Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 236 of 325
Found at i:73968619 original size:80 final size:79
Alignment explanation
Indices: 73968485--73968635 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
73968475 ATAATCACGT
*
73968485 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
73968550 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
73968565 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
73968628 CCGGATAT
64 CCGGATAT
73968636 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:73976596 original size:40 final size:39
Alignment explanation
Indices: 73976486--73976634 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
73976476 TTAATCACGT
* * *
73976486 GCACAAATGCCTTC-GGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
73976525 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* ** *
73976565 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA-TTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
73976604 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
73976635 CATTCAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
38 13 0.14
39 32 0.35
40 47 0.51
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:73977878 original size:54 final size:55
Alignment explanation
Indices: 73977813--73977921 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 55
73977803 AAAAATCCCC
73977813 CTTTCCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAGGATGAACAAATTTTTCTTT
1 CTTTCCCTTAGTACA-TTCGGCCAAG-AGATGGAGAAGGATGAACAAATTTTTCTTT
** **
73977868 CTTT-CCTTAGTACATTCGGCCAAGCTATGGAGAAGGATGAACATTTTTTTCTTT
1 CTTTCCCTTAGTACATTCGGCCAAGAGATGGAGAAGGATGAACAAATTTTTCTTT
73977922 TTTTTTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
53 2 0.04
54 41 0.85
55 5 0.10
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTCCCTTAGTACATTCGGCCAAGAGATGGAGAAGGATGAACAAATTTTTCTTT
Found at i:73982363 original size:59 final size:60
Alignment explanation
Indices: 73982267--73982399 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
73982257 GACAAGATTG
* * *
73982267 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
73982327 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
73982386 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73982400 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:73982412 original size:29 final size:29
Alignment explanation
Indices: 73982297--73982399 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
73982287 AAAATTGTAC
*
73982297 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73982326 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73982356 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73982385 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73982400 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73989866 original size:59 final size:60
Alignment explanation
Indices: 73989770--73989902 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
73989760 GACAAGATTG
* * *
73989770 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
73989830 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
73989889 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73989903 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:73989915 original size:29 final size:29
Alignment explanation
Indices: 73989800--73989902 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
73989790 AAAATTGTAC
*
73989800 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73989829 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73989859 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73989888 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73989903 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73992588 original size:4 final size:5
Alignment explanation
Indices: 73992572--73992636 Score: 57
Period size: 5 Copynumber: 13.4 Consensus size: 5
73992562 ACATGGGATT
* *
73992572 TGATA T-ATA TGAT- TGATA TGATA TGCACA TGATA TG-TA TGATA TGCACA
1 TGATA TGATA TGATA TGATA TGATA TG-ATA TGATA TGATA TGATA TG-ATA
*
73992621 TGACA TG-TA TGATA TG
1 TGATA TGATA TGATA TG
73992637 CACATAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 15 0.30
5 27 0.54
6 8 0.16
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (5 bp):
TGATA
Found at i:73992603 original size:11 final size:11
Alignment explanation
Indices: 73992589--73992641 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
73992579 TATGATTGAT
73992589 ATGATATGCAC
1 ATGATATGCAC
*
73992600 ATGATATG--T
1 ATGATATGCAC
73992609 ATGATATGCAC
1 ATGATATGCAC
* *
73992620 ATGACATG--T
1 ATGATATGCAC
73992629 ATGATATGCAC
1 ATGATATGCAC
73992640 AT
1 AT
73992642 AATGTATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:73992611 original size:20 final size:20
Alignment explanation
Indices: 73992588--73992641 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
73992578 ATATGATTGA
*
73992588 TATGATATGCACATGATATG
1 TATGATATGCACATGACATG
73992608 TATGATATGCACATGACATG
1 TATGATATGCACATGACATG
73992628 TATGATATGCACAT
1 TATGATATGCACAT
73992642 AATGTATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGACATG
Found at i:73992612 original size:9 final size:10
Alignment explanation
Indices: 73992572--73992636 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 10
73992562 ACATGGGATT
73992572 TGATAT-ATA
1 TGATATGATA
73992581 TGAT-TGATA
1 TGATATGATA
*
73992590 TGATATGCACA
1 TGATATG-ATA
73992601 TGATATG-TA
1 TGATATGATA
*
73992610 TGATATGCACA
1 TGATATG-ATA
*
73992621 TGACATG-TA
1 TGATATGATA
73992630 TGATATG
1 TGATATG
73992637 CACATAATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 1 0.02
9 26 0.58
10 2 0.04
11 16 0.36
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGATA
Found at i:73992626 original size:25 final size:25
Alignment explanation
Indices: 73992579--73992636 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
73992569 ATTTGATATA
*
73992579 TATGAT-TGATATGATATGCACATG
1 TATGATATGATATGACATGCACATG
73992603 ATATG-TATGATATGCACATG-ACATG
1 -TATGATATGATATG-ACATGCACATG
73992628 TATGATATG
1 TATGATATG
73992637 CACATAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (25 bp):
TATGATATGATATGACATGCACATG
Found at i:73992771 original size:50 final size:49
Alignment explanation
Indices: 73992692--73992799 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 49
73992682 AGGAAGTGCA
73992692 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCAAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGC-TTTGCCCAAG-TTATT
* * *
73992742 AAAAGGGCTTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCAAGTTATT
73992790 AAAAGAGGCT
1 AAAAG-GGCT
73992800 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 10 0.19
49 13 0.25
50 16 0.30
51 14 0.26
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCAAGTTATT
Found at i:73992783 original size:24 final size:24
Alignment explanation
Indices: 73992692--73992799 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
73992682 AGGAAGTGCA
* *
73992692 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
73992716 GAAAAGGGCTTTTGCCCAAGTTTATT
1 -AAAAGGGC-TTTGCCCCAGTTTATC
73992742 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGC-TTTGCCCCAGTTTATC
*
73992767 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
73992790 AAAAGAGGCT
1 AAAAG-GGCT
73992800 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.12
24 14 0.19
25 39 0.53
26 12 0.16
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:73993046 original size:31 final size:31
Alignment explanation
Indices: 73993008--73993071 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
73992998 CATTTACAAT
73993008 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
73993039 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
73993070 AA
1 AA
73993072 CATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:73998669 original size:28 final size:27
Alignment explanation
Indices: 73998606--73998675 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
73998596 ATAGTGAGTC
73998606 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
73998633 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73998661 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73998676 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:74003643 original size:20 final size:20
Alignment explanation
Indices: 74003618--74003664 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
74003608 GATTTGATTT
74003618 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
74003638 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
74003658 ACATGAT
1 ACATGAT
74003665 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:74003828 original size:24 final size:25
Alignment explanation
