--58013508 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58013445 TGTCATGTGA
* *
58013455 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
58013482 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
58013509 GGTTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:58013766 original size:81 final size:81
Alignment explanation
Indices: 58013631--58013791 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
58013621 TGTTGTAAAC
58013631 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
1 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
*
58013696 AGTCTTCAGAATAGAT
66 AGCCTTCAGAATAGAT
* *
58013712 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTG
1 TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
*
58013777 AGCCTTCGGAATAGA
66 AGCCTTCAGAATAGA
58013792 AACGATACGA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (81 bp):
TGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTCGAAAGTGAGGAATTTCCCAGTTG
AGCCTTCAGAATAGAT
Found at i:58013996 original size:49 final size:50
Alignment explanation
Indices: 58013815--58014011 Score: 209
Period size: 50 Copynumber: 3.9 Consensus size: 50
58013805 ATCTATTGTG
* *
58013815 AGGTCGCATGTGTAGTACTAATTGCAGGCTACTATGCGTATCC-GATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAA-TT
* * * * *** * **
58013866 CGATCACGTGTGTAGTTCTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
58013916 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
58013966 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTAAGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
58014012 GCCTTGTCTA
Statistics
Matches: 120, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
49 41 0.34
50 45 0.38
51 34 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:58019326 original size:26 final size:26
Alignment explanation
Indices: 58019286--58019337 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
58019276 TGTCATGTGA
* *
58019286 AATTGAATGGCAAATTATTGTTACAT
1 AATTGAATGGCAAATTACTATTACAT
**
58019312 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGGCAAATTACTATTACAT
58019338 GGGTTGTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AATTGAATGGCAAATTACTATTACAT
Found at i:58019648 original size:51 final size:49
Alignment explanation
Indices: 58019565--58019759 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
58019555 TCTATTGTGA
*
58019565 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * *** * **
58019615 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
58019665 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* * *
58019715 GGTCGCATGTGTAGTACTAAGTTCAGGCTACTATGCG-ACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
58019760 GCCTTGTCTA
Statistics
Matches: 119, Mismatches: 25, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
48 6 0.05
49 33 0.28
50 42 0.35
51 38 0.32
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:58022544 original size:25 final size:25
Alignment explanation
Indices: 58022516--58022585 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
58022506 CTCTTTTAAT
*
58022516 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
58022541 AACTGGGACAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58022566 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58022586 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58022818 original size:27 final size:27
Alignment explanation
Indices: 58022789--58022947 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
58022779 GGGCAAAATG
* * *
58022789 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
58022816 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58022843 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
58022870 GTAATTCTACCATACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
58022897 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
58022924 GTAATTCTACCCTACAAGGGTATT
1 GTAATTCTACCCTACAAGGGTATT
58022948 CAATATTTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:58022928 original size:81 final size:81
Alignment explanation
Indices: 58022789--58022947 Score: 246
Period size: 81 Copynumber: 2.0 Consensus size: 81
58022779 GGGCAAAATG
* * ** *
58022789 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
58022854 CTACAAGGGTATTTTA
66 CTACAAGGGTATTTTA
* * *
58022870 GTAATTCTACCATACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
58022935 CTACAAGGGTATT
66 CTACAAGGGTATT
58022948 CAATATTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCATACAAGGGTATCTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTTA
Found at i:58023043 original size:27 final size:27
Alignment explanation
Indices: 58023004--58023359 Score: 193
Period size: 27 Copynumber: 13.1 Consensus size: 27
58022994 GAGTACTTTG
* * *
58023004 GTAATTTTTACAAGTTGATGGTATTTTA
1 GTAA-TTTTACAAATTGAGGGTATTTCA
58023032 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * * *
58023059 GTAATTTTGCAAACTGAGGTTATTTCG
1 GTAATTTTACAAATTGAGGGTATTTCA
* ** **
58023086 GCAATTTTACAAA-CCAGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
** *** **
58023113 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAATTGAGGGTATTTCA
* **
58023140 GTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * **
58023167 ATAATTTCACAAATT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* **
58023194 GTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATTTTACAAATTGAGGGTATTTCA
* * * **
58023221 GTAATTTCAGAAA-TCAGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* * **
58023248 GTAATTTCACAAACT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* * **
58023275 GTAATTTTATAAACT-AGGGGTATTTTG
1 GTAATTTTACAAATTGA-GGGTATTTCA
* *
58023302 GTAATTTTACAAACT-AGAGGTATTTTA
1 GTAATTTTACAAATTGAG-GGTATTTCA
* *
58023329 GTAATTTTACAAATTGAGGGCATTTAA
1 GTAATTTTACAAATTGAGGGTATTTCA
58023356 GTAA
1 GTAA
58023360 GTTGGTAAAC
Statistics
Matches: 270, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.01
27 256 0.95
28 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATTGAGGGTATTTCA
Found at i:58023092 original size:54 final size:54
Alignment explanation
Indices: 58023023--58023341 Score: 286
Period size: 54 Copynumber: 5.9 Consensus size: 54
58023013 ACAAGTTGAT
* ** *
58023023 GGTATTTTAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACTGAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * * * * ** * *
58023077 GTTATTTCGGCAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * ** * *
58023131 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
* * *
58023185 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAA-TTT-CAGAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCA-AACT-AAG
* * ** ** *
58023239 GGTATTTTGGTAATTTCACAAA-CTAGGGGTATTTTGGTAATTTTATAAACTAGG
1 GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTCAGTAATTTTGCAAACTAAG
* * *
58023293 GGTATTTTGGTAATTTTACAAA-CTAGAGGTATTTTAGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAATCAAG-GGTATTTCAGTAATTTTGCAAA
58023342 TTGAGGGCAT
Statistics
Matches: 216, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.01
53 7 0.03
54 200 0.93
55 6 0.03
56 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTAAG
Found at i:58023108 original size:81 final size:82
Alignment explanation
Indices: 58023023--58023341 Score: 308
Period size: 81 Copynumber: 3.9 Consensus size: 82
58023013 ACAAGTTGAT
* *** * * *
58023023 GGTATTTTAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTGCAAACT-GAGGTTATTTCGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
* * *
58023087 CAATTTTACAAACCAGG
66 TAATTTCACAAACTAGG
** ** *
58023104 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-AAGTCA-AGGGTATTTCA
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACT-AGAGGGTATTTCA
* *
58023167 ATAATTTCACAAATTAGG
65 GTAATTTCACAAACTAGG
** * * **
58023185 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTCAGAAA-TCAG-GGGTATTTTG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACT-AGAGGGTATTTCA
58023248 GTAATTTCACAAACTAGG
65 GTAATTTCACAAACTAGG
* * * ** *
58023266 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATTTTAG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
*
58023330 TAATTTTACAAA
66 TAATTTCACAAA
58023342 TTGAGGGCAT
Statistics
Matches: 192, Mismatches: 40, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
80 3 0.02
81 186 0.97
82 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (82 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGAGGGTATTTCAG
TAATTTCACAAACTAGG
Found at i:58029819 original size:43 final size:43
Alignment explanation
Indices: 58029764--58029849 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
58029754 ATATCGTACA
*
58029764 ATGCCAACGTCCTAGAC-GTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCTAGACAG-GGTCTTAC-TCGTAAACACATATCG
58029807 ATGCC-ACTGTCCTAGACAGGGTCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCTAGACAGGGTCTTACTCGTAAACACATATCG
58029850 GAATCACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACAGGGTCTTACTCGTAAACACATATCG
