Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 258 of 295
Found at i:88861588 original size:55 final size:55
Alignment explanation
Indices: 88861504--88861626 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 55
88861494 GCACTTAATA
*
88861504 TTTAAAGTTAGTGTTGTACACGGGCAGGCCACAC-AGGCATGTGTCATGGCTGTGT
1 TTTAAAGTTAGTGGTGTACACGGGCAGGCCACACGA-GCATGTGTCATGGCTGTGT
* * *
88861559 TTTAAAGTTAGTGGTGTACATGGGTAGGCCACACGAGCGTGTGTCATGGCTGTGT
1 TTTAAAGTTAGTGGTGTACACGGGCAGGCCACACGAGCATGTGTCATGGCTGTGT
*
88861614 TTTAAAGTCAGTG
1 TTTAAAGTTAGTG
88861627 TTGCATACGA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 61 0.98
56 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (55 bp):
TTTAAAGTTAGTGGTGTACACGGGCAGGCCACACGAGCATGTGTCATGGCTGTGT
Found at i:88867964 original size:47 final size:46
Alignment explanation
Indices: 88867896--88868109 Score: 177
Period size: 47 Copynumber: 4.6 Consensus size: 46
88867886 ACTTGTGTGT
* *
88867896 CAGTGTAAGACATGTTTGGGACATGCATCAGCCAAAATATGATAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAATATGATAGC
* * *
88867942 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGA-ATGAGCA-C
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CA-AAATATGA-TAGC
* ** **
88867991 CAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGACGATGATAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCC-AAAATATGATAGC
* * * * *
88868038 CAATGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGT-TG-T-GC
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCAA-AATATGATAGC
* *
88868082 TAGTGTAAGACATGTATGGGACATGCAT
1 CAGTGTAAGACATGTCTGGGACATGCAT
88868110 TAGTACGTAT
Statistics
Matches: 133, Mismatches: 26, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 25 0.19
45 1 0.01
46 13 0.10
47 55 0.41
48 20 0.15
49 16 0.12
50 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCAAAATATGATAGC
Found at i:88868059 original size:95 final size:94
Alignment explanation
Indices: 88867896--88868069 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 94
88867886 ACTTGTGTGT
* * * *
88867896 CAGTGTAAGACATGTTTGGGACATGCATCAGCCAAAATATGATAGCCAGTGTAAGACCATGTCTG
1 CAGTGTAAGACATGTCTAGGACATGCATCAGCCAAAAGATGATAGCCAATGTAAGACCATGTCTG
*
88867961 GGACATGGCATCGGCGTAGAGAATGAGCAC
66 GGACA-CGCATCGGCGTAGAGAATGAGCAC
* ** * *
88867991 CAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGACGATGATAGCCAATGTAAGA-CGTGTCT
1 CAGTGTAAGACATGTCTAGGACATGCATCAGCC-AAAAGATGATAGCCAATGTAAGACCATGTCT
88868055 GGGACACGCATCGGC
65 GGGACACGCATCGGC
88868070 TAAGAGTTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
94 8 0.12
95 42 0.62
96 18 0.26
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (94 bp):
CAGTGTAAGACATGTCTAGGACATGCATCAGCCAAAAGATGATAGCCAATGTAAGACCATGTCTG
GGACACGCATCGGCGTAGAGAATGAGCAC
Found at i:88873235 original size:40 final size:40
Alignment explanation
Indices: 88873176--88873322 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
88873166 GGGTTCGACT
** * * *
88873176 AATGCCTTTAGGACATAGCCCGGTTATAGTAACTCGTACC
1 AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
*
88873216 AATGCCTTCGGGACTTAGCCCGGATT-TGGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACA
* *
88873256 AATGCCTTCGGGACTTAGCCCAG-AATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACA
88873296 AATGCCTTCGGGACTTAGCCCGGTTAT
1 AATGCCTTCGGGACTTAGCCCGGTTAT
88873323 CATTCGAATA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 89 0.97
41 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
Found at i:88878212 original size:12 final size:12
Alignment explanation
Indices: 88878197--88878221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88878187 GGTAGCATTT
88878197 TGGCCTTGTAAA
1 TGGCCTTGTAAA
88878209 TGGCCTTGTAAA
1 TGGCCTTGTAAA
88878221 T
1 T
88878222 TGGGCGTGTG
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:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGCCTTGTAAA
Found at i:88879581 original size:43 final size:43
Alignment explanation
Indices: 88879486--88879638 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
88879476 ATTGAGATGT
* * * * * *
88879486 GATTACATGTAAGACCATCTTTAGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTACTGA
*
88879529 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTACT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TACTGA
* * * * *
88879572 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTACTGA
** *
88879614 GA-TAAATGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
88879639 TATAGCATTG
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 20 0.22
42 2 0.02
43 66 0.73
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTACTGA
Found at i:88881994 original size:6 final size:6
Alignment explanation
Indices: 88881976--88882069 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
88881966 AAGAAACATT
*
88881976 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
88882025 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
88882070 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:88882026 original size:37 final size:37
Alignment explanation
Indices: 88881985--88882069 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
88881975 TATCAGAACT
*
88881985 AGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
88882022 AGAATCAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
*
88882059 AAAATCAGAAT
1 AGAATCAGAAT
88882070 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:88882709 original size:81 final size:81
Alignment explanation
Indices: 88882598--88882907 Score: 444
Period size: 81 Copynumber: 3.8 Consensus size: 81
88882588 ATTTTTCCCC
* *
88882598 ACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCCACAGGGGTAT
1 ACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTAT
*
88882662 TTCGGTATTTCTATCCT
65 TTCGGTATTTCTACCCT
** * *
88882679 AC-AGGGTTATTTTAGTAATTCTACCCTACAGGGGTATTTTAGTATTTCTACCCTATAGGGGTAT
1 ACAAGGG-TATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTAT
88882743 TTCGGTATTTCTACCCT
65 TTCGGTATTTCTACCCT
* *
88882760 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAATAATTCTACCCTATAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
*
88882825 TCGGTGTTTCTACCCT
66 TCGGTATTTCTACCCT
* * * * * *
88882841 ACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTATTTTTACCTTATAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
88882906 TC
66 TC
88882908 AGTAATTTTG
Statistics
Matches: 207, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
80 6 0.03
81 197 0.95
82 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATT
TCGGTATTTCTACCCT
Found at i:88882880 original size:27 final size:27
Alignment explanation
Indices: 88882598--88882907 Score: 336
Period size: 27 Copynumber: 11.5 Consensus size: 27
88882588 ATTTTTCCCC
*
88882598 ACAAGGGTATCTT-GGTAATTCTACCCT
1 ACAAGGGTAT-TTCGGTATTTCTACCCT
* * * *
88882625 ACAGGGGTATTTCAGTAATTCTACCCC
1 ACAAGGGTATTTCGGTATTTCTACCCT
* *
88882652 ACAGGGGTATTTCGGTATTTCTATCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
** *
88882679 AC-AGGGTTATTTTAGTAATTCTACCCT
1 ACAAGGG-TATTTCGGTATTTCTACCCT
* **
88882706 ACAGGGGTATTTTAGTATTTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
* *
88882733 ATAGGGGTATTTCGGTATTTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
*
88882760 ACAAGGGTATTTCGGTAATTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
* *** *
88882787 ACAGGGGTATTTTAATAATTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
* * *
88882814 ATAGGGGTATTTCGGTGTTTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
88882841 ACAAGGGTATTTCGGTATTTCTACCCT
1 ACAAGGGTATTTCGGTATTTCTACCCT
* * *
88882868 ACAAGGGTATTTCAGTATTTTTACCTT
1 ACAAGGGTATTTCGGTATTTCTACCCT
*
88882895 ATAAGGGTATTTC
1 ACAAGGGTATTTC
88882908 AGTAATTTTG
Statistics
Matches: 243, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 5 0.02
27 235 0.97
28 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
ACAAGGGTATTTCGGTATTTCTACCCT
Found at i:88885353 original size:41 final size:41
Alignment explanation
Indices: 88885270--88885385 Score: 103
Period size: 41 Copynumber: 2.8 Consensus size: 41
88885260 ATAGTGATAT
*
88885270 TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGAATTAAA
1 TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGAATAAAA
* *
88885311 TCGGGCTTT-ATGCCTAGCAGG-CTTATTGC-GGATGTATAAAA
1 TCGGGCTTTGA-GCCTAGCAGGCCTT-GTGCTGG-TGAATAAAA
** * ** *
88885352 TCAAGCCTTGAGTTTAGCAGGCCTTGTGCCGGTG
1 TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTG
88885386 TAAAATACAG
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
40 6 0.10
41 48 0.80
42 6 0.10
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAGGCCTTGTGCTGGTGAATAAAA
Found at i:88897876 original size:46 final size:46
Alignment explanation
Indices: 88897809--88897981 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
88897799 TGTAACCCGC
*
88897809 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
88897855 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
88897905 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
88897946 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
88897982 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 2 0.02
43 2 0.02
44 6 0.06
45 20 0.19
46 54 0.51
47 6 0.06
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:88897980 original size:91 final size:93
Alignment explanation
Indices: 88897816--88897985 Score: 299
Period size: 91 Copynumber: 1.8 Consensus size: 93
88897806 CGCCCATAAG
* *
88897816 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88897881 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88897909 CGAACTC-GACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88897972 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88897986 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 49 0.66
92 18 0.24
93 7 0.09
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88905502 original size:93 final size:93
Alignment explanation
Indices: 88905390--88905561 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88905380 CGCCCATAAG
* *
88905390 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88905455 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
88905483 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88905548 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88905562 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88905558 original size:46 final size:46
Alignment explanation
Indices: 88905383--88905558 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88905373 TGTAACCCGC
* * *
88905383 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88905429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
88905479 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88905522 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88905559 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88919867 original size:47 final size:45
Alignment explanation
Indices: 88919798--88919889 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 45
88919788 CGTAACTAGT
* *
88919798 CTCCAAAATTTATAAAATAGAAGCAAACATACACATACACTAAGCTA
1 CTCCAAAATCTATAAAACAGAAGCAAACATACAC--ACACTAAGCTA