Indices: 74003712--74003844 Score: 191
Period size: 25 Copynumber: 5.4 Consensus size: 25
74003702 AGGAAGTGTA
* **
74003712 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTA-TT
74003737 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
74003762 AAAAGGGCTTTTGCCCCAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
74003787 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
74003812 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
74003835 AAAAGAGGCT
1 AAAAG-GGCT
74003845 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
23 9 0.09
24 13 0.13
25 65 0.65
26 13 0.13
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:74004091 original size:31 final size:31
Alignment explanation
Indices: 74004053--74004116 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
74004043 CATTTACAGT
*
74004053 AAAGGCTTTGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
74004084 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
74004115 AA
1 AA
74004117 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:74006253 original size:39 final size:39
Alignment explanation
Indices: 74006210--74006284 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
74006200 AATGCTATGC
*
74006210 TTGAATTGAAAATTCTATATTATTATTGCATGAATGGCT
1 TTGAATTGAAAATTCTATATTATTATTGCACGAATGGCT
*
74006249 TTGAATTGAAAATTCTATATTGTTATTGCACGAATG
1 TTGAATTGAAAATTCTATATTATTATTGCACGAATG
74006285 AAATGATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (39 bp):
TTGAATTGAAAATTCTATATTATTATTGCACGAATGGCT
Found at i:74007032 original size:50 final size:50
Alignment explanation
Indices: 74006690--74007022 Score: 328
Period size: 50 Copynumber: 6.6 Consensus size: 50
74006680 ATTGTGAGAA
* * * ** *
74006690 CACACGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATTGTTAGGT
* *
74006742 CACATGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * * * *
74006792 CGCATGTGTAGTACTAAGTGCAAGCTATTATGCGTACCTGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* ** * * *
74006843 CACGTGTACAGTACTAATTGCAAGCTACTACGTGTACCAGATTGTTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
74006893 CGCATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCC-GATGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGT
* *
74006943 TACATGTGTTGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
74006993 CGCATGTGTAGTTCTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
74007023 TACGTACCAG
Statistics
Matches: 227, Mismatches: 50, Indels: 10
0.79 0.17 0.03
Matches are distributed among these distances:
49 5 0.02
50 153 0.67
51 40 0.18
52 29 0.13
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:74010793 original size:15 final size:15
Alignment explanation
Indices: 74010773--74010832 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
74010763 TATGATATTG
74010773 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
74010788 TATCTTGGATTTCTC
1 TATCTTGGATTTCTT
*
74010803 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
74010818 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
74010833 GTTATTTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:74013412 original size:39 final size:39
Alignment explanation
Indices: 74013369--74013446 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
74013359 CAATGCTATG
74013369 TTTGAATTGAAAATTCTATATTATTATTGCACGAATGGC
1 TTTGAATTGAAAATTCTATATTATTATTGCACGAATGGC
74013408 TTTGAATTGAAAATTCTATATTATTATTGCACGAATGGC
1 TTTGAATTGAAAATTCTATATTATTATTGCACGAATGGC
74013447 ATGATTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (39 bp):
TTTGAATTGAAAATTCTATATTATTATTGCACGAATGGC
Found at i:74014090 original size:50 final size:50
Alignment explanation
Indices: 74013857--74014244 Score: 294
Period size: 50 Copynumber: 7.7 Consensus size: 50
74013847 GAACACATTA
* *** * * *
74013857 GTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCTCATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACATGT
* * ** * *
74013909 GTAGTACTAAGTCCAGACTACTACATGTACTAGATTGTTAGGTCACATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGT
** * * **
74013959 GTAGTACTAAGTGCAGGCTACTATGCATACCCA-ATAGCTTCGATCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAG-TTAGGTCACATGT
* * * * * * * *
74014010 TTAGTACTAAGTGTATGCTACCACGTGTACCAGATTGTTAGGTCGCATAT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGT
* * * * * * *
74014060 GTAGTACTAAGTGCAGCCGACTATGCGTACCCGATAGCTTCGATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-TTAGGTCACATGT
* * * **
74014111 GTAGTGCTAAGTGCAGGCTACTATGTGTATTC-GATGGTTAGGTCATGTGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAGTTAGGTCACATGT
* * * * **
74014161 GTTGTACTAAGTGTAGGCTACTACGTGTACCAGATGGTTAGGTCGTATGT
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGT
*
74014211 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
74014245 GAGCTTCAGT
Statistics
Matches: 258, Mismatches: 72, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
49 1 0.00
50 156 0.60
51 73 0.28
52 28 0.11
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
GTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACATGT
Found at i:74014159 original size:151 final size:152
Alignment explanation
Indices: 74013951--74014251 Score: 408
Period size: 151 Copynumber: 2.0 Consensus size: 152
74013941 GATTGTTAGG
*
74013951 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAGCTTCGATCATGTGT-TTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAGCTTAGATCATGTGTGTT-GT
* *
74014015 ACTAAGTGTATGCTACCACGTGTACCAGATTGTTAGGTCGCATATGTAGTACTAAGTGCAGCCGA
65 ACTAAGTGTAGGCTACCACGTGTACCAGATGGTTAGGTCGCATATGTAGTACTAAGTGCAGCCGA
* *
74014080 CTATGCGTACCCGATAGCTTCGA
130 CTATGCGTACCAGAGAGCTTCGA
* * ** ** * * *
74014103 TCACGTGTGTAGTGCTAAGTGCAGGCTACTATGTGTATTCGAT-GGTTAGGTCATGTGTGTTGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAGCTTAGATCATGTGTGTTGTA
* * * * *
74014167 CTAAGTGTAGGCTACTACGTGTACCAGATGGTTAGGTCGTATGTGTAGTACTAAGTGCAGGCTAC
66 CTAAGTGTAGGCTACCACGTGTACCAGATGGTTAGGTCGCATATGTAGTACTAAGTGCAGCCGAC
74014232 TATGCGTACCAGAGAGCTTC
131 TATGCGTACCAGAGAGCTTC
74014252 AGTTACAAGG
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
151 91 0.71
152 38 0.29
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (152 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCAATAGCTTAGATCATGTGTGTTGTA
CTAAGTGTAGGCTACCACGTGTACCAGATGGTTAGGTCGCATATGTAGTACTAAGTGCAGCCGAC
TATGCGTACCAGAGAGCTTCGA
Found at i:74014191 original size:101 final size:100
Alignment explanation
Indices: 74013906--74014233 Score: 343
Period size: 101 Copynumber: 3.3 Consensus size: 100
74013896 TTAGGTCTCA
* * * *
74013906 TGTGTAGTACTAAGTCCAGACTACTACATGTACTAGATTGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATTGTTAGGTCACATGTGTAGTACTAAGT
* *
74013971 GCAGGCTACTATGCATACCCAATAGCTTCGATCATG
65 GCAGGCTACTATGCGTACCCGATAGCTTCGATCATG
* * * * * * *
74014007 TGTTTAGTACTAAGTGTATGCTACCACGTGTACCAGATTGTTAGGTCGCATATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATTGTTAGGTCACATGTGTAGTACTAAGT
* * *
74014072 GCAGCCGACTATGCGTACCCGATAGCTTCGATCACG
65 GCAGGCTACTATGCGTACCCGATAGCTTCGATCATG
* * * ** *
74014108 TGTGTAGTGCTAAGTGCAGGCTACTATGTGTATTCGATGGTTAGGTCATGTGTGTTGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCGATTGTTAGGTCACATGTGTAGTACTAAGT
* * * * * * * * *
74014173 GTAGGCTACTACGTGTACCAGAT-GGTTAGGTCGTA
65 GCAGGCTACTATGCGTACCCGATAGCTTCGATCATG
74014208 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
74014234 TGCGTACCAG
Statistics
Matches: 183, Mismatches: 42, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
100 31 0.17
101 151 0.83
102 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATTGTTAGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCCGATAGCTTCGATCATG
Found at i:74016894 original size:28 final size:28
Alignment explanation
Indices: 74016858--74016916 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
74016848 TAGAGGTATA
74016858 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
74016886 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
74016914 TCG
1 TCG
74016917 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:74017566 original size:27 final size:27
Alignment explanation
Indices: 74017536--74017597 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
74017526 GGGGAAAATG
74017536 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
74017563 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
74017590 GTAATTTT
1 GTAATTTT
74017598 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:74017611 original size:54 final size:54
Alignment explanation
Indices: 74017553--74017703 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
74017543 TACCCCACAA
** * * *
74017553 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