Found at i:58033183 original size:107 final size:107
Alignment explanation
Indices: 58032997--58033212 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
58032987 ATAGTGCTAT
*
58032997 TGATAATGTAGTATTAGGGCTACAAAACTGGGACCGTAGCTAAATTGTGATTGCGTGAAAATAAC
1 TGATAATGTAGTATTAGGGCTACAAAACTGGGACCGTAGCTAAATTGTGATTGCGCGAAAATAAC
*
58033062 TCTGAAACTCTATCTGTTCATAAGACATTCGGTAATAAATAG
66 TCTGAAACTCTATCTGTTCATAAGACATTCGGTAATAAACAG
*
58033104 TGATAATGTAGTATTAGGGCTACAAAATTGGGACCGTAGCTAAATTGTGATTGCGCGAAAATAAC
1 TGATAATGTAGTATTAGGGCTACAAAACTGGGACCGTAGCTAAATTGTGATTGCGCGAAAATAAC
58033169 TCTGAAACTCTATCTGTTCATAAGACATTCGGTAATAAACAG
66 TCTGAAACTCTATCTGTTCATAAGACATTCGGTAATAAACAG
58033211 TG
1 TG
58033213 GAACCAGTAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (107 bp):
TGATAATGTAGTATTAGGGCTACAAAACTGGGACCGTAGCTAAATTGTGATTGCGCGAAAATAAC
TCTGAAACTCTATCTGTTCATAAGACATTCGGTAATAAACAG
Found at i:58042087 original size:45 final size:45
Alignment explanation
Indices: 58042027--58042189 Score: 174
Period size: 45 Copynumber: 3.7 Consensus size: 45
58042017 TACCTCATAA
**
58042027 CGATGCCATTGTCCCAGACAGGGTCTTACACGTAACCACATATAT
1 CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
* * *
58042072 CGATGCCAACATCCCAGAC-GCGGTCTAACACG-AATCA-A-ATA-
1 CGATGCCAACGTCCCAGACAG-GGTCTTACACGTAACCACATATAT
* * * * *
58042113 CGATGACGATGTCCTAGACATGGTCTTACACGTAACCACATATAT
1 CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
* *
58042158 CGATGCCAACGTCCCAGACATGGTCTCACACG
1 CGATGCCAACGTCCCAGACAGGGTCTTACACG
58042190 AAAAAACATA
Statistics
Matches: 94, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
41 24 0.26
42 7 0.07
43 2 0.02
44 8 0.09
45 53 0.56
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (45 bp):
CGATGCCAACGTCCCAGACAGGGTCTTACACGTAACCACATATAT
Found at i:58043864 original size:16 final size:15
Alignment explanation
Indices: 58043843--58043886 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
58043833 TTTTAAAGGT
*
58043843 TAATTAAGTAGTATGA
1 TAATTAAGTA-AATGA
*
58043859 TAATTAACGTAAATGT
1 TAATTAA-GTAAATGA
58043875 TAATTAAGTAAA
1 TAATTAAGTAAA
58043887 AGATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 17 0.68
17 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (15 bp):
TAATTAAGTAAATGA
Found at i:58047563 original size:20 final size:20
Alignment explanation
Indices: 58047538--58047603 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
58047528 TGCTCCTGTT
*
58047538 TGTGCCCTTGATTGCACTTA
1 TGTGCCCCTGATTGCACTTA
* * *
58047558 TGTGCCCCTGTTTGTACTTC
1 TGTGCCCCTGATTGCACTTA
* * *
58047578 GGTACCCCTGAATGCACTTA
1 TGTGCCCCTGATTGCACTTA
58047598 TGTGCC
1 TGTGCC
58047604 TCTATTTATA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTGCCCCTGATTGCACTTA
Found at i:58047629 original size:40 final size:40
Alignment explanation
Indices: 58047550--58047630 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
58047540 TGCCCTTGAT
* * * *
58047550 TGCACTTATGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
1 TGCACTTATGTGCCCCTATTTATACTTCGATAACCCTGAA
* *
58047590 TGCACTTATGTGCCTCTATTTATAC-TCTGATAACTCTGAA
1 TGCACTTATGTGCCCCTATTTATACTTC-GATAACCCTGAA
58047630 T
1 T
58047631 CAAATAGAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (40 bp):
TGCACTTATGTGCCCCTATTTATACTTCGATAACCCTGAA
Found at i:58050194 original size:29 final size:29
Alignment explanation
Indices: 58050152--58050208 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
58050142 GAATTTTTAA
58050152 TTGCTTATGACTTACTAACCTTCAGAAGT
1 TTGCTTATGACTTACTAACCTTCAGAAGT
58050181 TTGCTTATGACTTACTAACCTTCAGAAG
1 TTGCTTATGACTTACTAACCTTCAGAAG
58050209 CTTACTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (29 bp):
TTGCTTATGACTTACTAACCTTCAGAAGT
Found at i:58055388 original size:41 final size:41
Alignment explanation
Indices: 58055272--58055414 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 41
58055262 TTAATGACAT
* * * *
58055272 TCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAG
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
* *
58055313 TCAGGCTTT-ATGCCTAGCAGG-CTTATTGCAGGTGTATAAAA
1 TCAGGCTTTGA-GCCTAGCAGGCCTT-GTGCTGGTGTATAAAA
* ** * * *
58055354 TTAGGCTTTGAGTTTAGCAGGCCTTGTGCTGGTGTGTGATA
1 TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
*
58055395 -CAGGCTTAG-GCCTAGCAGGC
1 TCAGGCTTTGAGCCTAGCAGGC
58055415 TTTATGCCAG
Statistics
Matches: 80, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
39 9 0.11
40 11 0.14
41 56 0.70
42 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (41 bp):
TCAGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGTATAAAA
Found at i:58067898 original size:93 final size:93
Alignment explanation
Indices: 58067784--58067956 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
58067774 CGCCCATAAG
* * *
58067784 TGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATACATAAGTGAACTCGGACTCAACTCA
58067849 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
58067877 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATACATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATACATAAGTGAACTCGGACTCAACTCA
* *
58067942 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
58067957 CAAATATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATACATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:58067952 original size:46 final size:46
Alignment explanation
Indices: 58067778--58067952 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
58067768 GTAACCCGCC
* * *
58067778 CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATA
* *
58067824 CATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TA
*** *
58067870 CATCTCTTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATA
1 CAT-AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATA
* *
58067917 CATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58067953 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 66 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATA
Found at i:58072264 original size:70 final size:70
Alignment explanation
Indices: 58072186--58072323 Score: 276
Period size: 70 Copynumber: 2.0 Consensus size: 70
58072176 ATACGATGAA
58072186 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
1 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
58072251 GTGAT
66 GTGAT
58072256 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
1 AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
58072321 GTG
66 GTG
58072324 CGATTTAAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (70 bp):
AAATCAATAGTATTTCGCACTATATGTGCGATTTAAACTAGCTTTGGCTATGTGAGGCACTAAGT
GTGAT
Found at i:58072317 original size:40 final size:40
Alignment explanation
Indices: 58072272--58072367 Score: 158
Period size: 40 Copynumber: 2.4 Consensus size: 40
58072262 ATAGTATTTC
* *
58072272 GCACTATA-TGTGCGATTTAAACTAGCTTTGGCTATGTGAG
1 GCACTA-AGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
58072312 GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
1 GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
58072352 GCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGAT
58072368 ATCAACTTAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 1 0.02
40 52 0.98
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATCTGAG
Found at i:58074627 original size:29 final size:29
Alignment explanation
Indices: 58074585--58074644 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
58074575 ACACTTAGCA
58074585 ATTCACAATTCATCCATTATTCCTATTCT
1 ATTCACAATTCATCCATTATTCCTATTCT
*
58074614 ATTCACAATTCATCCATTATTTCTATTCT
1 ATTCACAATTCATCCATTATTCCTATTCT
58074643 AT
1 AT
58074645 CTCATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTCACAATTCATCCATTATTCCTATTCT
Found at i:58092570 original size:23 final size:23
Alignment explanation
Indices: 58092544--58092616 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
58092534 AATATCGAGT
58092544 ACATGATTAATTTCATACATTAA
1 ACATGATTAATTTCATACATTAA
58092567 ACAT--TT-ATTT-A-ACAATATCAA
1 ACATGATTAATTTCATAC-AT-T-AA
58092588 GTACATGATTAATTTCATACATTAA
1 --ACATGATTAATTTCATACATTAA
58092613 ACAT
1 ACAT
58092617 TTATGCAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 20
0.67 0.00 0.33
Matches are distributed among these distances:
18 2 0.05
19 3 0.08
20 5 0.12
21 4 0.10
23 12 0.30
25 4 0.10
26 5 0.12
27 3 0.08
28 2 0.05
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.38
Consensus pattern (23 bp):
ACATGATTAATTTCATACATTAA
Found at i:58092575 original size:46 final size:46
Alignment explanation
Indices: 58092522--58092620 Score: 189
Period size: 46 Copynumber: 2.2 Consensus size: 46
58092512 CGGGACTTAT
*
58092522 CATTTATTTAACAATATCGAGTACATGATTAATTTCATACATTAAA
1 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
58092568 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
1 CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
58092614 CATTTAT
1 CATTTAT
58092621 GCAATTCACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.40
Consensus pattern (46 bp):
CATTTATTTAACAATATCAAGTACATGATTAATTTCATACATTAAA
Done.