88919845 CTCCAAAATCTATAAAACAGAAGCAAACATACACACACTAAGCTA
1 CTCCAAAATCTATAAAACAGAAGCAAACATACACACACTAAGCTA
88919890 TCACAGCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 11 0.26
47 32 0.74
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.18
Consensus pattern (45 bp):
CTCCAAAATCTATAAAACAGAAGCAAACATACACACACTAAGCTA
Found at i:88920683 original size:56 final size:56
Alignment explanation
Indices: 88920456--88920659 Score: 318
Period size: 56 Copynumber: 3.6 Consensus size: 56
88920446 AGATAGGGTT
* * * * * *
88920456 TTACTCGTAAACACATATTGAAATCACCTATTGATGCCAACGTATTAAACGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
*
88920512 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAATGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
*
88920568 TTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTC
1 TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
* *
88920624 TTACTCACACACACATATCGGAATCACATATTGATG
1 TTACTCGCACACACATATCGGAATCACATATCGATG
88920660 ACAATGTCGC
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 136 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGTC
Found at i:88920702 original size:112 final size:112
Alignment explanation
Indices: 88920477--88920683 Score: 315
Period size: 112 Copynumber: 1.8 Consensus size: 112
88920467 CACATATTGA
* * *
88920477 AATCACCTATTGATGCCAACGTATTAAACGTGGTCTTACTCGCACACACATATCGGAATCACATA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCGGAATCACATA
* ** *
88920542 TCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACACATATCAG
66 TCGATGACAACGTAGCAAACGTGGTCTTACTCGCACACACATATCAG
88920589 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCGGAATCACATA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCGGAATCACATA
* * * *
88920654 TTGATGACAATGTCGCAGACGTGGTCTTAC
66 TCGATGACAACGTAGCAAACGTGGTCTTAC
88920684 ATGTAATCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 84 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (112 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACACATATCGGAATCACATA
TCGATGACAACGTAGCAAACGTGGTCTTACTCGCACACACATATCAG
Found at i:88928503 original size:46 final size:46
Alignment explanation
Indices: 88928453--88928628 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88928443 TGGTTGAGCA
88928453 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88928499 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88928544 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88928592 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88928629 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88928609 original size:93 final size:93
Alignment explanation
Indices: 88928450--88928621 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88928440 GGATGGTTGA
* *
88928450 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88928515 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88928543 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88928608 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88928622 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88936064 original size:46 final size:46
Alignment explanation
Indices: 88936014--88936189 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
88936004 TGGTTGAGCA
88936014 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88936060 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
88936105 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
88936153 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88936190 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:88936170 original size:93 final size:93
Alignment explanation
Indices: 88936011--88936182 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
88936001 GGATGGTTGA
* *
88936011 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88936076 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
88936104 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
88936169 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
88936183 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88939149 original size:30 final size:30
Alignment explanation
Indices: 88939093--88939150 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
88939083 CAAACGTCCG
* *
88939093 TGTGTGATAGCTCCAGTTCCTACACGCCTA
1 TGTGTGATAGCTCCAGTCCCCACACGCCTA
* *
88939123 TGTGTGATAGCTCTAGTCCCCGCACGCC
1 TGTGTGATAGCTCCAGTCCCCACACGCC
88939151 CGTGTCACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (30 bp):
TGTGTGATAGCTCCAGTCCCCACACGCCTA
Found at i:88948930 original size:40 final size:40
Alignment explanation
Indices: 88948873--88949064 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
88948863 CGGATGATAA
*
88948873 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
88948913 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
88948953 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * * *
88948993 CCGAGATAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* *
88949033 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88949065 AGCTATACCC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:88956829 original size:40 final size:40
Alignment explanation
Indices: 88956771--88956962 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
88956761 CGAATGATAA
88956771 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* * *
88956811 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
*
88956851 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
* *
88956891 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AAT
* * *
88956931 CCGGGCTATGTCTCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88956963 AGCTATACCC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
Found at i:88962334 original size:49 final size:49
Alignment explanation
Indices: 88962278--88962374 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
88962268 AAGTTAGTAG
88962278 ATATTTTTGGATGATTCATCCATGGAAAATTAGAAAAAGACTAAGGATA
1 ATATTTTTGGATGATTCATCCATGGAAAATTAGAAAAAGACTAAGGATA
88962327 ATATTTTTGGATGATTCATCCATGGAAAATTAGAAAAAGACTAAGGAT
1 ATATTTTTGGATGATTCATCCATGGAAAATTAGAAAAAGACTAAGGAT
88962375 TAAATTGGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (49 bp):
ATATTTTTGGATGATTCATCCATGGAAAATTAGAAAAAGACTAAGGATA
Found at i:88967331 original size:40 final size:40
Alignment explanation
Indices: 88967260--88967335 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
88967250 TAGTGCCTCA
* *
88967260 TATAGCCGAAGCTATTCCAATTCGCATACTAAGTGCTATT
1 TATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTATT
**
88967300 TATAGCCGAAGCTATTTTGAA-ACGCACACTAAGTGC
1 TATAGCCGAAGCTA-TTCCAATACGCACACTAAGTGC
88967336 CAAACATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAATACGCACACTAAGTGCTATT
Found at i:88969269 original size:162 final size:162
Alignment explanation
Indices: 88969002--88969327 Score: 589
Period size: 162 Copynumber: 2.0 Consensus size: 162
88968992 GTCCTCTGGA
88969002 AACAGAAAGGATTAAAGGAAGCTACCTAGGAGCCTGAGATACAATGAGGAAGAAATACCCTAACC
1 AACAGAAAGGATTAAAGGAAGCTACCTAGGAGCCTGAGATACAATGAGGAAGAAATACCCTAACC
* *
88969067 TCTTCTCTAGTAAGAATTTTCGAGGATGAAAATTTTAATGGGGGAGAGTTGTAACAGCCCAATTC
66 TCTTCTCTAGTAAGAATTTTCGAGGACGAAAATTTTAATGGGGGAGAGTTGTAACAACCCAATTC
88969132 CAGTGAGATCGGAACAGTTGTTTTGGGACCAC
131 CAGTGAGATCGGAACAGTTGTTTTGGGACCAC
* *
88969164 AACAGAAAGGATTAAAGGAAGCTACCTAGGAGCCTGAGATACCATGAGGAAGCAATACCCTAACC
1 AACAGAAAGGATTAAAGGAAGCTACCTAGGAGCCTGAGATACAATGAGGAAGAAATACCCTAACC
* *
88969229 TCTTCTCTGGTAAGAATTTTCGAGGACGAAAATTTTAATGGGTGAGAGTTGTAACAACCCAATTC
66 TCTTCTCTAGTAAGAATTTTCGAGGACGAAAATTTTAATGGGGGAGAGTTGTAACAACCCAATTC
*
88969294 CAGTGAGGTCGGAACAGTTGTTTTGGGACCAC
131 CAGTGAGATCGGAACAGTTGTTTTGGGACCAC
88969326 AA
1 AA
88969328 ATTCGAGTTA
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 157 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (162 bp):
AACAGAAAGGATTAAAGGAAGCTACCTAGGAGCCTGAGATACAATGAGGAAGAAATACCCTAACC
TCTTCTCTAGTAAGAATTTTCGAGGACGAAAATTTTAATGGGGGAGAGTTGTAACAACCCAATTC
CAGTGAGATCGGAACAGTTGTTTTGGGACCAC
Found at i:88973335 original size:42 final size:42
Alignment explanation
Indices: 88973276--88973362 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
88973266 AATCGGGTAA
88973276 CTTGCTTTAAGGAGATTAGATAAGATGATTTGAAAATTTTAT
1 CTTGCTTTAAGGAGATTAGATAAGATGATTTGAAAATTTTAT
88973318 CTTGCTTTAAGGAGATTAGATAAGATGATTTGAAAATTTTAT
1 CTTGCTTTAAGGAGATTAGATAAGATGATTTGAAAATTTTAT
88973360 CTT
1 CTT
88973363 ATAGATCCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.41
Consensus pattern (42 bp):
CTTGCTTTAAGGAGATTAGATAAGATGATTTGAAAATTTTAT
Found at i:88980610 original size:49 final size:49
Alignment explanation
Indices: 88980444--88980681 Score: 296
Period size: 49 Copynumber: 4.8 Consensus size: 49
88980434 TGAGGTCGCA
* * * * *
88980444 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
88980495 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
88980545 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCTGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
88980594 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
88980643 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
88980682 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 87 0.53
50 43 0.26
51 33 0.20
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:88980623 original size:99 final size:100
Alignment explanation
Indices: 88980437--88980668 Score: 306
Period size: 99 Copynumber: 2.3 Consensus size: 100
88980427 TCTATTGTGA
* **
88980437 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAG
* **
88980502 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
88980537 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCTGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTA
*
88980600 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
88980636 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
88980669 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 29 0.25
99 45 0.39
100 1 0.01
101 39 0.34
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:88984523 original size:22 final size:20
Alignment explanation
Indices: 88984478--88984517 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
88984468 TCGAAATAGA
*
88984478 ATAAAAATAATTCAAAAGTG
1 ATAAAAATAATTCAAAAATG
88984498 ATAACAAATGAATTCAAAAA
1 ATAA-AAAT-AATTCAAAAA
88984518 ATATAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (20 bp):
ATAAAAATAATTCAAAAATG
Found at i:88984691 original size:15 final size:15
Alignment explanation
Indices: 88984673--88984720 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
88984663 TGAAATGATA
88984673 TAAAATAAAACAATT
1 TAAAATAAAACAATT
88984688 TAAAAT-AAAC-A-T
1 TAAAATAAAACAATT
*
88984700 T-ATATAAAACAATT
1 TAAAATAAAACAATT
88984714 TAAAATA
1 TAAAATA
88984721 CTGTGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 3 0.11
12 6 0.22
13 2 0.07
14 6 0.22
15 10 0.37
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAATAAAACAATT
Found at i:88984877 original size:3 final size:3
Alignment explanation
Indices: 88984871--88984997 Score: 52
Period size: 3 Copynumber: 43.3 Consensus size: 3
88984861 AACACAAATG
* *
88984871 ATA ATA ATCA ATA TATC A-A AT- ATA ATA AT- ATA ATA GTA ATA ATA