74017607 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
74017661 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
74017704 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:74017639 original size:81 final size:81
Alignment explanation
Indices: 74017551--74017703 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
74017541 TTTACCCCAC
** *
74017551 AAGGGTATTTCAGTAATTTTACCCTA-CAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATT
1 AAGGGTATTTCAGTAATTTTA-CAAACCAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATT
74017614 TTGGTAATTTTATAAACA
64 TTGGTAATTTTATAAACA
* * *
74017632 AAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTT
1 AAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
74017697 GGTAATT
66 GGTAATT
74017704 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:74017710 original size:27 final size:27
Alignment explanation
Indices: 74017580--74017703 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
74017570 TACCCTACAG
* *
74017580 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
74017607 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
74017634 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
74017661 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
74017688 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
74017704 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:74017717 original size:27 final size:27
Alignment explanation
Indices: 74017687--74017757 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
74017677 TTATAAACCA
* *
74017687 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
74017714 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
74017741 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
74017758 TTACAAGTTG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:74017719 original size:54 final size:54
Alignment explanation
Indices: 74017580--74017703 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
74017570 TACCCTACAG
* *
74017580 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
74017634 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
74017688 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
74017704 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:74017729 original size:81 final size:81
Alignment explanation
Indices: 74017577--74017730 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
74017567 TTTTACCCTA
* * ***
74017577 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
74017642 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
74017658 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
74017722 ACGGTAATT
65 ACAGTAATT
74017731 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:74018590 original size:21 final size:21
Alignment explanation
Indices: 74018566--74018609 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
74018556 TTTGTGTCAC
74018566 AATTTCTCCAACAATATTCTT
1 AATTTCTCCAACAATATTCTT
74018587 AATTTCTCCAACAATATTCTT
1 AATTTCTCCAACAATATTCTT
74018608 AA
1 AA
74018610 GGCCTACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTCTCCAACAATATTCTT
Found at i:74028290 original size:13 final size:13
Alignment explanation
Indices: 74028272--74028301 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
74028262 GTTTAAAAAC
74028272 TTTTTATTTATTA
1 TTTTTATTTATTA
74028285 TTTTTATTTATTA
1 TTTTTATTTATTA
74028298 TTTT
1 TTTT
74028302 CACTTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:74032330 original size:29 final size:27
Alignment explanation
Indices: 74032296--74032398 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
74032286 TACTCAATCA
*
74032296 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
74032325 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
74032354 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
74032383 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
74032399 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:74035932 original size:40 final size:40
Alignment explanation
Indices: 74035873--74036041 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
74035863 CGGGACTTTA
* * *
74035873 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
74035913 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
74035953 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
74035993 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
74036033 CCCGGATAT
1 CCCGGATAT
74036042 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:74043922 original size:40 final size:40
Alignment explanation
Indices: 74043863--74043993 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
74043853 CGGGACTTTA
* * *
74043863 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
74043903 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
74043943 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
74043983 CCCGGATATAA
1 CCCGGATATAA
74043994 AGCATAATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:74044010 original size:35 final size:37
Alignment explanation
Indices: 74043880--74044026 Score: 147
Period size: 40 Copynumber: 3.9 Consensus size: 37
74043870 ATCACGATTT
* * *
74043880 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-AC-AC-A
74043920 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-C-AC-A
*
74043960 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-A-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATACACA
* * *
74043995 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
74044027 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
35 29 0.30
37 1 0.01
39 3 0.03
40 61 0.64
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (37 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATACACA
Found at i:74053379 original size:40 final size:40
Alignment explanation
Indices: 74053313--74053479 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
74053303 AAATTGAATG
* * *
74053313 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
74053352 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
74053392 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
74053432 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
74053472 ATATCCGG
1 ATATCCGG
74053480 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:74058102 original size:49 final size:50
Alignment explanation
Indices: 74058022--74058254 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
74058012 ATCTATTATG
* *
74058022 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
74058072 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * **
74058122 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
74058172 AGGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
74058222 -GGTCACATGTGTAGTACTAAATACAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
74058255 TGCGTACTAG
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 70 0.45
50 47 0.30
51 38 0.25
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:74058159 original size:28 final size:28
Alignment explanation
Indices: 74058127--74058210 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
74058117 AACTTCGATC
74058127 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
74058155 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
74058177 ACGTGTGTAGTACTAAGTGCATGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
74058205 ACGTGT
1 ACGTGT
74058211 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:74060118 original size:40 final size:40
Alignment explanation
Indices: 74060033--74060183 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
74060023 AATTGAATGA
* * *
74060033 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
74060073 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
74060114 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
74060153 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
74060184 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:74060197 original size:40 final size:40
Alignment explanation
Indices: 74060070--74060199 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
74060060 ATGCTGGAAA
* * * *
74060070 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
74060110 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
74060150 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
74060190 TTATATCCGG
1 TTATATCCGG
74060200 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:74078512 original size:30 final size:30
Alignment explanation
Indices: 74078478--74078555 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
74078468 TGAGCTACAA
74078478 TGAGCTAAGCTTTAGC-CCTTAAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCC-TAAGCTAAAGT