1 ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
88984915 ATA ATG TTG A-A ATA ATTA ATT TTA ATA AT- ATA ATA ATA ATG GTA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
88984959 ATA AT- ACA ATA ATA AGA TTGA A-A ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
88984998 ATTAATAAAA
Statistics
Matches: 89, Mismatches: 24, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
2 11 0.12
3 69 0.78
4 9 0.10
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:88986910 original size:44 final size:44
Alignment explanation
Indices: 88986862--88987459 Score: 225
Period size: 44 Copynumber: 13.5 Consensus size: 44
88986852 CAGTCTATTT
* *
88986862 TCTTGCTACCTTAGGAAGATAAGACTACAATCTTCAATATGCTC
1 TCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
* * * ***** **
88986906 TCTTGCTACCCCAGGGAGATAAGGCTGGTGGCTAAAATCTGCTC
1 TCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
* * * * * * *
88986950 CCTTGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTACTC
1 TCTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATCTGCTC
* * * * * * *
88986995 TGC-TACTGCTTAAGG-AGATAAAATCTTCAATCTTCAGTCTGCT-
1 T-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATCTGCTC
*
88987038 TCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTC
1 T-CTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
** **** **
88987083 TCTTGCTACCTCA-GAGAGATAAGGTTAGTGGCTAAAATCTGCT-
1 TCTTGCTACCTCAGGA-AGATAAGACTACAATCTTCAATCTGCTC
* * * * * * * **
88987126 TCCCTGCTACATCGGGAAGATATGATTTGCCATCTTCGGTCTGCTC
1 T-CTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATCTGCTC
* * * * * *
88987172 -CACTACT-CCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCT-
1 TC-TTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATCTGCTC
* * *
88987215 TCCTTGCTACCTCAAGAAAATAAGACTACAATCTTCAACCTGCTC
1 T-CTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
* **** **
88987260 TCTTGCTACCTCA-GAGAGATAAGGCTAGTGGCTAAAATCTGCTC
1 TCTTGCTACCTCAGGA-AGATAAGACTACAATCTTCAATCTGCTC
* * * * * * * *
88987304 CCCTG-TAACATCAGGAAGATAAAATTCACCATCTTCGATCTGTTC
1 TCTTGCT-ACCTCAGGAAGATAAGACT-ACAATCTTCAATCTGCTC
* * * * * * * *
88987349 -CACTACTA-CTTAGGGAGATAAAATCTATAATCGTCAGTCTGCT-
1 TC-TTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAATCTGCTC
* * *
88987392 TCCTTGCTACCTCAGGAAGATAAGACTACAATTTTCAACCTACTC
1 T-CTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
*
88987437 TCTTGTTACCTCA-GAGAGATAAG
1 TCTTGCTACCTCAGGA-AGATAAG
88987460 GCTGGTAGCT
Statistics
Matches: 390, Mismatches: 137, Indels: 54
0.67 0.24 0.09
Matches are distributed among these distances:
43 10 0.03
44 292 0.75
45 86 0.22
46 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
TCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAATCTGCTC
Found at i:88987012 original size:177 final size:177
Alignment explanation
Indices: 88986687--88987505 Score: 994
Period size: 177 Copynumber: 4.6 Consensus size: 177
88986677 GTTTTCTCTT
* * * * * * * * * *
88986687 TTGCTACCTCAAGAAAATGAGACTACAATCTCCAGCCTACTTTCTTGCTACCTTAGGGAAATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * ** ** ** ** * * *
88986752 ACTAATGGCTAAAATCTAATCCCCTGCTACCCCGATAAGATAAGATTCACCATTTTCGAACTGCC
66 GCTAGTGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATCTTCGATCTGCT
* * * * * ** *
88986817 CCATTGCTACTCAAGGAGATGAGATCTTCAATCTTCAGTCTATTTTC
131 CCACTACTACTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
* ** * *
88986864 TTGCTACCTTAGGAAGATAAGACTACAATCTTCAATATGCTCTCTTGCTACCCCAGGGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * * *
88986929 GCTGGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATTTGCCATCTTCGATCTACT
66 GCTAGTGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATCTTCGATCTGCT
** *
88986994 CTGCTACTGCTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
131 CCACTACTACTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
88987041 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * * *
88987106 GTTAGTGGCTAAAATCTGCTTCCCTGCTACATCGGGAAGATATGATTTGCCATCTTCGGTCTGCT
66 GCTAGTGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATCTTCGATCTGCT
* * * * *
88987171 CCACTACTCCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCC
131 CCACTACTACTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
* *
88987218 TTGCTACCTCAAGAAAATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * ** *
88987283 GCTAGTGGCTAAAATCTGCTCCCCTG-TAACATCAGGAAGATAAAATTCACCATCTTCGATCTGT
66 GCTAGTGGCTAAAATCTGCTCCCCTGCT-ACATCGGGAAGATAAGATTTGCCATCTTCGATCTGC
* *
88987347 TCCACTACTACTTAGGGAGATAAAATCTAT-AATCGTCAGTCTGCTTCC
130 TCCACTACTACTTAAGGAGATAAAATCT-TCAATCTTCAGTCTGCTTCC
* * *
88987395 TTGCTACCTCAGGAAGATAAGACTACAATTTTCAACCTACTCTCTTGTTACCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * * *
88987460 GCTGGTAGCTAAAACCTGCTCCCCTGCTACCTCGGGAAGATAAGAT
66 GCTAGTGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGAT
88987506 CTAAATTCAC
Statistics
Matches: 554, Mismatches: 85, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
176 1 0.00
177 552 1.00
178 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (177 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
GCTAGTGGCTAAAATCTGCTCCCCTGCTACATCGGGAAGATAAGATTTGCCATCTTCGATCTGCT
CCACTACTACTTAAGGAGATAAAATCTTCAATCTTCAGTCTGCTTCC
Found at i:88988784 original size:6 final size:6
Alignment explanation
Indices: 88988775--88988837 Score: 72
Period size: 6 Copynumber: 10.0 Consensus size: 6
88988765 TCTTTATTCT
* * *
88988775 TTTTTA TTTTGATT TTTTTA TTTTTC TTTTATT TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTT--TA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA
88988826 TTTTTA TTTTTA
1 TTTTTA TTTTTA
88988838 AGGTCTTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
6 39 0.80
7 5 0.10
8 5 0.10
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:88988804 original size:14 final size:14
Alignment explanation
Indices: 88988774--88988830 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
88988764 TTCTTTATTC
*
88988774 TTTTTTATTTTGAT
1 TTTTTTATTTTTAT
*
88988788 TTTTTTATTTTTCT
1 TTTTTTATTTTTAT
*
88988802 TTTATT-TTTTTA-
1 TTTTTTATTTTTAT
88988814 -TTTTTATTTTTAT
1 TTTTTTATTTTTAT
88988827 TTTT
1 TTTT
88988831 ATTTTTAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 4 0.11
12 6 0.17
13 5 0.14
14 20 0.57
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:88988836 original size:19 final size:20
Alignment explanation
Indices: 88988775--88988830 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
88988765 TCTTTATTCT
*
88988775 TTTTTATTTTGATTTTTTTA
1 TTTTTATTTTTATTTTTTTA
*
88988795 TTTTT-CTTTTATTTTTTTA
1 TTTTTATTTTTATTTTTTTA
88988814 TTTTTATTTTTATTTTT
1 TTTTTATTTTTATTTTT
88988831 ATTTTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (20 bp):
TTTTTATTTTTATTTTTTTA
Found at i:88988836 original size:25 final size:23
Alignment explanation
Indices: 88988761--88988836 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 23
88988751 TGGTCTCTCC
* *
88988761 TTTTTCTTTA-TTCTTTTTTATT
1 TTTTTTTTTATTTTTTTTTTATT
*
88988783 TTGATTTTTTTATTTTTCTTTTATTT
1 TT--TTTTTTTATTTTTTTTTTA-TT
88988809 TTTTATTTTTATTTTTATTTTTATT
1 TTTT-TTTTTATTTTT-TTTTTATT
88988834 TTT
1 TTT
88988837 AAGGTCTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 2 0.05
24 9 0.20
25 24 0.55
26 9 0.20
ACGTcount: A:0.12, C:0.04, G:0.01, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTATTTTTTTTTTATT
Found at i:88994261 original size:22 final size:22
Alignment explanation
Indices: 88994243--88994282 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88994233 TTGAAATAGA
88994243 ATAA-AAAT-AATTCAAAAATG
1 ATAACAAATGAATTCAAAAATG
88994263 ATAACAAATGAATTCAAAAA
1 ATAACAAATGAATTCAAAAA
88994283 AATATAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
ATAACAAATGAATTCAAAAATG
Found at i:88994480 original size:26 final size:26
Alignment explanation
Indices: 88994375--88994486 Score: 95
Period size: 26 Copynumber: 4.3 Consensus size: 26
88994365 AATATATAAG
88994375 TTTAAAATAAACAATATATATAAA-AA
1 TTTAAAATAAACAATATATA-AAACAA
* * * * *
88994401 CTTAAAATAGATAATATATGAAATAA
1 TTTAAAATAAACAATATATAAAACAA
* * * *
88994427 TTTGAAATGATATAA-A-ATAAAACGA
1 TTTAAAAT-AAACAATATATAAAACAA
*
88994452 TTTAAAATAAACATTATATAAAACAA
1 TTTAAAATAAACAATATATAAAACAA
88994478 TTTAAAATA
1 TTTAAAATA
88994487 CTGTGTAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
24 3 0.04
25 17 0.25
26 42 0.63
27 5 0.07
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TTTAAAATAAACAATATATAAAACAA
Found at i:88994637 original size:3 final size:3
Alignment explanation
Indices: 88994631--88994755 Score: 73
Period size: 3 Copynumber: 42.3 Consensus size: 3
88994621 AACACAAATG
* * *
88994631 ATA ATA ATCA ATA TATC A-A AT- ATA ATA ATA ATA GTA ATA ATA ATG
1 ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
88994676 TTG A-A ATA ATTA ATT TTA ATA AT- ATA ATA ATA ATG ATA ATA AT-
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
88994719 ACA ATA ATA ATA AGA TTGA A-A ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
88994756 ATTAATAAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
2 9 0.10
3 74 0.80
4 9 0.10
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:88999952 original size:4 final size:4
Alignment explanation
Indices: 88999943--88999972 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
88999933 AGACTACAAT
88999943 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
88999973 GCTTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:89007760 original size:40 final size:40
Alignment explanation
Indices: 89007705--89007966 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
89007695 TATTCGAATG
*
89007705 ATATCCGGGATAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
89007745 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89007785 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
** *
89007825 ATATCCGGGCTAAGTATCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
89007865 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
89007905 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
89007945 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89007967 TACTTGGGTT
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.07
40 187 0.92
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:89013000 original size:41 final size:41
Alignment explanation
Indices: 89012940--89013061 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 41
89012930 TTAGGATTAG
* *
89012940 TTGAGATTACGTGTTAGACCATATCTGGGATATGGCATCGA
1 TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* *
89012981 TTGAGATTTCGTGTAAGACCATAGCT-AGACTATTGGCATCGA
1 TTGAGATTTCGTGTAAGACCATATCTGGGA-TA-TGGCATCGA
* *
89013023 TATGAGATCTCAG-GTAAGACCATATTTGGGATATGGCAT
1 T-TGAGATTTC-GTGTAAGACCATATCTGGGATATGGCAT
89013062 TGGTATGGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.03
41 25 0.37
42 16 0.24
43 22 0.32
44 3 0.04
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:89019534 original size:68 final size:68
Alignment explanation
Indices: 89019425--89019555 Score: 253
Period size: 68 Copynumber: 1.9 Consensus size: 68