* * *
74078508 TGAGCTGAGACTATA-CTCCTAAGCTGAAGT
1 TGAGCTAAG-CTTTAGCTCCTAAGCTAAAGT
*
74078538 TGAGCTAAGGTTTAGCTC
1 TGAGCTAAGCTTTAGCTC
74078556 GTGAGCTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.08
30 30 0.77
31 6 0.15
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCCTAAGCTAAAGT
Found at i:74081792 original size:93 final size:93
Alignment explanation
Indices: 74081680--74081851 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
74081670 GCCCATAAGT
* *
74081680 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
74081745 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
74081773 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74081838 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
74081852 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:74081847 original size:46 final size:46
Alignment explanation
Indices: 74081672--74081847 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
74081662 TGTAACCCGC
* *
74081672 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
74081718 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
74081768 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
74081811 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
74081848 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:74083602 original size:29 final size:29
Alignment explanation
Indices: 74083569--74083651 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
74083559 TCCTTTTGTT
*
74083569 TCAAATTTTTTTCATCTTCTTTTTCACTC
1 TCAAATTTTTTTCATCTTCTTTTTCAATC
*
74083598 TCAAATTTCTTTTC--GTTCTCTTTTCAATC
1 TCAAATTT-TTTTCATCTTCT-TTTTCAATC
** *
74083627 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAAATT-TTTTTCATCTTCTTTTT
74083652 GCTTTCAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 4 0.09
29 26 0.59
30 10 0.23
31 4 0.09
ACGTcount: A:0.14, C:0.22, G:0.01, T:0.63
Consensus pattern (29 bp):
TCAAATTTTTTTCATCTTCTTTTTCAATC
Found at i:74083635 original size:28 final size:28
Alignment explanation
Indices: 74083585--74083638 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
74083575 TTTTTTCATC
*
74083585 TTCTTTTTCACTCTCAAATTTCTTTTCG
1 TTCTTTTTCAATCTCAAATTTCTTTTCG
*
74083613 TTCTCTTTTCAATCTC-ATTTTCTTTT
1 TTCT-TTTTCAATCTCAAATTTCTTTT
74083639 TCATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.13, C:0.24, G:0.02, T:0.61
Consensus pattern (28 bp):
TTCTTTTTCAATCTCAAATTTCTTTTCG
Found at i:74083642 original size:12 final size:12
Alignment explanation
Indices: 74083627--74083651 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74083617 CTTTTCAATC
74083627 TCATTTTCTTTT
1 TCATTTTCTTTT
74083639 TCATTTTCTTTT
1 TCATTTTCTTTT
74083651 T
1 T
74083652 GCTTTCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:74084704 original size:12 final size:12
Alignment explanation
Indices: 74084687--74084727 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
74084677 AAAACACCTT
74084687 TTTTTTTCGAAA
1 TTTTTTTCGAAA
74084699 -TTTTTTCGAAA
1 TTTTTTTCGAAA
*
74084710 TTTTTTTTGAAA
1 TTTTTTTCGAAA
74084722 TTTTTT
1 TTTTTT
74084728 ATACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.22, C:0.05, G:0.07, T:0.66
Consensus pattern (12 bp):
TTTTTTTCGAAA
Found at i:74084713 original size:10 final size:11
Alignment explanation
Indices: 74084688--74084727 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
74084678 AAACACCTTT
74084688 TTTTTTCGAAA
1 TTTTTTCGAAA
74084699 TTTTTTCGAAA
1 TTTTTTCGAAA
*
74084710 TTTTTTTTGAAA
1 -TTTTTTCGAAA
74084722 TTTTTT
1 TTTTTT
74084728 ATACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (11 bp):
TTTTTTCGAAA
Found at i:74088457 original size:30 final size:28
Alignment explanation
Indices: 74088423--74088504 Score: 74
Period size: 30 Copynumber: 2.8 Consensus size: 28
74088413 CTTATGTTTC
*
74088423 AATTTTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTTTTTTCAT-TTCTTTTTCAATCT-A
* * *
74088453 AATTTCTTTTCGTTCTCTTTTTCAATCTT
1 AATTTTTTTTCATT-TCTTTTTCAATCTA
*
74088482 ATTTTCTTTTTCATTTTCTTTTT
1 AATTT-TTTTTCA-TTTCTTTTT
74088505 GCTTTCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 5 0.12
30 35 0.83
31 2 0.05
ACGTcount: A:0.13, C:0.20, G:0.01, T:0.66
Consensus pattern (28 bp):
AATTTTTTTTCATTTCTTTTTCAATCTA
Found at i:74088612 original size:15 final size:14
Alignment explanation
Indices: 74088590--74088619 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
74088580 TTTTATTTCA
74088590 TTTTCTTTTTCTTT
1 TTTTCTTTTTCTTT
74088604 TTTTGCTTTTTCTTT
1 TTTT-CTTTTTCTTT
74088619 T
1 T
74088620 CGTTTCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTTCTTT
Found at i:74088629 original size:21 final size:20
Alignment explanation
Indices: 74088590--74088633 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
74088580 TTTTATTTCA
*
74088590 TTTTCTTTTTCTTTTTTTGCT
1 TTTTCTTTTTCTTTCTTTG-T
74088611 TTTTC-TTTTCGTTTCTTTGT
1 TTTTCTTTTTC-TTTCTTTGT
74088631 TTT
1 TTT
74088634 CCCTTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTCTTTTTCTTTCTTTGT
Found at i:74089558 original size:12 final size:12
Alignment explanation
Indices: 74089541--74089584 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
74089531 ATAAAACACC
74089541 TTTTTTTTCAAA
1 TTTTTTTTCAAA
* *
74089553 TTTTTTTTGAAT
1 TTTTTTTTCAAA
74089565 TTTTTTTTCAAA
1 TTTTTTTTCAAA
74089577 TTTTTTTT
1 TTTTTTTT
74089585 ATACTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:74089592 original size:24 final size:24
Alignment explanation
Indices: 74089540--74089596 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
74089530 CATAAAACAC
74089540 CTTTTTTTTCAAATTTTTTTTGAA
1 CTTTTTTTTCAAATTTTTTTTGAA
*
74089564 TTTTTTTTTCAAATTTTTTTT-ATA
1 CTTTTTTTTCAAATTTTTTTTGA-A
74089588 CTTTTTTTT
1 CTTTTTTTT
74089597 ATAACTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (24 bp):
CTTTTTTTTCAAATTTTTTTTGAA
Found at i:74092833 original size:21 final size:20
Alignment explanation
Indices: 74092798--74092837 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
74092788 TGCAGGGCTC
*
74092798 ACGCGCCCATCTGGTCTAGGG
1 ACGCGCCCATATGGT-TAGGG
*
74092819 ACGCGCCCGTATGGTTAGG
1 ACGCGCCCATATGGTTAGG
74092838 CTGTGTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (20 bp):
ACGCGCCCATATGGTTAGGG
Found at i:74097788 original size:36 final size:36
Alignment explanation
Indices: 74097737--74097809 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
74097727 ACTAAGGACA
*
74097737 ATCCAATTGTTATTTGATTACAAGAGAATTCTTCTT
1 ATCCAATTGTCATTTGATTACAAGAGAATTCTTCTT
74097773 ATCCAATTGTCATTTGATTACAAGAGAATTCTTCTT
1 ATCCAATTGTCATTTGATTACAAGAGAATTCTTCTT
74097809 A
1 A
74097810 CTTTCATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (36 bp):
ATCCAATTGTCATTTGATTACAAGAGAATTCTTCTT
Found at i:74104012 original size:43 final size:43
Alignment explanation
Indices: 74103876--74104044 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
74103866 ATAAGGCTCG
* * * *
74103876 TACAATGCC-ATATCCCAGATATAGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * *** *
74103917 TATCAATGTCACTGTCCCAGACAGGGTCTTACACAAAATC-GAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
*
74103960 TA-ATGATGCCAATGTCCCAGACATGGTCTTACAGGTAATCACAA
1 TACA--ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
**
74104004 TACAATGCCAATGTCCCA-ATGTGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
74104045 TCTCGATAGC
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
41 3 0.03
42 26 0.26
43 66 0.66
44 4 0.04
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:74109430 original size:46 final size:46
Alignment explanation
Indices: 74109380--74109555 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
74109370 TGGTTGAGCA
74109380 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
74109426 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
74109471 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
74109519 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74109556 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:74109536 original size:93 final size:93
Alignment explanation
Indices: 74109377--74109547 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
74109367 GGATGGTTGA
* * *
74109377 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
74109442 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
74109470 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
74109535 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
74109548 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74113798 original size:43 final size:43
Alignment explanation
Indices: 74113727--74113894 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
74113717 AAGGCTCGTA
* * * *
74113727 CAATGCC-ATATCCCAGATATAGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