89019415 AAAGATAAAG
89019425 TTGATAAGCTTACTAATGTTGTTAAAAATTTGCTTATAGATAAATAAGCCCAACCCAGCTGTGTT
1 TTGATAAGCTTACTAATGTTGTTAAAAATTTGCTTATAGATAAATAAGCCCAACCCAGCTGTGTT
89019490 GAA
66 GAA
*
89019493 TTGATAAGCTTACTAATGTTGTTCAAAATTTGCTTATAGATAAATAAGCCCAACCCAGCTGTG
1 TTGATAAGCTTACTAATGTTGTTAAAAATTTGCTTATAGATAAATAAGCCCAACCCAGCTGTG
89019556 CAGAATTTCT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (68 bp):
TTGATAAGCTTACTAATGTTGTTAAAAATTTGCTTATAGATAAATAAGCCCAACCCAGCTGTGTT
GAA
Found at i:89033042 original size:29 final size:29
Alignment explanation
Indices: 89033000--89033060 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
89032990 ATTAAACTCT
89033000 CTTGGTTTCATAGATAAGGACTGCAGTGA
1 CTTGGTTTCATAGATAAGGACTGCAGTGA
*
89033029 CTTGGTTTCTTAGATAAGGACTGCAGTGA
1 CTTGGTTTCATAGATAAGGACTGCAGTGA
89033058 CTT
1 CTT
89033061 ACTCATTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (29 bp):
CTTGGTTTCATAGATAAGGACTGCAGTGA
Found at i:89038357 original size:49 final size:49
Alignment explanation
Indices: 89038057--89038416 Score: 238
Period size: 47 Copynumber: 7.6 Consensus size: 49
89038047 TTATTTGTGT
* * * *
89038057 GCTAGTGTAAGA-CATGTATGGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATA
* * * * *** *
89038103 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACT-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATA
* * *
89038151 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGACCTCAAGA-TGT-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC--GATTTTGATA
* * **
89038197 GCCAGTGTAAGA-CATGTCTGGGACAT-GCCTCGG-CTACGA-GATG-T-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATTTTGATA
* * * * * *
89038241 G-TCAG-GTAAGACAATGTCTTGGACATGGCATCGGCATGGATATGTGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT-TTTGATA
*
89038290 GCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATTTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATA
* * * * *
89038339 GTTAGTGTAAGACCATGTCTAGGACATGGCATC-GACTTGA--TAGATGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGAT-A
*
89038386 GCCAGTGTAAGACCATGTCTGGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
89038417 ACGGGATCAT
Statistics
Matches: 247, Mismatches: 48, Indels: 37
0.74 0.14 0.11
Matches are distributed among these distances:
43 6 0.02
44 18 0.07
45 10 0.04
46 54 0.22
47 59 0.24
48 28 0.11
49 40 0.16
50 32 0.13
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGATA
Found at i:89039500 original size:20 final size:21
Alignment explanation
Indices: 89039461--89039500 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89039451 GTTATAATGA
89039461 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
*
89039482 CCACACGGGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
89039501 ATTTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:89040800 original size:48 final size:48
Alignment explanation
Indices: 89040739--89040960 Score: 197
Period size: 48 Copynumber: 4.7 Consensus size: 48
89040729 GTAGGATGTC
* * * *
89040739 AATGCCATATCCCAGATATGGTAC-TACATGAGATCACATATCAATGCT
1 AATGCCATGTCCCAGACATGGT-CTTACATGGGATCACATATCGATGCT
* ** * *
89040787 AATGCCATGTCCCAGACATGGCCTTACATGGGATCGTAGATCGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCT
*
89040835 AATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATCGATGCT
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCT
* * **** * * *
89040883 GAT---A-G-CCCA-ACTATGGACTTACACAAAATTACATATTGATGCC
1 AATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCGATGCT
*
89040926 AAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGATC
89040961 GCACATAACC
Statistics
Matches: 133, Mismatches: 33, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.02
43 27 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.02
48 97 0.73
49 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCT
Found at i:89041053 original size:11 final size:11
Alignment explanation
Indices: 89041037--89041062 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
89041027 ATATCAAACT
89041037 TCATCGAATCG
1 TCATCGAATCG
89041048 TCATCGAATCG
1 TCATCGAATCG
89041059 TCAT
1 TCAT
89041063 TAATTAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (11 bp):
TCATCGAATCG
Found at i:89047609 original size:35 final size:35
Alignment explanation
Indices: 89047556--89047624 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
89047546 TCTCTGGTTA
* * *
89047556 GCATGTTTCGGTTGGACTAGCTCTTATGAGCATTG
1 GCATGTCTCAGTTAGACTAGCTCTTATGAGCATTG
*
89047591 GCATGTCTCAGTTAGACTAGCTCTTGTGAGCATT
1 GCATGTCTCAGTTAGACTAGCTCTTATGAGCATT
89047625 TGGTATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (35 bp):
GCATGTCTCAGTTAGACTAGCTCTTATGAGCATTG
Found at i:89051828 original size:21 final size:22
Alignment explanation
Indices: 89051784--89051829 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
89051774 ATAATAATTC
* *
89051784 ATAATTTACTATAATAACCTTT
1 ATAAATTAATATAATAACCTTT
*
89051806 ATAAATTAATATAA-AATCTTT
1 ATAAATTAATATAATAACCTTT
89051827 ATA
1 ATA
89051830 TTGGTTGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAATTAATATAATAACCTTT
Found at i:89051943 original size:21 final size:21
Alignment explanation
Indices: 89051918--89051957 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89051908 AATTAAGCAC
*
89051918 TTTCATCTTTA-ACTATTAACT
1 TTTCA-CTTTACACGATTAACT
89051939 TTTCACTTTACACGATTAA
1 TTTCACTTTACACGATTAA
89051958 GCCCTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTCACTTTACACGATTAACT
Found at i:89053369 original size:19 final size:19
Alignment explanation
Indices: 89053345--89053397 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
89053335 AACGAATGTA
*
89053345 GCATACTGGCACATGAAGC
1 GCATACTGGCACACGAAGC
* *
89053364 GCATACTAGCTCACGAAGC
1 GCATACTGGCACACGAAGC
89053383 GCATATCTGGCACAC
1 GCATA-CTGGCACAC
89053398 AAGGTGTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (19 bp):
GCATACTGGCACACGAAGC
Found at i:89062669 original size:63 final size:60
Alignment explanation
Indices: 89062602--89062736 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 60
89062592 AAAGATAACC
* * *
89062602 ATATATATTTATATAATTTTCCAAAACT-AACATGCATTAAACTAATCAAAGCATGTATATAT
1 ATATATATTTATATAA---TACAAAACTAAACATGCATTAAACCAATCAAAGCATGCATATAT
* * *
89062664 -TATATATTTATA-CATACGAAACTACAATATGCATTAAACCAATCAAAGCATGCATATAT
1 ATATATATTTATATAATACAAAACTA-AACATGCATTAAACCAATCAAAGCATGCATATAT
*
89062723 -TATTTATTTATATA
1 ATATATATTTATATA
89062737 CATAATAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
57 7 0.11
59 42 0.68
60 1 0.02
61 12 0.19
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (60 bp):
ATATATATTTATATAATACAAAACTAAACATGCATTAAACCAATCAAAGCATGCATATAT
Found at i:89067268 original size:48 final size:47
Alignment explanation
Indices: 89067050--89067457 Score: 212
Period size: 48 Copynumber: 8.7 Consensus size: 47
89067040 ATATATTGCT
* * * * * *
89067050 GATGCCATGTTCCAGACATGGTCTTACTCTGGCTCTCATATATGCTTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-CTCATCTCTG--TACC
* * * *
89067100 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CACAACTCT-TAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATCTCTGTA-CC
* *
89067144 GATG-CGTGTCCCAGACA-CGTCTTACACTGG-CT-ATCTCTGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATCTCTGT--A--CC
*
89067191 GATG-CATGTCCCAGAAAT-GTCTTACACTGGCACTCATCTCTGTACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-CTCATCTCTGTACC
* *
89067237 GATGCCATGTTCCAGACATGGTCTTACACTGG-CT-ATCT-TAGTATGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATCTCT-GTA---CC
* * * * *
89067285 GAT-TCATATCCCACACAT-GTCTTACACTAGCC-C-TCGTCTGGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATC-TCT-G-TACC
* * *
89067331 GATACCATGTCCCAGACATGGTCTTACACTAGCCT--TCGTCTGGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATC-TCT-G-TACC
* ** *
89067379 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-CTCATCTCTGT-ACC
* *
89067427 GAAG-CATGTCCCATACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
89067458 GCACAAATCA
Statistics
Matches: 291, Mismatches: 39, Indels: 60
0.75 0.10 0.15
Matches are distributed among these distances:
43 6 0.02
44 30 0.10
45 7 0.02
46 44 0.15
47 79 0.27
48 93 0.32
49 19 0.07
50 12 0.04
51 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCCTCATCTCTGTACC
Found at i:89067306 original size:94 final size:94
Alignment explanation
Indices: 89067050--89067360 Score: 307
Period size: 94 Copynumber: 3.3 Consensus size: 94
89067040 ATATATTGCT
* * * *
89067050 GATGCCATGTTCCAGACATGGTCTTACTCTGGCTCTCATA-TATGCTTGCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATG---GCTGATGCATGTCCCAG
* *
89067114 ACATGTCTTACACTAGCA--CAACTCT-TAGTC
63 ACATGTCTTACACTAGCACTCATCTCTGTA-CC
* * *
89067144 GATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCT-GTCGA-GGCCGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCT-TAGT--ATGGCTGATGCATGTCCCAG
* *
89067205 AAATGTCTTACACTGGCACTCATCTCTGTACC
63 ACATGTCTTACACTAGCACTCATCTCTGTACC
* * * *
89067237 GATGCCATGTTCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATTCATATCCCACACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGCATGTCCCAGACA
* * * *
89067302 TGTCTTACACTAGCCCTCGTCT-GGATGCC
66 TGTCTTACACTAGCACTCATCTCTG-TACC
*
89067331 GATACCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
89067361 AGCCTTCGTC
Statistics
Matches: 179, Mismatches: 26, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
91 32 0.18
92 15 0.08
93 26 0.15
94 85 0.47
95 21 0.12
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAGTATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTACC
Found at i:89070970 original size:26 final size:26
Alignment explanation
Indices: 89070941--89071048 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
89070931 TGGTACAAAT
89070941 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
89070967 TGATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89070993 TGATAACGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
89071019 TTATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
89071045 TGAT
1 TGAT
89071049 GGGCATTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:89077701 original size:26 final size:26
Alignment explanation
Indices: 89077671--89077776 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
89077661 GTACAAATTA
*
89077671 ATAATGGGTTAGGTAAATGTTACATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
89077697 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
89077723 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
89077749 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
89077775 AT
1 AT
89077777 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:89086615 original size:21 final size:20
Alignment explanation
Indices: 89086580--89086618 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
89086570 ATACTTGAGT
*
89086580 AATTTGATGGTTGATGATGG
1 AATTTGATAGTTGATGATGG
89086600 AATTTGAATAGTTGATGAT
1 AATTTG-ATAGTTGATGAT
89086619 AGTTTTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (20 bp):
AATTTGATAGTTGATGATGG
Found at i:89088108 original size:12 final size:12
Alignment explanation
Indices: 89088086--89088124 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
89088076 TTGAATAGGT
89088086 AATTG-GTATTG
1 AATTGAGTATTG
89088097 AATTGAGTATTG
1 AATTGAGTATTG
89088109 AATTGAGTATTG
1 AATTGAGTATTG
89088121 AATT
1 AATT
89088125 TGGTTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (12 bp):
AATTGAGTATTG
Found at i:89090135 original size:28 final size:28
Alignment explanation
Indices: 89090104--89090165 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
89090094 GTAAATTTAT
**
89090104 GATAATAATGATT-TTTAAAATTTTAAGA
1 GATAATAACAATTATTTAAAA-TTTAAGA
*
89090132 GATAATAACAATTATTTTAAATTTAAGA
1 GATAATAACAATTATTTAAAATTTAAGA
89090160 GATAAT
1 GATAAT
89090166 TATTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (28 bp):
GATAATAACAATTATTTAAAATTTAAGA
Found at i:89093927 original size:27 final size:26
Alignment explanation
Indices: 89093890--89094004 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
89093880 AGCATGGCTG
* *
89093890 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
89093916 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
89093944 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
89093971 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
89093998 CCAGAAC
1 CCAGAAC
89094005 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:89093949 original size:54 final size:54
Alignment explanation
Indices: 89093890--89094004 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
89093880 AGCATGGCTG
*
89093890 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
89093944 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
89093998 CCAGAAC
1 CCAGAAC
89094005 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:89095650 original size:26 final size:26
Alignment explanation
Indices: 89095614--89095723 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
89095604 CATGAAATTC
89095614 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89095640 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89095666 TTATCATGTAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
89095692 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89095718 TTATCA
1 TTATCA
89095724 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89099689 original size:27 final size:26
Alignment explanation
Indices: 89099649--89099763 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
89099639 AGCATGGCTG
* *
89099649 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
89099675 CCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
89099703 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
89099730 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
89099757 CCAGAAC
1 CCAGAAC
89099764 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:89099713 original size:54 final size:54
Alignment explanation
Indices: 89099649--89099763 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
89099639 AGCATGGCTG
*
89099649 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAGCCA
* * * * *
89099703 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
89099757 CCAGAAC
1 CCAGAAC
89099764 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
Found at i:89099891 original size:27 final size:26
Alignment explanation
Indices: 89099861--89099911 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
89099851 GTCAAAATTA
*
89099861 ACCCTACGGGTATAACGGTAATTTTAC
1 ACCC-ACGGGTATAACAGTAATTTTAC
*
89099888 ACCCAGGGGTATAACAGTAATTTT
1 ACCCACGGGTATAACAGTAATTTT
89099912 CCATACATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (26 bp):
ACCCACGGGTATAACAGTAATTTTAC
Found at i:89101416 original size:26 final size:26
Alignment explanation
Indices: 89101380--89101475 Score: 174
Period size: 26 Copynumber: 3.7 Consensus size: 26
89101370 CATGAAATTC
89101380 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89101406 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
89101432 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
89101458 TTATCATGGAACATTTAC
1 TTATCATGAAACATTTAC
89101476 ATTTACCTAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89104864 original size:26 final size:26
Alignment explanation
Indices: 89104835--89104886 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
89104825 AAAAATTGAC
89104835 AATGGGTTAGGTAAATATTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
*
89104861 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATATTCCATGAT
89104887 GGGCATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
AATGGGTTAGGTAAATATTCCATGAT
Found at i:89108884 original size:19 final size:20
Alignment explanation
Indices: 89108850--89108888 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
89108840 GTAAAACTGT
89108850 TTAAGATGTGTTTTCAAAAA
1 TTAAGATGTGTTTTCAAAAA
*
89108870 TTAATATGT-TTTTCAAAAA
1 TTAAGATGTGTTTTCAAAAA
89108889 GTTATCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAAGATGTGTTTTCAAAAA
Found at i:89115917 original size:27 final size:26
Alignment explanation
Indices: 89115882--89115992 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 26
89115872 AACATGGCTG
* *
89115882 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
89115908 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
89115936 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
89115963 CCAGATCAAATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
89115990 CCA
1 CCA
89115993 AGACGCTTCC
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:89115946 original size:54 final size:54
Alignment explanation
Indices: 89115882--89115992 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
89115872 AACATGGCTG
* *
89115882 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGC-GTAGCCA
** *
89115936 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAAATAATTGTGGCGTAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCGTAGCCA
89115990 CCA
1 CCA
89115993 AGACGCTTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.64
55 17 0.34
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCGTAGCCA
Found at i:89119574 original size:42 final size:41
Alignment explanation
Indices: 89119464--89119576 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
89119454 AGTACTATAC
* *
89119464 CAATGCCATATCCCAGATATGGTCTTACATGGGATTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAGATTCATAT
* *
89119505 CAATGTCAATAGCCCA-ACTATGGTCTTACATGA-AGTCTCATAT
1 CAATG-CCATATCCCAGA-TATGGTCTTACATGAGA-T-TCATAT
* *
89119548 CGATGCCATATCCCAGATATGATCTTACA
1 CAATGCCATATCCCAGATATGGTCTTACA
89119577 CATAATCTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
41 7 0.12
42 42 0.71
43 10 0.17
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (41 bp):
CAATGCCATATCCCAGATATGGTCTTACATGAGATTCATAT
Found at i:89127428 original size:19 final size:19
Alignment explanation
Indices: 89127404--89127442 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
89127394 TGAGATATTC
89127404 CTTTAGTGTATTTGATTAT
1 CTTTAGTGTATTTGATTAT
89127423 CTTTAGTGTATTTGATTAT
1 CTTTAGTGTATTTGATTAT
89127442 C
1 C
89127443 GTGTTGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (19 bp):
CTTTAGTGTATTTGATTAT
Found at i:89131168 original size:68 final size:65
Alignment explanation
Indices: 89131096--89131245 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 65
89131086 CATCATGTGT
* * * *
89131096 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGT-GTACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAAGTAGGACACCAT
89131160 GTAG
62 GTAG
** * *
89131164 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTAAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGT--AGGACACCATGT
89131229 AG
64 AG
89131231 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
89131246 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 26 0.37
65 3 0.04
66 2 0.03
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAAGTAGGACACCATGTAG
Found at i:89131201 original size:64 final size:64
Alignment explanation
Indices: 89131120--89131303 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 64
89131110 AGACATTATG
* * * *
89131120 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
89131184 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTAAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGAT
89131249 AA
63 AA
* *
89131251 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
89131304 CGAACTATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 22 0.22
67 31 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:89133790 original size:13 final size:14
Alignment explanation
Indices: 89133769--89133801 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
89133759 TTTATTAATG
89133769 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
89133783 AAATTATTAAATAT
1 AAATTATTAAATAT
89133797 AAATT
1 AAATT
89133802 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:89138099 original size:20 final size:20
Alignment explanation
Indices: 89138074--89138121 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
89138064 ATCTAGTAAT
89138074 GAGGTGTGACTCAAGTGGAG
1 GAGGTGTGACTCAAGTGGAG
89138094 GAGGTGTGACTCAAGTGGAG
1 GAGGTGTGACTCAAGTGGAG
89138114 GAGGTGTG
1 GAGGTGTG
89138122 CATACAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.08, G:0.48, T:0.21
Consensus pattern (20 bp):
GAGGTGTGACTCAAGTGGAG
Found at i:89146356 original size:46 final size:46
Alignment explanation
Indices: 89146273--89146431 Score: 182
Period size: 46 Copynumber: 3.4 Consensus size: 46
89146263 GACGAGTGTT
* * *
89146273 AGTGTAAGA-CATGTTTGAGACATGCATTGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGG-CTCGAGATGTAAGCC
* *
89146319 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTACGAGATG-ATAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCT-CGAGATGTA-AGCC
* *
89146365 AGTGTAAGACCATGTCTGGGACATGGCTTTGAGCT-GAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTG-GCTCGAGATGTAAGCC
89146412 AGTGTAAGACCATGTCTGGG
1 AGTGTAAGACCATGTCTGGG
89146432 GCTCGGCATC
Statistics
Matches: 99, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.03
46 45 0.45
47 43 0.43
48 5 0.05
49 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCTCGAGATGTAAGCC
Found at i:89149616 original size:14 final size:14
Alignment explanation
Indices: 89149597--89149646 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
89149587 TCACAATTAG
89149597 AATTACATATATAT
1 AATTACATATATAT
*
89149611 AATTACAT-TAAATT
1 AATTACATATATA-T
89149625 AAAGTT-CATATATAT
1 -AA-TTACATATATAT
89149640 AATTACA
1 AATTACA
89149647 CATTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 6 0.21
16 5 0.17
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (14 bp):
AATTACATATATAT
Found at i:89150512 original size:19 final size:19
Alignment explanation
Indices: 89150479--89150570 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 19
89150469 CCATCATATT
*
89150479 TTTTTTTA-TACTCTCACA
1 TTTTTTTAGTATTCTCACA
89150497 TTTTTTTAGTATTCTCTA-A
1 TTTTTTTAGTATTCTC-ACA
* *
89150516 TTTTTTTGGTATTTCCTCTCA
1 TTTTTTTAGTA-TT-CTCACA
* * *
89150537 TTTTTTTGGTATGC-C-CT
1 TTTTTTTAGTATTCTCACA
89150554 TATTTTTTAGTATTCTC
1 T-TTTTTTAGTATTCTC
89150571 TTGTAACCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 2 0.03