* * * ***
74113769 CAATGCCACTGTCCTAGACAGGGTCTTACACAAAATCGA-ATAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACAT-AT
* *
74113813 -GATGCCAATGTCCCAGACATGGTCTTACAGGTAATCACA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
74113854 ACAATGCCAATGTCCCA-ACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
74113895 CTCGATAGCC
Statistics
Matches: 100, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 65 0.65
44 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT
Found at i:74115501 original size:43 final size:42
Alignment explanation
Indices: 74115434--74115543 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 42
74115424 GCCATATCTT
* * ** * *
74115434 AGATATGGTCTTATATGGGATCTCATATCGATGCCAATAGCCT
1 AGATATGGTCTTACACGTAATCTCACATCGATGCC-ATAGCCC
* * *
74115477 AGGTATGGTCTTACACG-AAGTCTCACATTGATGCCATATCCC
1 AGATATGGTCTTACACGTAA-TCTCACATCGATGCCATAGCCC
74115519 AGATATGGTCTTACACGTAATCTCA
1 AGATATGGTCTTACACGTAATCTCA
74115544 ACTAACCCTA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (42 bp):
AGATATGGTCTTACACGTAATCTCACATCGATGCCATAGCCC
Found at i:74118544 original size:2 final size:2
Alignment explanation
Indices: 74118537--74118562 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
74118527 CACATTCGGC
74118537 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
74118563 AATGTATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74119149 original size:28 final size:28
Alignment explanation
Indices: 74119117--74119186 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
74119107 AATGAGATTG
*
74119117 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
74119145 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
74119173 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
74119187 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:74126422 original size:2 final size:2
Alignment explanation
Indices: 74126415--74126441 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
74126405 CACATTCGGC
74126415 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
74126442 GCCCATTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74127050 original size:27 final size:28
Alignment explanation
Indices: 74126985--74127053 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
74126975 AATGAGATTG
*
74126985 GCACTAAGTGTGCGAGTTTAATTGTATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
74127013 GCACTAAGTGTGCGAGTTTGATTATA-A
1 GCACTAAGTGTGCGAGTTTAATTATATA
74127040 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
74127054 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 15 0.38
28 24 0.62
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:74134550 original size:29 final size:29
Alignment explanation
Indices: 74134517--74134604 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
74134507 GTGACGAGAT
74134517 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
74134546 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
74134575 AGGCACTAAGTGTGCATGCTGGAAAATATA
1 TGGCACTAAGTGTGCGTGCTGG-AAATATA
74134605 ACACTATGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
29 49 0.88
30 7 0.12
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:74134638 original size:29 final size:28
Alignment explanation
Indices: 74134518--74134638 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 28
74134508 TGACGAGATT
* *
74134518 GGCACTAAGTGTGCGTGCTGGAAATATA
1 GGCACTAAGTGTGCATGCTGGAAAAATA
* *
74134546 TGGCACTAAGTGTGCGTGCTGGAAATATAA
1 -GGCACTAAGTGTGCATGCTGGAAAAAT-A
74134576 GGCACTAAGTGTGCATGCTGGAAAATATA
1 GGCACTAAGTGTGCATGCTGGAAAA-ATA
* * * *
74134605 -ACACTATGTGCGCAAGCTGGAAAAATA
1 GGCACTAAGTGTGCATGCTGGAAAAATA
74134632 CGGCACT
1 -GGCACT
74134639 GGGTGTGCGA
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
27 3 0.04
28 20 0.25
29 55 0.68
30 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (28 bp):
GGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:74134646 original size:57 final size:58
Alignment explanation
Indices: 74134518--74134638 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 58
74134508 TGACGAGATT
* ** * ** *
74134518 GGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGCGCAAGCTGGAAAAATAA
* *
74134576 GGCACTAAGTGTGCATGCTGGAAA-ATATAACACTATGTGCGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGCGCAAGCTGGAAAAATAA
74134633 GGCACT
1 GGCACT
74134639 GGGTGTGCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
57 31 0.57
58 23 0.43
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (58 bp):
GGCACTAAGTGTGCATGCTGGAAATATATAACACTAAGTGCGCAAGCTGGAAAAATAA
Found at i:74140999 original size:42 final size:42
Alignment explanation
Indices: 74140952--74141073 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
74140942 TACCATACCA
* * *
74140952 ATGTCATATCTCAGATATGGTCTGACATGTGATCTCACATCG
1 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCACATCG
* * * *
74140994 ATGTCAATAGCCCAGTTATGGTCTTATACG-AAGTCTCACATCG
1 ATGTC-ATATCCCAGATATGGTCTTACATGTAA-TCTCACATCG
*
74141037 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCA
74141074 ACAAACGCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACATGTAATCTCACATCG
Found at i:74142708 original size:3 final size:3
Alignment explanation
Indices: 74142700--74142736 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
74142690 TGATTCCATA
74142700 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
74142737 TAGAATGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:74150451 original size:46 final size:44
Alignment explanation
Indices: 74150347--74150454 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
74150337 TGTCTTTGAC
** * * *
74150347 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
74150391 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
74150437 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
74150455 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:74157838 original size:46 final size:44
Alignment explanation
Indices: 74157734--74157841 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
74157724 TGTCTTTGAC
** * * *
74157734 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
74157778 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
74157824 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
74157842 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:74162113 original size:24 final size:23
Alignment explanation
Indices: 74162084--74162131 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
74162074 GCTTAAATGT
* *
74162084 TATGTGATTATATGTGTAATGTGA
1 TATGTGATTAAAAGTG-AATGTGA
*
74162108 TATGTGCTTAAAAGTGAATGTGA
1 TATGTGATTAAAAGTGAATGTGA
74162131 T
1 T
74162132 TACCATGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (23 bp):
TATGTGATTAAAAGTGAATGTGA
Found at i:74175404 original size:14 final size:14
Alignment explanation
Indices: 74175385--74175417 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
74175375 AGTTAAAAGG
74175385 GCAAGAATGGTAGA
1 GCAAGAATGGTAGA
74175399 GCAAGAATGGTAGA
1 GCAAGAATGGTAGA
74175413 GCAAG
1 GCAAG
74175418 TTCTGGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.36, T:0.12
Consensus pattern (14 bp):
GCAAGAATGGTAGA
Found at i:74177746 original size:22 final size:22
Alignment explanation
Indices: 74177721--74177765 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
74177711 TAAAGGGGAG
74177721 TAAGCTATATAGCTTAGTAAGT
1 TAAGCTATATAGCTTAGTAAGT
74177743 TAAGCTATATAGCTTAGTAAGT
1 TAAGCTATATAGCTTAGTAAGT
74177765 T
1 T
74177766 CCTATGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
TAAGCTATATAGCTTAGTAAGT
Found at i:74185321 original size:15 final size:16
Alignment explanation
Indices: 74185301--74185330 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
74185291 AAGGTCTTAT
74185301 AATCATAA-CTTACTC
1 AATCATAACCTTACTC
74185316 AATCATAACCTTACT
1 AATCATAACCTTACT
74185331 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:74185621 original size:42 final size:42
Alignment explanation
Indices: 74185505--74185621 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
74185495 GTACCAATGT
* * * **
74185505 CATATCCCAGATATGGTCTTACATGTGATTTTGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
* * *
74185547 CAATAGCCCAGCTATGGT-TTACAC-AAAGTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGC
74185589 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
74185622 GTAACCCTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 15 0.25
42 29 0.48
43 16 0.27
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
Found at i:74191625 original size:145 final size:145
Alignment explanation
Indices: 74191362--74191653 Score: 566
Period size: 145 Copynumber: 2.0 Consensus size: 145