18 20 0.33
19 19 0.32
20 4 0.07
21 15 0.25
ACGTcount: A:0.15, C:0.16, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTTAGTATTCTCACA
Found at i:89150513 original size:21 final size:21
Alignment explanation
Indices: 89150476--89150548 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
89150466 ACACCATCAT
* *
89150476 ATTTTTTT-TTATACTCTCAC
1 ATTTTTTTGGTATTCTCTCAC
*
89150496 ATTTTTTTAGTATTCTCT-A-
1 ATTTTTTTGGTATTCTCTCAC
*
89150515 ATTTTTTTGGTATT-TCCTCTC
1 ATTTTTTTGGTATTCT-CTCAC
89150536 ATTTTTTTGGTAT
1 ATTTTTTTGGTAT
89150549 GCCCTTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.02
19 15 0.33
20 9 0.20
21 20 0.44
ACGTcount: A:0.16, C:0.14, G:0.07, T:0.63
Consensus pattern (21 bp):
ATTTTTTTGGTATTCTCTCAC
Found at i:89152862 original size:20 final size:20
Alignment explanation
Indices: 89152812--89152871 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
89152802 CTTTTAGTAA
*
89152812 TCCCTTGTA-TTTTTTGACAT
1 TCCCTTGTATTTTTTTG-TAT
* **
89152832 TTCCTCATATTTTTTTGTAT
1 TCCCTTGTATTTTTTTGTAT
*
89152852 TCCCTTGTATTTTTTAGTAT
1 TCCCTTGTATTTTTTTGTAT
89152872 CACCTCATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 24 0.77
21 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.08, T:0.60
Consensus pattern (20 bp):
TCCCTTGTATTTTTTTGTAT
Found at i:89152878 original size:40 final size:40
Alignment explanation
Indices: 89152793--89152888 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
89152783 CCGAGTTTTC
* * **
89152793 CCTCACATTCTTTTAGTAATCCCTTGTATTTTTTGACATTT
1 CCTCATATT-TTTTTGTAATCCCTTGTATTTTTTGACATCA
* *
89152834 CCTCATATTTTTTTGTATTCCCTTGTATTTTTT-AGTATCA
1 CCTCATATTTTTTTGTAATCCCTTGTATTTTTTGA-CATCA
*
89152874 CCTCATAATTTTTTG
1 CCTCATATTTTTTTG
89152889 GTAGTCTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.02
40 38 0.81
41 8 0.17
ACGTcount: A:0.19, C:0.20, G:0.07, T:0.54
Consensus pattern (40 bp):
CCTCATATTTTTTTGTAATCCCTTGTATTTTTTGACATCA
Found at i:89161052 original size:53 final size:53
Alignment explanation
Indices: 89160971--89161081 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
89160961 TTCGTATGAG
89160971 GGAAACAGACTTAAAGCTTTGAAGAGTAAACTTAAGAATTTGATGAATCAAGA
1 GGAAACAGACTTAAAGCTTTGAAGAGTAAACTTAAGAATTTGATGAATCAAGA
* * * *
89161024 GGAAATAGACTTAAAGCTTTGAATAGTAAACTTAGGAATTTGATGAATCAATA
1 GGAAACAGACTTAAAGCTTTGAAGAGTAAACTTAAGAATTTGATGAATCAAGA
89161077 GGAAA
1 GGAAA
89161082 AGTATTGGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (53 bp):
GGAAACAGACTTAAAGCTTTGAAGAGTAAACTTAAGAATTTGATGAATCAAGA
Found at i:89166746 original size:24 final size:24
Alignment explanation
Indices: 89166714--89166773 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
89166704 GGTGAGGTTC
* *
89166714 TCGGAGGTGCTCTGGAAAGCCA-T
1 TCGGTGGTGCTCTAGAAAGCCATT
**
89166737 TCTGGTGGTGCTCTAGCGAGCCATT
1 TC-GGTGGTGCTCTAGAAAGCCATT
89166762 TCGGTGGTGCTC
1 TCGGTGGTGCTC
89166774 CGACGAGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 2 0.06
24 26 0.84
25 3 0.10
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.28
Consensus pattern (24 bp):
TCGGTGGTGCTCTAGAAAGCCATT
Found at i:89166780 original size:24 final size:25
Alignment explanation
Indices: 89166731--89166786 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
89166721 TGCTCTGGAA
*
89166731 AGCCA-TTCTGGTGGTGCTCTAGCG
1 AGCCATTTCTGGTGGTGCTCGAGCG
89166755 AGCCATTTC-GGTGGTGCTCCGA-CG
1 AGCCATTTCTGGTGGTGCT-CGAGCG
*
89166779 AGGCATTT
1 AGCCATTT
89166787 TGGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (25 bp):
AGCCATTTCTGGTGGTGCTCGAGCG
Found at i:89167139 original size:17 final size:17
Alignment explanation
Indices: 89167087--89167139 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
89167077 TATGAAGACA
* *
89167087 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
89167104 CAATCTTGGATATGATATG
1 TAATCTTAGA-A-GATATG
89167123 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
89167140 ATTTTGTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 14 0.48
18 1 0.03
19 14 0.48
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:89167140 original size:22 final size:21
Alignment explanation
Indices: 89167105--89167168 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
89167095 GAGGATATGC
*
89167105 AATCTT-G-GATATGATATGT
1 AATCTTAGAGATATGATTTGT
89167124 AATCTTAGAAGATATGATTTTGT
1 AATCTTAG-AGATATGA-TTTGT
*
89167147 AATCTTAGAGATTTGATTTGT
1 AATCTTAGAGATATGATTTGT
89167168 A
1 A
89167169 GATATCCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.15
20 1 0.03
21 6 0.15
22 14 0.36
23 12 0.31
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
AATCTTAGAGATATGATTTGT
Found at i:89170127 original size:12 final size:15
Alignment explanation
Indices: 89170098--89170131 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
89170088 CAAAACAAAT
89170098 GAAGGAGTTAGAGAA
1 GAAGGAGTTAGAGAA
*
89170113 GAAGGAGTTGGAGAA
1 GAAGGAGTTAGAGAA
89170128 GAAG
1 GAAG
89170132 TAAGAGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (15 bp):
GAAGGAGTTAGAGAA
Found at i:89171329 original size:14 final size:14
Alignment explanation
Indices: 89171310--89171339 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89171300 ATAACCAGAT
89171310 AAAGATACACCCTG
1 AAAGATACACCCTG
*
89171324 AAAGATACATCCTG
1 AAAGATACACCCTG
89171338 AA
1 AA
89171340 GACATGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (14 bp):
AAAGATACACCCTG
Found at i:89171690 original size:13 final size:13
Alignment explanation
Indices: 89171672--89171697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89171662 ACCTGAAAAT
89171672 GATTCGTAATTAG
1 GATTCGTAATTAG
89171685 GATTCGTAATTAG
1 GATTCGTAATTAG
89171698 CGAAAAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
GATTCGTAATTAG
Found at i:89179656 original size:23 final size:21
Alignment explanation
Indices: 89179624--89179666 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
89179614 ATCATTTTTA
89179624 ATTATATTATTTAATATTTCTTT
1 ATTATATTATTT-AT-TTTCTTT
*
89179647 ATTATTTTATTTATTTTCTT
1 ATTATATTATTTATTTTCTT
89179667 ATTTTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTATATTATTTATTTTCTTT
Found at i:89179662 original size:9 final size:8
Alignment explanation
Indices: 89179604--89179718 Score: 51
Period size: 8 Copynumber: 13.8 Consensus size: 8
89179594 TTACTATTAC
89179604 TATTATTAT
1 TATTATT-T
*
89179613 TATCATTT
1 TATTATTT
* *
89179621 T-TAATTA
1 TATTATTT
89179628 TATTATTT
1 TATTATTT
89179636 AATATT-TCTT
1 --TATTAT-TT
89179646 TATTATTT
1 TATTATTT
89179654 TATTTATTT
1 TA-TTATTT
*
89179663 TCTTATTT
1 TATTATTT
89179671 TCAACTT-TTT
1 T--A-TTATTT
89179681 TCATTATTT
1 T-ATTATTT
*
89179690 TCTTATTT
1 TATTATTT
*
89179698 TTTTA-TT
1 TATTATTT
89179705 TACTTATTT
1 TA-TTATTT
89179714 T-TTAT
1 TATTAT
89179719 CTGGTTTGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
7 12 0.14
8 36 0.43
9 23 0.28
10 10 0.12
11 2 0.02
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTATTT
Found at i:89179705 original size:16 final size:16
Alignment explanation
Indices: 89179684--89179758 Score: 63
Period size: 15 Copynumber: 5.0 Consensus size: 16
89179674 ACTTTTTTCA
89179684 TTATTTTCTTATTTTT
1 TTATTTTCTTATTTTT
*
89179700 TTATTTACTTA-TTTT
1 TTATTTTCTTATTTTT
** *
89179715 TTA---TCTGGTTTGT
1 TTATTTTCTTATTTTT
89179728 TT-TTTTC-TATTTTT
1 TTATTTTCTTATTTTT
89179742 TTATTTATCTTATTTTT
1 TTATTT-TCTTATTTTT
89179759 ATTTTTTGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 13
0.68 0.12 0.20
Matches are distributed among these distances:
12 2 0.05
13 5 0.11
14 6 0.14
15 12 0.27
16 12 0.27
17 7 0.16
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTATTTTT
Found at i:89179718 original size:15 final size:16
Alignment explanation
Indices: 89179684--89179716 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89179674 ACTTTTTTCA
*
89179684 TTATTTTCTTATTTTT
1 TTATTTACTTATTTTT
89179700 TTATTTACTTATTTTT
1 TTATTTACTTATTTTT
89179716 T
1 T
89179717 ATCTGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTACTTATTTTT
Found at i:89182562 original size:17 final size:17
Alignment explanation
Indices: 89182510--89182562 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
89182500 TATGGAAACA
* *
89182510 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
89182527 CAATCTTGGATATGATATG
1 TAATCTTAGA-A-GATATG
89182546 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
89182563 ATTTTGTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 14 0.48
18 1 0.03
19 14 0.48
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:89182591 original size:21 final size:23
Alignment explanation
Indices: 89182551--89182592 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
89182541 ATATGTAATC
89182551 TTAGAAGATATGATTTTGTAGAA
1 TTAGAAGATATGATTTTGTAGAA
*
89182574 TTAG-AGATTTGA-TTTGTAG
1 TTAGAAGATATGATTTTGTAG
89182593 GTATCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (23 bp):
TTAGAAGATATGATTTTGTAGAA
Found at i:89183191 original size:42 final size:41
Alignment explanation
Indices: 89183055--89183274 Score: 242
Period size: 42 Copynumber: 5.2 Consensus size: 41
89183045 TGGTCGTGCT
* * * * *
89183055 AGAGCCTCGAGTACCATCAGCACCTTGGTGCCTCGGATGTGC
1 AGAGCCTCGAGCAGCATCGGCACCTTGGTG-CTTGGATGTAC
* * * * *
89183097 TAGAGCCTCGAGTACCATCAGCACCTTGGTGCCTCGGATGTGC
1 -AGAGCCTCGAGCAGCATCGGCACCTTGGTG-CTTGGATGTAC
89183140 TAGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTAC
1 -AGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTAC
*
89183182 AGCAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTAC
1 AG-AGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTAC
* * *
89183224 GGGAGCCTCGAGCAGCATCGGTACCTTAGTGCTTGGATGTAC
1 -AGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTAC
*
89183266 GGGAGCCTC
1 -AGAGCCTC
89183275 AGACACTATA
Statistics
Matches: 167, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
41 2 0.01
42 94 0.56
43 71 0.43
ACGTcount: A:0.19, C:0.28, G:0.30, T:0.22
Consensus pattern (41 bp):
AGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTAC
Found at i:89183341 original size:85 final size:84
Alignment explanation
Indices: 89183099--89183357 Score: 215
Period size: 85 Copynumber: 3.1 Consensus size: 84
89183089 GGATGTGCTA
* * * * * **
89183099 GAGCCTCGAGTACCATCA-GCACCTTGGTGCCTCGGATGTGCTA-GAGCCTCGAGCAGCATCGGC
1 GAGCCTCGAGCAGCAT-AGGCACCTTAGTG-CTTGGATGTAC-AGGAGCCTCGAGCAGCATCGAT
* *
89183162 ACCTTGGTGCTTGGATGTACAG
63 ACATTGGTGCTTGGATGTACGG
* * * * *
89183184 CAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGGGAGCCTCGAGCAGCATCGGTACC
1 GAGCCTCGAGCAGCATAGGCACCTTAGTGCTTGGATGTACAGGAGCCTCGAGCAGCATCGATACA
*
89183249 TTAGTGCTTGGATGTACGG
66 TTGGTGCTTGGATGTACGG
* * * *
89183268 GAGCCTC-AGACA-CTATAGGCAACC-TAG-GACATTGGATGTGCAGGTGCCTCGAGCTGTATCG
1 GAGCCTCGAG-CAGC-ATAGGC-ACCTTAGTG-C-TTGGATGTACAGGAGCCTCGAGCAGCATCG
**
89183329 ATACATTGGTGCTTGGATGTGTGG
61 ATACATTGGTGCTTGGATGTACGG
89183353 GAGCC
1 GAGCC
89183358 ACGGGCACCA
Statistics
Matches: 144, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
83 4 0.03
84 65 0.45
85 75 0.52
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (84 bp):
GAGCCTCGAGCAGCATAGGCACCTTAGTGCTTGGATGTACAGGAGCCTCGAGCAGCATCGATACA