74191352 AATGCTCAGA
74191362 ATTGAGCACACGAACATGTGCCTCAACTGTGTGGTTGACACGGCCTTGAACACGAGCATGTTACA
1 ATTGAGCACACGAACATGTGCCTCAACTGTGTGGTTGACACGGCCTTGAACACGAGCATGTTACA
74191427 CGACCGTGTGAAAACTGCACCTAATTTCGAAAATAAAAATTTGCCACACGGCCTAGCACACAGGC
66 CGACCGTGTGAAAACTGCACCTAATTTCGAAAATAAAAATTTGCCACACGGCCTAGCACACAGGC
74191492 ATGTGACTTGGTCGT
131 ATGTGACTTGGTCGT
74191507 ATTGAGCACACGAACATGTGCCTCAACTGTGTGGTTGACACGGCCTTGAACACGAGCATGTTACA
1 ATTGAGCACACGAACATGTGCCTCAACTGTGTGGTTGACACGGCCTTGAACACGAGCATGTTACA
* *
74191572 CGACTGTGTGAAAACTGCACCTAATTTCGAAAATAAAAATTTGCCACACGGCCTAGCACACATGC
66 CGACCGTGTGAAAACTGCACCTAATTTCGAAAATAAAAATTTGCCACACGGCCTAGCACACAGGC
74191637 ATGTGACTTGGTCGT
131 ATGTGACTTGGTCGT
74191652 AT
1 AT
74191654 GACTCCAATT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (145 bp):
ATTGAGCACACGAACATGTGCCTCAACTGTGTGGTTGACACGGCCTTGAACACGAGCATGTTACA
CGACCGTGTGAAAACTGCACCTAATTTCGAAAATAAAAATTTGCCACACGGCCTAGCACACAGGC
ATGTGACTTGGTCGT
Found at i:74192812 original size:15 final size:15
Alignment explanation
Indices: 74192794--74192824 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
74192784 ATCTCTCATC
74192794 TATCTATCTATTTTT
1 TATCTATCTATTTTT
74192809 TATCTATCTATTTTT
1 TATCTATCTATTTTT
74192824 T
1 T
74192825 CTTTAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (15 bp):
TATCTATCTATTTTT
Found at i:74194901 original size:35 final size:33
Alignment explanation
Indices: 74194872--74194947 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
74194862 CTTAAAGTTA
74194872 AAATATATATATTATAATATTATATCTTAATTATT
1 AAATATATATATTATAATA-TATATCTTAATTA-T
* * *
74194907 AAGTATATATATTATATTATATAT-TATAATAAGT
1 AAATATATATATTATAATATATATCT-TAATTA-T
74194941 AAATATA
1 AAATATA
74194948 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 1 0.03
34 17 0.49
35 17 0.49
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
AAATATATATATTATAATATATATCTTAATTAT
Found at i:74194947 original size:30 final size:32
Alignment explanation
Indices: 74194888--74194947 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
74194878 ATATATTATA
* * *
74194888 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
74194920 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
74194948 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:74198586 original size:49 final size:49
Alignment explanation
Indices: 74198529--74198639 Score: 168
Period size: 49 Copynumber: 2.3 Consensus size: 49
74198519 TTTTATTTTT
* *
74198529 TTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAATC
1 TTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAATC
* * *
74198578 TTTATGTAATTTGTTTGTCATATGTGTTTTAGGTTTATTAGATTTATTT
1 TTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAATC
*
74198627 TTTATATAATTTA
1 TTTATGTAATTTA
74198640 ATTGGCATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (49 bp):
TTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAATC
Found at i:74200286 original size:19 final size:19
Alignment explanation
Indices: 74200262--74200301 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
74200252 TTTTCTAACG
74200262 ATACTATTCTAGCAATACT
1 ATACTATTCTAGCAATACT
74200281 ATACTATTCTAGCAATACT
1 ATACTATTCTAGCAATACT
74200300 AT
1 AT
74200302 TCTAACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (19 bp):
ATACTATTCTAGCAATACT
Found at i:74201430 original size:49 final size:49
Alignment explanation
Indices: 74201380--74201667 Score: 440
Period size: 49 Copynumber: 5.9 Consensus size: 49
74201370 TAATTGTAAT
*
74201380 ATTAAAACTTGGAACAAACTTTGT-AGTCATAAATTAGATACATTACAAT
1 ATTAAAACTTGGAACAAACTTTGTGA-TCATAAATTAGATACATTACAAC
74201429 ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGATACATTACAAC
* * *
74201478 ATTAAAACTTAGAATAAACTTTGTGATCATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGATACATTACAAC
74201527 ATTAAAACTTGGAACAAACTTTGTTG-TCATAAATTAGATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTG-TGATCATAAATTAGATACATTACAAC
*
74201576 ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGGTACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGATACATTACAAC
* * * *
74201625 ATTAAAA-TGAGGAACAAACTTTGTAAT-TTAAATTAGGTACATT
1 ATTAAAACT-TGGAACAAACTTTGTGATCATAAATTAGATACATT
74201668 GGATTACATA
Statistics
Matches: 224, Mismatches: 11, Indels: 9
0.92 0.05 0.04
Matches are distributed among these distances:
48 18 0.08
49 203 0.91
50 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.32
Consensus pattern (49 bp):
ATTAAAACTTGGAACAAACTTTGTGATCATAAATTAGATACATTACAAC
Found at i:74205292 original size:12 final size:12
Alignment explanation
Indices: 74205277--74205301 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74205267 AATAACTTTC
74205277 AAATATATTAAA
1 AAATATATTAAA
74205289 AAATATATTAAA
1 AAATATATTAAA
74205301 A
1 A
74205302 CATAACATTC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATATTAAA
Found at i:74219406 original size:62 final size:62
Alignment explanation
Indices: 74219335--74219459 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
74219325 ATTTATACAT
*
74219335 TAGAGATAGAAAGTATTGATGAAGTGTGACATGAAGAAATACCAAATTTTCGAGTGAGTGAG
1 TAGAGATAGAAAGTATTGATGAAGTGTGACATGAAGAAATACCAAATTTTCAAGTGAGTGAG
74219397 TAGAGATAGAAAGTATTGATGAAGTGTGACATGAAGAAATACCAAATTTTCAAGTGAGTGAG
1 TAGAGATAGAAAGTATTGATGAAGTGTGACATGAAGAAATACCAAATTTTCAAGTGAGTGAG
74219459 T
1 T
74219460 GAATATGATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.26
Consensus pattern (62 bp):
TAGAGATAGAAAGTATTGATGAAGTGTGACATGAAGAAATACCAAATTTTCAAGTGAGTGAG
Found at i:74219452 original size:30 final size:30
Alignment explanation
Indices: 74219356--74219452 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
74219346 AGTATTGATG
74219356 AAGTGTGACATGAAGAAATACCAAATTTTC
1 AAGTGTGACATGAAGAAATACCAAATTTTC
* * ** * * * *
74219386 GAGTGAGTGA-GTAGAGATA-GAAAGTATTGATG
1 AAGTGTGACATGAAGAAATACCAAA-T-TT--TC
74219418 AAGTGTGACATGAAGAAATACCAAATTTTC
1 AAGTGTGACATGAAGAAATACCAAATTTTC
74219448 AAGTG
1 AAGTG
74219453 AGTGAGTGAA
Statistics
Matches: 45, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
28 3 0.07
29 8 0.18
30 14 0.31
32 9 0.20
33 8 0.18
34 3 0.07
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (30 bp):
AAGTGTGACATGAAGAAATACCAAATTTTC
Found at i:74220648 original size:11 final size:11
Alignment explanation
Indices: 74220632--74220661 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
74220622 GGTCATAAGG
74220632 ATTTGAATTGA
1 ATTTGAATTGA
74220643 ATTTGAATTGA
1 ATTTGAATTGA
74220654 ATTTGAAT
1 ATTTGAAT
74220662 GGGGAGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (11 bp):
ATTTGAATTGA
Found at i:74222559 original size:53 final size:51
Alignment explanation
Indices: 74222390--74222576 Score: 198
Period size: 53 Copynumber: 3.5 Consensus size: 51
74222380 GGACGTTAAG
* * *
74222390 ACCCCAATTTGAAAAATTACTGAAATATCCCATG--TTGTAAAATTATCGAAAT
1 ACCCCAATTTGTAAAATTACCGAAATAT-CC-TGACTTGTAAAATTA-CAAAAT
** * *
74222442 ACCCTTGATTTGTGAAATTACCGAAATACCCTCGACTTGTAAAATTACTAAAAT
1 ACCC-CAATTTGTAAAATTACCGAAATATCCT-GACTTGTAAAATTAC-AAAAT
*
74222496 ACACCCAATTTGTAAAATTACCAAAATATCCTGACTTGTAAAATTACAAAAAT
1 AC-CCCAATTTGTAAAATTACCGAAATATCCTGACTTGTAAAATTAC-AAAAT
*
74222549 ACCCCTAATTTATAAAATTACCGAAATA
1 ACCCC-AATTTGTAAAATTACCGAAATA
74222577 CCCCTATGGG
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
51 1 0.01
52 10 0.09
53 61 0.54
54 39 0.35
55 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (51 bp):
ACCCCAATTTGTAAAATTACCGAAATATCCTGACTTGTAAAATTACAAAAT
Found at i:74222580 original size:27 final size:27
Alignment explanation
Indices: 74222390--74222608 Score: 155
Period size: 27 Copynumber: 8.2 Consensus size: 27
74222380 GGACGTTAAG
* *
74222390 ACCCC-AATTTGAAAAATTACTGAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
* *
74222416 ATCCC--ATGTTGTAAAATTATCGAAAT
1 ACCCCTAAT-TTGTAAAATTACCGAAAT
* * *
74222442 ACCCTTGATTTGTGAAATTACCGAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
* * **
74222469 A-CCCTCGACTTGTAAAATTACTAAAAT
1 ACCCCT-AATTTGTAAAATTACCGAAAT
*
74222496 ACACCC-AATTTGTAAAATTACCAAAAT
1 AC-CCCTAATTTGTAAAATTACCGAAAT
* * * **
74222523 A-TCCTGACTTGTAAAATTACAAAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
*
74222549 ACCCCTAATTTATAAAATTACCGAAAT
1 ACCCCTAATTTGTAAAATTACCGAAAT
** **
74222576 ACCCCT-ATGGGGTAGGATTACCGAAAT
1 ACCCCTAAT-TTGTAAAATTACCGAAAT
74222603 ACCCCT
1 ACCCCT
74222609 GTAGGGTAAA
Statistics
Matches: 153, Mismatches: 31, Indels: 17
0.76 0.15 0.08
Matches are distributed among these distances:
25 4 0.03
26 46 0.30
27 98 0.64
28 2 0.01
29 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
ACCCCTAATTTGTAAAATTACCGAAAT
Found at i:74222615 original size:27 final size:27
Alignment explanation