TTGGTGCTTGGATGTACGG
Found at i:89183485 original size:42 final size:42
Alignment explanation
Indices: 89182974--89183583 Score: 305
Period size: 43 Copynumber: 14.4 Consensus size: 42
89182964 GGTGTGAGAA
* ** *
89182974 CCTCGAGCACCATCGATACCTTGGTGCTTGGATGTGCGGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * * * ***
89183016 CCTTG-GACACCATCGGTAACCTAGACCCTTGG-TCGTGCTA-GAG
1 CCTCGAG-CAGCATCGG-CACCTTGGTGCTTGGAT-GTGC-AGGAG
* * * *
89183059 CCTCGAGTACCATCAGCACCTTGGTGCCTCGGATGTGCTA-GAG
1 CCTCGAGCAGCATCGGCACCTTGGTG-CTTGGATGTGC-AGGAG
* * * *
89183102 CCTCGAGTACCATCAGCACCTTGGTGCCTCGGATGTGCTA-GAG
1 CCTCGAGCAGCATCGGCACCTTGGTG-CTTGGATGTGC-AGGAG
* *
89183145 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTACAGCAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * *
89183187 CCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * * *
89183229 CCTCGAGCAGCATCGGTACCTTAGTGCTTGGATGTACGGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * * *
89183271 CCTC-AGACA-CTATAGGCAACCTAGG-ACATTGGATGTGCAGGTG
1 CCTCGAG-CAGC-ATCGGC-ACCTTGGTGC-TTGGATGTGCAGGAG
* * ** * **
89183314 CCTCGAGCTGTATCGATACATTGGTGCTTGGATGTGTGGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * * * * ** * *
89183356 CCACGGGCACCAT-GGATAAACAAGG-CCTTTGG-TCGTGCTGGAG
1 CCTCGAGCAGCATCGG--CACCTTGGTGC-TTGGAT-GTGCAGGAG
* * * * * *
89183399 CTTTGGGCACCATCGGAACCTTGGTGCCTTAGATGTGCAGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTG-CTTGGATGTGCAGGAG
* *
89183442 CCTTGAGCAGCATCGGCATCTTGGTGCTTGGATGTGCAGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* * * * * *
89183484 CCTCG-GACACCATTGGCAAGCTAGGATG-TTGGAAATATG--GGTG
1 CCTCGAG-CAGCATCGGC-ACCTTGG-TGCTTGG--ATGTGCAGGAG
** * *
89183527 CCTTAAGCAGCATTGGCACCTTGGTGCTTGGATGTGCGGGAG
1 CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
* *
89183569 CCTCGGGCACCATCG
1 CCTCGAGCAGCATCG
89183584 ACAACCTAGT
Statistics
Matches: 442, Mismatches: 94, Indels: 64
0.74 0.16 0.11
Matches are distributed among these distances:
40 4 0.01
41 9 0.02
42 201 0.45
43 213 0.48
44 11 0.02
45 4 0.01
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (42 bp):
CCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCAGGAG
Found at i:89187101 original size:43 final size:42
Alignment explanation
Indices: 89187054--89187192 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
89187044 GAGCCTCGGG
**
89187054 CACCATAGGCAACCTAGGGTGTTGCATGTGCGGGTGCCTCAAA
1 CACCATAGGCAACCTAGGACGTTG-ATGTGCGGGTGCCTCAAA
* * * * * * ***
89187097 CACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGG
1 CACCATAGGCAACCTAGGACGTTGAT-GTGCGGGTGCCTCAAA
*
89187140 CACCATAGGCAACCTAGAACGTTGGATGTGCGGGTGCCTCAAA
1 CACCATAGGCAACCTAGGACGTT-GATGTGCGGGTGCCTCAAA
89187183 CACCATAGGC
1 CACCATAGGC
89187193 CCTTGGTCGT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
42 1 0.01
43 71 0.96
44 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.18
Consensus pattern (42 bp):
CACCATAGGCAACCTAGGACGTTGATGTGCGGGTGCCTCAAA
Found at i:89187169 original size:86 final size:84
Alignment explanation
Indices: 89187024--89187307 Score: 336
Period size: 86 Copynumber: 3.4 Consensus size: 84
89187014 GCCCGTGACG
*
89187024 CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTAGGGTGTTGCATGTGCGGGT
1 CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTA-GGTGTTGGATGTGCGGGT
89187089 GCCTCAAACACCATCGACAAC
65 GCCTC-AACACCATCGACAAC
* **
89187110 CTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATAGGCAACCTAGAACGTTGGATGTGCGGGT
1 CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTAG-GTGTTGGATGTGCGGGT
89187175 GCCTCAA-A-CA-C--C-A-
65 GCCTCAACACCATCGACAAC
* * * *
89187188 -TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATTGGC-ACTTCGGTGCTTGGATGTAG-GGG
1 CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTAGGTG-TTGGATGT-GCGGG
* **
89187250 AGCCTTGGACACCATCGACAAC
64 TGCC-TCAACACCATCGACAAC
*
89187272 CTAGGCCCTTGGTCGTGCTGGAGCATCGGGCACCAT
1 CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCAT
89187308 CAGTACCTTG
Statistics
Matches: 171, Mismatches: 15, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
75 1 0.01
76 18 0.11
77 40 0.23
78 1 0.01
79 3 0.02
80 2 0.01
82 2 0.01
83 3 0.02
84 1 0.01
85 36 0.21
86 64 0.37
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.20
Consensus pattern (84 bp):
CTAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTAGGTGTTGGATGTGCGGGTG
CCTCAACACCATCGACAAC
Found at i:89187332 original size:162 final size:163
Alignment explanation
Indices: 89187025--89187341 Score: 401
Period size: 162 Copynumber: 2.0 Consensus size: 163
89187015 CCCGTGACGC
* * *
89187025 TAGGCCCTTGGTCGTGCTGGAGCCTCGGGCACCATAGGCAACCTAGGGTGTTGCATGTGCGGGTG
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATAGGCAACCTACGGTGTTGCATGTGCGGGAG
*
89187090 CCTCAAACACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATAGGCAACCT
66 CCTCAAACACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCATCGGGCACCATAGGCAACCT
* * *
89187155 AGAACGTTGGATGTGCGGGTGCCTCAAACACCA
131 AGAACCTTAGATGTGCGGGAGCCTCAAACACCA
* * *
89187188 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATTGGC-A-CTTCGGTGCTTGGATGTAG-GGG
1 TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATAGGCAACCTACGGTG-TTGCATGT-GCGGG
*** * *
89187250 AGCCTTGGACACCATCGACAACCTAGGCCCTTGGTCGTGCTGGAGCATCGGGCACCATCA-G-TA
64 AGCCTCAAACACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCATCGGGCACCAT-AGGCAA
* **
89187313 CCTTGGTGCCTTAGATGTGCGGGAGCCTC
128 CC-TAGAACCTTAGATGTGCGGGAGCCTC
89187342 GAGCAGTATC
Statistics
Matches: 132, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
161 9 0.07
162 84 0.64
163 39 0.30
ACGTcount: A:0.18, C:0.29, G:0.32, T:0.21
Consensus pattern (163 bp):
TAGGCCCTTGGTCGTGCAGGAGCCTCGGGCACCATAGGCAACCTACGGTGTTGCATGTGCGGGAG
CCTCAAACACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCATCGGGCACCATAGGCAACCT
AGAACCTTAGATGTGCGGGAGCCTCAAACACCA
Found at i:89189086 original size:25 final size:25
Alignment explanation
Indices: 89189058--89189142 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
89189048 ATGATTTCCT
89189058 TGCCTTATGGAACTTATCAATGCCA
1 TGCCTTATGGAACTTATCAATGCCA
* * *
89189083 TGCCTTGGCATGG-TCTTA-CATGATTTCCT
1 TGCCTT---ATGGAACTTATCA--A-TGCCA
*
89189112 TGCCTTATAGAACTTATCAATGCCA
1 TGCCTTATGGAACTTATCAATGCCA
89189137 TGCCTT
1 TGCCTT
89189143 GGCATGGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 15 0.33
26 6 0.13
27 8 0.18
28 7 0.16
29 9 0.20
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (25 bp):
TGCCTTATGGAACTTATCAATGCCA
Found at i:89189166 original size:54 final size:54
Alignment explanation
Indices: 89188905--89189166 Score: 314
Period size: 54 Copynumber: 4.9 Consensus size: 54
89188895 TTTTTTTTTT
* * * * * * *
89188905 GAACTTACCATTGCCATGTCTTGACATGATCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* **
89188958 GAA-TTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTT-ATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* ** * * *
89189012 GTAACTCATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTGCCTTATG
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
89189067 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
89189121 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGACATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
89189167 ATCTTACCAA
Statistics
Matches: 181, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.02
53 41 0.23
54 93 0.51
55 40 0.22
56 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:89189257 original size:47 final size:46
Alignment explanation
Indices: 89189145--89189266 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 46
89189135 CATGCCTTGG
* *
89189145 CATGGTCTTACATGACATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATG-TATCCTTGTCTTACCAAATGCCATGTTCCAAA
89189192 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GTATCCTTGTCTTACCAAATGCCATGTTCCAAA
89189239 CATGGTCTTACATCGTATCCTTGTCTTA
1 CATGGTCTTACAT-GTATCCTTGTCTTA
89189267 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 70 0.99
48 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.35
Consensus pattern (46 bp):
CATGGTCTTACATGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:89191143 original size:85 final size:84
Alignment explanation
Indices: 89191007--89191240 Score: 220
Period size: 85 Copynumber: 2.8 Consensus size: 84
89190997 TGCTTGGATG
* * * ** * *
89191007 TGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCTGGAGCCTTGGGCACTAT
1 TGCGGGAGCCTCGAGCAGCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTTGGGCACCAT
* * * *
89191071 CA-ACACCTTGGTGCCTCAGATG
64 -AGAAACCTAGG-ACCTCAGATA
* * * * *
89191093 TGCGGGAGCCTCGAGCAGTATTGGTACCTTGGTGCTTGGATGTGCGGGAGCTTTGGACACCATAG
1 TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCATA-
* **
89191158 GAAACCTAGGACGTTGGATA
65 GAAACCTAGGACCTCAGATA
* *
89191178 TGCGGGTGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCAT
1 TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCAT
89191241 TGGCAACCTA
Statistics
Matches: 119, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
84 1 0.01
85 90 0.76
86 28 0.24
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (84 bp):
TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCATAG
AAACCTAGGACCTCAGATA
Found at i:89191189 original size:128 final size:127
Alignment explanation
Indices: 89190990--89191230 Score: 297
Period size: 128 Copynumber: 1.9 Consensus size: 127
89190980 CAGCATCAAC
* * * * * * *
89190990 ACCTTTGTGCTTGGATGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCTG
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGGACACCATAGGAAACCTAGGACCTTGGTCATGCGG
*
89191055 GAGCCTTGGGCA-CTATCAACACCTTGGTGCCTCAGATGTGCGGGAGCCTCGAGCAGTATTGGT
66 GAGCCTTGAGCAGC-ATCAACACCTTGGTG-CTCAGATGTGCGGGAGCCTCGAGCAGTATTGGT
* * *
89191118 ACCTTGGTGCTTGGATGTGCGGGAGCTTTGGACACCATAGGAAACCTAGGACGTTGGAT-ATGCG
1 ACCTTGGTGCTTGGATGTGCGGGAGCCTCGGACACCATAGGAAACCTAGGACCTTGG-TCATGCG
* ** **
89191182 GGTGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCT
65 GGAGCCTTGAGCAGCATCAACACCTTGGTGCTCAGATGTGCGGGAGCCT
89191231 TGGGCACCAT
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 17 0.18
128 76 0.80
129 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (127 bp):
ACCTTGGTGCTTGGATGTGCGGGAGCCTCGGACACCATAGGAAACCTAGGACCTTGGTCATGCGG
GAGCCTTGAGCAGCATCAACACCTTGGTGCTCAGATGTGCGGGAGCCTCGAGCAGTATTGGT
Found at i:89191249 original size:85 final size:85
Alignment explanation
Indices: 89191093--89191252 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
89191083 GCCTCAGATG
* * * *
89191093 TGCGGGAGCCTCGAGCAGTATTGGTACCTTGGTGCTTGGATGTGCGGGAGCTTTGGACACCATAG
1 TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAG
89191158 GAAACCTAGGACGTTGGATA
66 GAAACCTAGGACGTTGGATA
* * * *
89191178 TGCGGGTGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCATTG
1 TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAG
*
89191243 GCAACCTAGG
66 GAAACCTAGG
89191253 CCCTCGGTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.18, C:0.22, G:0.36, T:0.24
Consensus pattern (85 bp):
TGCGGGAGCCTCGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAG
GAAACCTAGGACGTTGGATA
Found at i:89191274 original size:85 final size:85
Alignment explanation
Indices: 89191097--89191274 Score: 223
Period size: 85 Copynumber: 2.1 Consensus size: 85
89191087 CAGATGTGCG
* * * * *
89191097 GGAGCCTCGAGCAGTATTGGTACCTTGGTGCTTGGATGTGCGGGAGCTTTGGACACCATAGGAAA
1 GGAGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAGGAAA
* * *
89191162 CCTAGGACGTTGGATATGCG
66 CCTAGGACCTCGGATATGCA
* * * *
89191182 GGTGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGGCACCATTGGCAA
1 GGAGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAGGAAA
*
89191247 CCTAGGCCCTCGG-TCATGCA
66 CCTAGGACCTCGGAT-ATGCA
89191267 GGAGCCTT
1 GGAGCCTT
89191275 AGACACCATA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 1 0.01
85 77 0.99
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.24
Consensus pattern (85 bp):
GGAGCCTTGAGCAGCATCGGCACCTTGGTGCTTGGATGTGCGGGAGCCTTGGACACCATAGGAAA
CCTAGGACCTCGGATATGCA
Found at i:89191328 original size:128 final size:129
Alignment explanation
Indices: 89191139--89191374 Score: 287
Period size: 128 Copynumber: 1.8 Consensus size: 129
89191129 TGGATGTGCG
* * * ** * * *
89191139 GGAGCTTTGGACACCATAGGAAACCTAGGACGTTGGATATGCGGGTGCCTTGAGCAGCATCGGCA
1 GGAGCCTTAGACACCATAGGAAACCTAGGACGTTAGATATGCGGGTGCCTCAAACACCATCGACA
* ** ** *
89191204 -CCTTGGTGCTTGGAT-GTGCGGGAGCCTTGGGCACCATTGGCAACCTAGGCCCTCGGTCATGCA
66 GCCTAGGCCCTTGG-TCGTGCGGGAGCCTCAGGAACCATTGGCAACCTAGGCCCTCGGTCATGCA
* ** *
89191267 GGAGCCTTAGACACCATAGGTAACCTAGGTTGTTAGATGTGCGGGTGCCTCAAACACCATCGACA
1 GGAGCCTTAGACACCATAGGAAACCTAGGACGTTAGATATGCGGGTGCCTCAAACACCATCGACA
89191332 GCCTAGGCCCTTGGTCGTGCGGGAGCCTCAGGAACCATTGGCA
66 GCCTAGGCCCTTGGTCGTGCGGGAGCCTCAGGAACCATTGGCA
89191375 CCTCAGTGCT
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
128 54 0.61
129 34 0.39
ACGTcount: A:0.21, C:0.26, G:0.32, T:0.21
Consensus pattern (129 bp):
GGAGCCTTAGACACCATAGGAAACCTAGGACGTTAGATATGCGGGTGCCTCAAACACCATCGACA
GCCTAGGCCCTTGGTCGTGCGGGAGCCTCAGGAACCATTGGCAACCTAGGCCCTCGGTCATGCA
Found at i:89196019 original size:41 final size:43
Alignment explanation
Indices: 89195941--89196041 Score: 143
Period size: 41 Copynumber: 2.4 Consensus size: 43
89195931 TCCCGAACGT
* * * *
89195941 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGTATAGATGCCTATGTCCCAGACAG
*
89195984 GGTCTTACACG-AAATCAG-ATAGATGCCTATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTATAGATGCCTATGTCCCAGACAG
89196025 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
89196042 TCAAATCGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 31 0.60
42 11 0.21
43 10 0.19
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATAGATGCCTATGTCCCAGACAG
Found at i:89218960 original size:47 final size:47
Alignment explanation
Indices: 89218871--89218960 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
89218861 GGTAAGGTGC
* **
89218871 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCAAGT
*
89218918 CGATGCCATGTCCCATACATGGTCTTACACTAAC-CATCATCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCAT-ATCTC
89218961 GTAACCGATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.08
47 35 0.92
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTCATATCTCAAGT
Found at i:89224242 original size:43 final size:42
Alignment explanation
Indices: 89224112--89225122 Score: 267
Period size: 43 Copynumber: 23.7 Consensus size: 42
89224102 CACGTCGGTA
* *
89224112 GTGCCTGAGGCTC-CAGCACAACCAAAGGCCTAGGTTGCCGATG
1 GTGCCTGAGGCTCTC-GCACGACC-AAGGGCTAGGTTGCCGATG
* ** * * *
89224155 GTGTCC-GAGGCTC-CATCAC-ATCCAAGCACCAAGG-TACCAATG
1 GTG-CCTGAGGCTCTC-GCACGA-CCAAG-GGCTAGGTTGCCGATG
** * *
89224197 GTGCCCAAGGATCTCGCCCGACCAAGGGCGTAGGTTGCCGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGGC-TAGGTTGCCGATG
*
89224240 GTGCCTGAGGCTCTCGCACGACCAAGGGTCTAGGTTACCGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * * *
89224283 GTGCCTGAGGCTCCCGCATGACCAAGGGCCTAGTTTGCTGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * * * *
89224326 GTGTCCT-AGGCTCCCGCAC-ATCC-AGGCACCAAGG-TGCTGATA
1 GTG-CCTGAGGCTCTCGCACGA-CCAAGG--GCTAGGTTGCCGATG
* * * * * *
89224368 CTG-CTCGAGGCTCCCACAC-ATCCGAGGCAACAAGG-TGCCGATG
1 GTGCCT-GAGGCTCTCGCACGA-CCAAGG--GCTAGGTTGCCGATG
* * * * * * * *
89224411 GTTCCCGAGGCTCTTGTACGACTAAGGGCCTTGGTTGCTGATA
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* ** *
89224454 GTGCCTGAGGCTCCCGCAC-ATCCAAGCACCAAGG-TGCCGATG
1 GTGCCTGAGGCTCTCGCACGA-CCAAG-GGCTAGGTTGCCGATG
* * * * *
89224496 GTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGTTTGCCAATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* ** * *
89224539 GTGTCC-GAGGCTC-CTGTAC-ATCCAAGCACCAAAGG-TACCGATG
1 GTG-CCTGAGGCTCTC-GCACGA-CCAAG-GGC-TAGGTTGCCGATG
* * * * ** *
89224582 CTG-CTCGAGGCTCCCGTA-TATCCAAGCACCAAGG-TGCCGATG
1 GTGCCT-GAGGCTCTCGCACGA-CCAAG-GGCTAGGTTGCCGATG
* * * * * *
89224624 CTG-CTCGAGGCTCCCGCAC-ATTCGAGGCACCAAGG-TGCCGATG
1 GTGCCT-GAGGCTCTCGCACGA-CCAAGG--GCTAGGTTGCCGATG
*
89224667 GTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * * *
89224710 GTTCCCGAGGCTCTCGTACGACCAAGGGCCTAGGTTTCCGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * **
89224753 GTGCCTAAGGCTCTCGCACGACCAAGGCCTTAGGTTGCTAATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGGC-TAGGTTGCCGATG
* * ** * * *
89224796 GTATCC-GTGGCTCTCGCAC-ATCCAAGCACCAAGTTACCGATG
1 GT-GCCTGAGGCTCTCGCACGA-CCAAGGGCTAGGTTGCCGATG
* * * * * *
89224838 GTTCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGTCAATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * ** * *
89224881 GTGCCCGAGGCTCTCGTAC-ATCCAAGCACCAAGG-TACCGAT-
1 GTGCCTGAGGCTCTCGCACGA-CCAAG-GGCTAGGTTGCCGATG
* * * * ** * * * *
89224922 CTG-CTCGAGCCTCACACAC-ATCTGAGGCACCAAGG-TACTGATG
1 GTGCCT-GAGGCTCTCGCACGA-CCAAGG--GCTAGGTTGCCGATG
* * *
89224965 GTGTCC-GAGGCT-TACGCATGACCAAGGGCCTAAGTTGCTGATG
1 GTG-CCTGAGGCTCT-CGCACGACCAAGGG-CTAGGTTGCCGATG
* * * * *
89225008 GTTCCTAAGGCTCTCGCATGACCAAGGGCCTAGGTTACTGATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* * * *
89225051 GTGCCTGAGGCTCTCACATGACCAAGGGCCTTGGTTGCCAATG
1 GTGCCTGAGGCTCTCGCACGACCAAGGG-CTAGGTTGCCGATG
* *
89225094 GTGTCC-GATGCTC-CGACACAACCAAGGGC
1 GTG-CCTGAGGCTCTCG-CACGACCAAGGGC
89225123 CCAAGGTGCC
Statistics
Matches: 739, Mismatches: 166, Indels: 127
0.72 0.16 0.12
Matches are distributed among these distances:
40 3 0.00
41 23 0.03
42 182 0.25
43 509 0.69
44 21 0.03
45 1 0.00
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.20
Consensus pattern (42 bp):
GTGCCTGAGGCTCTCGCACGACCAAGGGCTAGGTTGCCGATG
Found at i:89224422 original size:85 final size:84
Alignment explanation
Indices: 89224322--89224921 Score: 316
Period size: 85 Copynumber: 7.0 Consensus size: 84
89224312 CTAGTTTGCT
* * * * *
89224322 GATGGTGTCCTAGGCTCCCGCAC-A-TCCAGGCACCAAGGTGCTGATACTGCTCGAGGCTCCCAC
1 GATGGTGCCCGAGGCTCCCGCACGACT-AAGG-ACCAAGGTGCCGATACTGCTCGAGGCTCCCGC
* *
89224385 ACATCCGAGGCAACAAGGTGCC
64 ACATCC-AAGCACCAAGGTGCC
* ** * * ** * *
89224407 GATGGTTCCCGAGGCTCTTGTACGACTAAGGGCCTTGGTTGCTGATAGTGC-CTGAGGCTCCCGC
1 GATGGTGCCCGAGGCTCCCGCACGACTAAGGACCAAGG-TGCCGATACTGCTC-GAGGCTCCCGC
89224471 ACATCCAAGCACCAAGGTGCC
64 ACATCCAAGCACCAAGGTGCC
* * * * ** * *
89224492 GATGGTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGTTTGCCAATGGTG-TCCGAGGCTCCTGT
1 GATGGTGCCCGAGGCTCCCGCACGACTAAGGACCAAG-GTGCCGATACTGCT-CGAGGCTCCCGC
*
89224556 ACATCCAAGCACCAAAGGTACC
64 ACATCCAAGCACC-AAGGTGCC
* * * * * * *
89224578 GATGCTGCTCGAGGCTCCCGTA-TATCCAAGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCGCA
1 GATGGTGCCCGAGGCTCCCGCACGA-CTAAGGACCAAGGTGCCGATACTGCTCGAGGCTCCCGCA
* *
89224642 CATTCGAGGCACCAAGGTGCC
65 CA-TCCAAGCACCAAGGTGCC
* * * * ** * * * *
89224663 GATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTTGCCGATGGTTCCCGAGGCTCTCGTA
1 GATGGTGCCCGAGGCTCCCGCACGACTAAGGACCAAGG-TGCCGATACTGCTCGAGGCTCCCGCA
** * *
89224728 CGA-CCAAGGGCCTAGGTTTCC
65 C-ATCCAAGCACCAAGG-TGCC
** * * * ** ** * * *
89224749 GATGGTGCCTAAGGCTCTCGCACGACCAAGG-CCTTAGGTTGCTAATGGT-ATCCGTGGCTCTCG
1 GATGGTGCCCGAGGCTCCCGCACGACTAAGGACC-AAGG-TGCCGATACTGCT-CGAGGCTCCCG
* *
89224812 CACATCCAAGCACCAAGTTACC
63 CACATCCAAGCACCAAGGTGCC
* * * * * * * ** * * *
89224834 GATGGTTCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGTCAATGGTGCCCGAGGCTCTCGTA
1 GATGGTGCCCGAGGCTCCCGCACGACTAAGGACCAAG-GTGCCGATACTGCTCGAGGCTCCCGCA
*
89224899 CATCCAAGCACCAAGGTACC
65 CATCCAAGCACCAAGGTGCC
89224919 GAT
1 GAT
89224922 CTGCTCGAGC
Statistics
Matches: 408, Mismatches: 86, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
85 240 0.59
86 166 0.41
87 2 0.00
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.20
Consensus pattern (84 bp):
GATGGTGCCCGAGGCTCCCGCACGACTAAGGACCAAGGTGCCGATACTGCTCGAGGCTCCCGCAC
ATCCAAGCACCAAGGTGCC
Found at i:89224550 original size:171 final size:168
Alignment explanation
Indices: 89224234--89224921 Score: 520
Period size: 171 Copynumber: 4.0 Consensus size: 168
89224224 GCGTAGGTTG
* * * * * *
89224234 CCGATGGTGCCTGAGGCTCTCGCACGACCAAGGGTCTAGGTTACCGATGGTGCCTGAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCTCGTACGACCAAGGGCCTTGGTTGCTGAT-GTGCCTGAGGCTCCCG
* ** * * * * * * * *
89224299 CATGA-CCAAGGGCCTAGTTTGCTGATGGTGTCCTAGGCTCCCGCAC-ATCC-AGGCACCAAG-G
65 CA-CATCCAAGCACCAAG-GTGCCGATGGTGCCCGAGGCTCCCGCACGA-CCAAGG-GCCTAGTT
** ** ** *
89224360 TGCTGATACTG-CTCGAGGCTCCCACACATCCGAGGCAACAAGGTG
126 TGCCAATGGTGTC-CGAGGCTCCCGTACATCC-AGGC-ACAAGGTA
* * *
89224405 CCGATGGTTCCCGAGGCTCTTGTACGACTAAGGGCCTTGGTTGCTGATAGTGCCTGAGGCTCCCG
1 CCGATGGTGCCCGAGGCTCTCGTACGACCAAGGGCCTTGGTTGCTGAT-GTGCCTGAGGCTCCCG
*
89224470 CACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGTTTGCC
65 CACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCC
* *
89224535 AATGGTGTCCGAGGCTCCTGTACATCCAAGCACCAAAGGTA
130 AATGGTGTCCGAGGCTCCCGTACATCCAGGCA-C-AAGGTA
* * * * ** ** *
89224576 CCGATGCTGCTCGAGGCTCCCGTA-TATCCAAGCACCAAGG-TGCCGATGCTG-CTCGAGGCTCC
1 CCGATGGTGCCCGAGGCTCTCGTACGA-CCAAGGGCCTTGGTTGCTGATG-TGCCT-GAGGCTCC
* * * *
89224638 CGCACATTCGAGGCACCAAGGTGCCGATGGTGCCCGAGGCTCTCGCACGACCAAGGGCCTAGGTT
63 CGCACA-TCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTT
* * * *
89224703 GCCGATGGT-TCCCGAGGCTCTCGTACGA-CCAAGGGC-CTAGGTTT
127 GCCAATGGTGT-CCGAGGCTCCCGTAC-ATCC-A-GGCACAAGG-TA
** * * * * *
89224747 CCGATGGTGCCTAAGGCTCTCGCACGACCAA-GGCCTTAGGTTGCTAATGGTATCC-GTGGCTCT
1 CCGATGGTGCCCGAGGCTCTCGTACGACCAAGGGCCTT-GGTTGCTGAT-GT-GCCTGAGGCTCC
* * *
89224810 CGCACATCCAAGCACCAAGTTACCGATGGTTCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTG
63 CGCACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTG
* * * *
89224875 TCAATGGTGCCCGAGGCTCTCGTACATCCAAGCACCAAGGTA
128 CCAATGGTGTCCGAGGCTCCCGTACATCCAGGCA-CAAGGTA
89224917 CCGAT
1 CCGAT
89224922 CTGCTCGAGC
Statistics
Matches: 408, Mismatches: 83, Indels: 53
0.75 0.15 0.10
Matches are distributed among these distances:
169 6 0.01
170 71 0.17
171 305 0.75
172 22 0.05
173 3 0.01
174 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.29, T:0.20
Consensus pattern (168 bp):
CCGATGGTGCCCGAGGCTCTCGTACGACCAAGGGCCTTGGTTGCTGATGTGCCTGAGGCTCCCGC
ACATCCAAGCACCAAGGTGCCGATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGTTTGCCA
ATGGTGTCCGAGGCTCCCGTACATCCAGGCACAAGGTA
Done.