Indices: 74222565--74222616 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
74222555 AATTTATAAA
*
74222565 ATTACCGAAATACCCCTATGGGGTAGG
1 ATTACCGAAATACCCCTATAGGGTAGG
*
74222592 ATTACCGAAATACCCCTGTAGGGTA
1 ATTACCGAAATACCCCTATAGGGTA
74222617 AAATGATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
ATTACCGAAATACCCCTATAGGGTAGG
Found at i:74225024 original size:11 final size:11
Alignment explanation
Indices: 74225008--74225038 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
74224998 TGGTTATAAG
74225008 AATTTGAATTA
1 AATTTGAATTA
*
74225019 AATTTGAATTG
1 AATTTGAATTA
74225030 AATTTGAAT
1 AATTTGAAT
74225039 GGGGAGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (11 bp):
AATTTGAATTA
Found at i:74226450 original size:17 final size:17
Alignment explanation
Indices: 74226430--74226463 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
74226420 TTTTGGGTTA
74226430 AATGGGCC-GATGGGCCC
1 AATGGGCCTG-TGGGCCC
74226447 AATGGGCCTGTGGGCCC
1 AATGGGCCTGTGGGCCC
74226464 GCGTGGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (17 bp):
AATGGGCCTGTGGGCCC
Found at i:74226822 original size:27 final size:26
Alignment explanation
Indices: 74226790--74227003 Score: 205
Period size: 27 Copynumber: 7.9 Consensus size: 26
74226780 TAAGACCCCC
* *
74226790 GATTTGTAAAATTATCGAGATACCCTT
1 GATTTATAAAATTA-CGAAATACCCTT
* * *
74226817 GATTTGTGAAATTATCGAAATACCCCT
1 GATTTATAAAATTA-CGAAATACCCTT
* *
74226844 GATTTATGAAATTACCGAAATACCATT
1 GATTTATAAAATTA-CGAAATACCCTT
* *
74226871 GATTTATGAAATTACCGAAATACTCC-C
1 GATTTATAAAATTA-CGAAATAC-CCTT
* *
74226898 GACTTGTAAAATTACTGAAATACCCTT
1 GATTTATAAAATTAC-GAAATACCCTT
* *
74226925 AATTTATAAAATTACTGAAATACCCCT
1 GATTTATAAAATTAC-GAAATACCCTT
*
74226952 GATTTATAAAATTACTGAAATACCCTC
1 GATTTATAAAATTAC-GAAATACCCTT
*
74226979 GATTTATAAAATTACAGAAACACCC
1 GATTTATAAAATTAC-GAAATACCC
74227004 CTGTACGGTA
Statistics
Matches: 162, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 3 0.02
27 158 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (26 bp):
GATTTATAAAATTACGAAATACCCTT
Found at i:74226856 original size:54 final size:54
Alignment explanation
Indices: 74226784--74227006 Score: 254
Period size: 54 Copynumber: 4.1 Consensus size: 54
74226774 GATTGTTAAG
* * * * *
74226784 ACCCCCGATTTGTAAAATTA-TCGAGATACCCTTGATTTGTGAAATTATC-GAAAT
1 ACCCCTGATTTATAAAATTACT-GAAATACCCTTGATTTATAAAATTA-CAGAAAT
* * * * *
74226838 ACCCCTGATTTATGAAATTACCGAAATACCATTGATTTATGAAATTACCGAAAT
1 ACCCCTGATTTATAAAATTACTGAAATACCCTTGATTTATAAAATTACAGAAAT
* * * *
74226892 ACTCCC-GACTTGTAAAATTACTGAAATACCCTTAATTTATAAAATTACTGAAAT
1 AC-CCCTGATTTATAAAATTACTGAAATACCCTTGATTTATAAAATTACAGAAAT
* *
74226946 ACCCCTGATTTATAAAATTACTGAAATACCCTCGATTTATAAAATTACAGAAAC
1 ACCCCTGATTTATAAAATTACTGAAATACCCTTGATTTATAAAATTACAGAAAT
74227000 ACCCCTG
1 ACCCCTG
74227007 TACGGTAGGA
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.03
54 137 0.95
55 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
ACCCCTGATTTATAAAATTACTGAAATACCCTTGATTTATAAAATTACAGAAAT
Found at i:74226930 original size:81 final size:81
Alignment explanation
Indices: 74226790--74227005 Score: 238
Period size: 81 Copynumber: 2.7 Consensus size: 81
74226780 TAAGACCCCC
* * * * * * * *
74226790 GATTTGTAAAATTATCGAGATACCCTTGATTTGTGAAATTA-TCGAAATACCCCTGATTTATGAA
1 GATTTATAAAATTACCGAAATACCCTCGACTTGTAAAATTACT-GAAATACCCCTAATTTATAAA
*
74226854 ATTACCGAAATACCATT
65 ATTACCGAAATACCACT
* *
74226871 GATTTATGAAATTACCGAAATACTCC-CGACTTGTAAAATTACTGAAATACCCTTAATTTATAAA
1 GATTTATAAAATTACCGAAATAC-CCTCGACTTGTAAAATTACTGAAATACCCCTAATTTATAAA
* *
74226935 ATTACTGAAATACCCCT
65 ATTACCGAAATACCACT
* * * * *
74226952 GATTTATAAAATTACTGAAATACCCTCGATTTATAAAATTACAGAAACACCCCT
1 GATTTATAAAATTACCGAAATACCCTCGACTTGTAAAATTACTGAAATACCCCT
74227006 GTACGGTAGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
80 2 0.02
81 107 0.96
82 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
GATTTATAAAATTACCGAAATACCCTCGACTTGTAAAATTACTGAAATACCCCTAATTTATAAAA
TTACCGAAATACCACT
Found at i:74227019 original size:27 final size:27
Alignment explanation
Indices: 74226989--74227040 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
74226979 GATTTATAAA
74226989 ATTACAGAAACACCCCTGTACGGTAGG
1 ATTACAGAAACACCCCTGTACGGTAGG
* * * *
74227016 ATTACCGAAATACCCTTGTAGGGTA
1 ATTACAGAAACACCCCTGTACGGTA
74227041 AAGTGACAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (27 bp):
ATTACAGAAACACCCCTGTACGGTAGG
Found at i:74227026 original size:54 final size:53
Alignment explanation
Indices: 74226794--74227033 Score: 225
Period size: 54 Copynumber: 4.5 Consensus size: 53
74226784 ACCCCCGATT
* * * *
74226794 TGTAAAATTATCGAGATACCCTTGATTTGTGAAATTATC-GAAATACCCCTGA-
1 TGTAAAATTACCGAAATACCCTTGATTTATAAAATTA-CAGAAATACCCCTGAC
* * * *
74226846 TTTATGAAATTACCGAAATACCATTGATTTATGAAATTACCGAAATACTCCC-GAC
1 TGTA--AAATTACCGAAATACCCTTGATTTATAAAATTACAGAAATAC-CCCTGAC
* * * *
74226901 TTGTAAAATTACTGAAATACCCTTAATTTATAAAATTACTGAAATACCCCTGATT
1 -TGTAAAATTACCGAAATACCCTTGATTTATAAAATTACAGAAATACCCCTGA-C
* * * *
74226956 TATAAAATTACTGAAATACCCTCGATTTATAAAATTACAGAAACACCCCTGTAC
1 TGTAAAATTACCGAAATACCCTTGATTTATAAAATTACAGAAATACCCCTG-AC
* **
74227010 GGTAGGATTACCGAAATACCCTTG
1 TGTAAAATTACCGAAATACCCTTG
74227034 TAGGGTAAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
52 3 0.02
53 4 0.03
54 141 0.91
55 4 0.03
56 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (53 bp):
TGTAAAATTACCGAAATACCCTTGATTTATAAAATTACAGAAATACCCCTGAC
Found at i:74229247 original size:44 final size:44
Alignment explanation
Indices: 74229184--74229270 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
74229174 GAACCTATGG
74229184 CTCTAATGAAAATTCAATGAAGTGTTTATGGTTTTTAAAGGGTT
1 CTCTAATGAAAATTCAATGAAGTGTTTATGGTTTTTAAAGGGTT
74229228 CTCTAATGAAAATTCAATGAAGTGTTTATGGTTTTTAAAGGGT
1 CTCTAATGAAAATTCAATGAAGTGTTTATGGTTTTTAAAGGGT
74229271 ACTATCTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (44 bp):
CTCTAATGAAAATTCAATGAAGTGTTTATGGTTTTTAAAGGGTT
Found at i:74231267 original size:2 final size:2
Alignment explanation
Indices: 74231260--74231291 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
74231250 TTTTGGTTTG
74231260 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74231292 GCCATCTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:74235186 original size:27 final size:27
Alignment explanation
Indices: 74235129--74235186 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
74235119 ACCCTTTAAT
*
74235129 TGATAAAATGATTGTTATGCCCCTCTA
1 TGATAAAATGATTGTTATGCCCCTATA
* * *
74235156 TGATAAGATGATTGTTTTGCCCCTATG
1 TGATAAAATGATTGTTATGCCCCTATA
74235183 TGAT
1 TGAT
74235187 GTATGATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (27 bp):
TGATAAAATGATTGTTATGCCCCTATA
Found at i:74247992 original size:12 final size:12
Alignment explanation
Indices: 74247975--74247999 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74247965 AACTTTTCAT
74247975 GGTCTGATGAAA
1 GGTCTGATGAAA
74247987 GGTCTGATGAAA
1 GGTCTGATGAAA
74247999 G
1 G
74248000 TTGATTGGAT
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:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCTGATGAAA
Found at i:74249740 original size:2 final size:2
Alignment explanation
Indices: 74249733--74249772 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
74249723 AAACTGAAAG
74249733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74249773 CCCAAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74251487 original size:21 final size:22
Alignment explanation
Indices: 74251451--74251497 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
74251441 AATCAATGAG
*
74251451 AATTGAAATCACCAAAATTAAA
1 AATTGAAATAACCAAAATTAAA
* *
74251473 AATTGAAA-AACCAAACTTTAA
1 AATTGAAATAACCAAAATTAAA
74251494 AATT
1 AATT
74251498 TTAACATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (22 bp):
AATTGAAATAACCAAAATTAAA
Found at i:74258078 original size:46 final size:46
Alignment explanation
Indices: 74257930--74258154 Score: 235
Period size: 46 Copynumber: 4.8 Consensus size: 46
74257920 TACGGGTTAT
* * *
74257930 TGTAAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATAA
1 TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GA
* * * * *
74257976 TGAAAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
*
74258024 T-TAGAGCTAGTGTAAGACATGTGTGGGACATGCATCGGCCTCGAGA
1 TGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
* *
74258070 TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATC-GACTATGAGA
1 TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA
* *
74258116 TG--AGGTAGTGTAAGACCATCTCTGGGACATGGCATCGGC
1 TGTAAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
74258155 ATCTTACCCC
Statistics
Matches: 150, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.08
45 16 0.11
46 70 0.47
47 30 0.20
48 21 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
TGTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
Found at i:74264519 original size:46 final size:45
Alignment explanation
Indices: 74264466--74264680 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
74264456 ATTGTGAGTT
*
74264466 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACA-GA-GAAGAGCC
* * *
74264512 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAGACAAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA--CAGAGAAGAGCC
* * ** *
74264560 AGTGTAAGACATGTCTGGGACATACATCGGCC-TTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACAGAGAAG--AGCC
* * *
74264606 AGTGTAAGACATGTCCGGGACATGCATCGACTAC-GAGATGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACAGAGAAGAGCC
*
74264650 AGTGTGAGACCATGTCTGGGACATGACATCG
1 AGTGTAAGA-CATGTCTGGGACATG-CATCG
74264681 GCATACTACC
Statistics
Matches: 140, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
44 16 0.11
45 14 0.10
46 56 0.40
47 31 0.22
48 22 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACAGAGAAGAGCC
Found at i:74268416 original size:35 final size:35
Alignment explanation
Indices: 74268352--74268421 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
74268342 TTTTATTATT
74268352 TTTAGTTAATTTTAATTTTTTGTTTCTTGCTCCTA
1 TTTAGTTAATTTTAATTTTTTGTTTCTTGCTCCTA
*
74268387 TTTAGTTGATTTTAATTTTTTGTTTCTTGCTCCTA
1 TTTAGTTAATTTTAATTTTTTGTTTCTTGCTCCTA
74268422 CTTTCGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.11, G:0.10, T:0.63
Consensus pattern (35 bp):
TTTAGTTAATTTTAATTTTTTGTTTCTTGCTCCTA
Found at i:74271159 original size:16 final size:17
Alignment explanation
Indices: 74271119--74271159 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
74271109 GTTTCCATGT
74271119 TGATACATTGGAAGAAC
1 TGATACATTGGAAGAAC
74271136 T-ACT-CATTGGAAGAA-
1 TGA-TACATTGGAAGAAC
74271151 TGATACATT
1 TGATACATT
74271160 AAACTGGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 2 0.10
16 17 0.81
17 2 0.10
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (17 bp):
TGATACATTGGAAGAAC
Found at i:74275069 original size:68 final size:68
Alignment explanation
Indices: 74274895--74275570 Score: 401
Period size: 68 Copynumber: 9.9 Consensus size: 68
74274885 AGAGTTAGCG
* * * *** * * * * ** **
74274895 ATTTAAGATCACGCCCCTATTTTATAGTTTGCTAATTTAATATCACGACTCACCTACATAGCATG
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCACA
74274960 CCA
66 CCA
* * ** * * * * *
74274963 ATTTAAGATCACACTTATATCTTACAG-CCAGCTAATTTAATATCACGACTAATTTACATAGTAC
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCA-CTGATTTAAGATCACGGCTAATTTACATAGCAC
74275027 ACCA
65 ACCA
* * * * **
74275031 ATTTAAGATTGCGC-CCTTGTTTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCAC
1 ATTTAAGATCGCGCTCC-TATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCAC
**
74275095 ACTG
65 ACCA
* * * * * *
74275099 ATTTAAGATTGCGCTCCTATCTTACAGCCCACTGATTTAAGATCGCGACTAATTT-CTATATCAC
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTAC-ATAGCAC
*
74275163 ATCA
65 ACCA
* * * ** * ** * * * *
74275167 ATTTCAGATCACACTTGTATTTTATAGTCTGCTAATTGAAGATCACGGCTAATCTACATAGCACG
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCACA
**
74275232 CTG
66 CCA
* * * * * * * * *
74275235 ATTTAAGATCGCGCTCCTATCTTACAATTCACTGATTTAATATCATGGTTAACTCATATAGCACA
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCACA
*
74275300 CCG
66 CCA
* * **
74275303 ATTTAAGATCGCACTCCTATCTTATAG-CTCGCTGATTTAAGATCACAACTAATTTACATAGCAC
1 ATTTAAGATCGCGCTCCTATCTTATAGTC-CACTGATTTAAGATCACGGCTAATTTACATAGCAC
**
74275367 GTCA
65 ACCA
* * * * * *
74275371 ATTTAAGATCGCGC-CCTTATTTTATAGACTATTGATTTAAGATCAAGGCTAATCTACATAGCAC
1 ATTTAAGATCGCGCTCC-TATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCAC
*
74275435 GCCA
65 ACCA
* * * * ** * * * * **
74275439 ATTTAAGATCACGCTCATATCTTACAGTTCGTTGATTTAAGATCATGGTTAATCTACATAGGATG
1 ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCACA
**
74275504 CTG
66 CCA
* * * * **
74275507 ATTTAAGATCACGCTCCTATCTTACAG-CCTATTGTTTTAAGATCACAACTAATTTACATAGCAC
1 ATTTAAGATCGCGCTCCTATCTTATAGTCC-ACTGATTTAAGATCACGGCTAATTTACATAGCAC
74275571 GGTGATTTAA
Statistics
Matches: 458, Mismatches: 139, Indels: 22
0.74 0.22 0.04
Matches are distributed among these distances:
67 4 0.01
68 446 0.97
69 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (68 bp):
ATTTAAGATCGCGCTCCTATCTTATAGTCCACTGATTTAAGATCACGGCTAATTTACATAGCACA
CCA
Found at i:74275298 original size:204 final size:204
Alignment explanation
Indices: 74275063--74275587 Score: 617
Period size: 204 Copynumber: 2.6 Consensus size: 204
74275053 TATAGTCCAT
* * * *
74275063 TGATTTAAGATCACGGCTAACCTACATAGCACACTGATTTAAGATTGCGCTCCTATCTTACAGCC
1 TGATTTAAGATCATGGTTAATCTACATAGCACACTGATTTAAGATCGCGCTCCTATCTTACAGCC
* * * * *
74275128 CACTGATTTAAGATCGCGACTAATTT-CTATATCACATCAATTTCAGATCAC-ACTTGTATTTTA
66 CACTGATTTAAGATCACAACTAATTTAC-ATAGCACATCAATTTAAGATCACGACCT-TATTTTA
* * * ** * *
74275191 TAGTCTGCTAATTGAAGATCACGGCTAATCTACATAGCACGCTGATTTAAGATCGCGCTCCTATC
129 TAGACTACTAATTGAAGATCAAGGCTAATCTACATAGCACGCCAATTTAAGATCACGCTCATATC
74275256 TTACAATTCAC
194 TTACAATTCAC
* * * * *
74275267 TGATTTAATATCATGGTTAA-CTCATATAGCACACCGATTTAAGATCGCACTCCTATCTTATAGC
1 TGATTTAAGATCATGGTTAATCT-ACATAGCACACTGATTTAAGATCGCGCTCCTATCTTACAGC
* * * * *
74275331 TCGCTGATTTAAGATCACAACTAATTTACATAGCACGTCAATTTAAGATCGCGCCCTTATTTTAT
65 CCACTGATTTAAGATCACAACTAATTTACATAGCACATCAATTTAAGATCACGACCTTATTTTAT
* * *
74275396 AGACTATTGATTTAAGATCAAGGCTAATCTACATAGCACGCCAATTTAAGATCACGCTCATATCT
130 AGACTACTAATTGAAGATCAAGGCTAATCTACATAGCACGCCAATTTAAGATCACGCTCATATCT
* **
74275461 TACAGTTCGT
195 TACAATTCAC
* ** *
74275471 TGATTTAAGATCATGGTTAATCTACATAGGATGCTGATTTAAGATCACGCTCCTATCTTACAGCC
1 TGATTTAAGATCATGGTTAATCTACATAGCACACTGATTTAAGATCGCGCTCCTATCTTACAGCC
* * * * *
74275536 TATTGTTTTAAGATCACAACTAATTTACATAGCACGGT-GATTTAAGATCACG
66 CACTGATTTAAGATCACAACTAATTTACATAGCAC-ATCAATTTAAGATCACG
74275588 CTTAGATCAC
Statistics
Matches: 269, Mismatches: 47, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
203 2 0.01
204 260 0.97
205 7 0.03
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (204 bp):
TGATTTAAGATCATGGTTAATCTACATAGCACACTGATTTAAGATCGCGCTCCTATCTTACAGCC
CACTGATTTAAGATCACAACTAATTTACATAGCACATCAATTTAAGATCACGACCTTATTTTATA
GACTACTAATTGAAGATCAAGGCTAATCTACATAGCACGCCAATTTAAGATCACGCTCATATCTT
ACAATTCAC
Found at i:74275571 original size:136 final size:136
Alignment explanation
Indices: 74274895--74275589 Score: 556
Period size: 136 Copynumber: 5.1 Consensus size: 136
74274885 AGAGTTAGCG
* * * * * * * * * *
74274895 ATTTAAGATCACGCCCCTATTTTATAGTTTGCTAATTTAATATCACGACTCACCTACATAGCATG
1 ATTTAAGATCACGCTCATATCTTATAGTTCGCTGATTTAAGATCACGGCTAATCTACATAGCACG
** * * ** * *
74274960 CCAATTTAAGATCACACTTATATCTTACAGCC-AGCTAATTTAATATCACGACTAATTTACATAG
66 CTGATTTAAGATCGCGCTCCTATCTTACAGCCTA-CTGATTTAAGATCACGACTAATTTACATAG
*
74275024 TACACCA
130 CACACCA
** * * * * * ** * *
74275031 ATTTAAGATTGCGCCCTTGTTTTATAGTCCATTGATTTAAGATCACGGCTAACCTACATAGCACA
1 ATTTAAGATCACGCTCATATCTTATAGTTCGCTGATTTAAGATCACGGCTAATCTACATAGCACG
* * * *
74275096 CTGATTTAAGATTGCGCTCCTATCTTACAGCCCACTGATTTAAGATCGCGACTAATTT-CTATAT
66 CTGATTTAAGATCGCGCTCCTATCTTACAGCCTACTGATTTAAGATCACGACTAATTTAC-ATAG
*
74275160 CACATCA
130 CACACCA
* * ** * * *
74275167 ATTTCAGATCACACTTGTATTTTATAG-TCTGCTAATTGAAGATCACGGCTAATCTACATAGCAC
1 ATTTAAGATCACGCTCATATCTTATAGTTC-GCTGATTTAAGATCACGGCTAATCTACATAGCAC
** * * ** * * *
74275231 GCTGATTTAAGATCGCGCTCCTATCTTACA-ATTCACTGATTTAATATCATGGTTAACTCATATA
65 GCTGATTTAAGATCGCGCTCCTATCTTACAGCCT-ACTGATTTAAGATCACGACTAATTTACATA
*
74275295 GCACACCG
129 GCACACCA
* * * * ** *
74275303 ATTTAAGATCGCACTCCTATCTTATAGCTCGCTGATTTAAGATCACAACTAATTTACATAGCACG
1 ATTTAAGATCACGCTCATATCTTATAGTTCGCTGATTTAAGATCACGGCTAATCTACATAGCACG
* * * * * * * *
74275368 -TCAATTTAAGATCGCGC-CCTTATTTTATAGACTATTGATTTAAGATCAAGGCTAATCTACATA
66 CT-GATTTAAGATCGCGCTCC-TATCTTACAGCCTACTGATTTAAGATCACGACTAATTTACATA
*
74275431 GCACGCCA
129 GCACACCA
* * * * * *
74275439 ATTTAAGATCACGCTCATATCTTACAGTTCGTTGATTTAAGATCATGGTTAATCTACATAGGATG
1 ATTTAAGATCACGCTCATATCTTATAGTTCGCTGATTTAAGATCACGGCTAATCTACATAGCACG
* * * *
74275504 CTGATTTAAGATCACGCTCCTATCTTACAGCCTATTGTTTTAAGATCACAACTAATTTACATAGC
66 CTGATTTAAGATCGCGCTCCTATCTTACAGCCTACTGATTTAAGATCACGACTAATTTACATAGC
****
74275569 ACGGTG
131 ACACCA
74275575 ATTTAAGATCACGCT
1 ATTTAAGATCACGCT
74275590 TAGATCACGC
Statistics
Matches: 441, Mismatches: 107, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
135 5 0.01
136 428 0.97
137 8 0.02
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (136 bp):
ATTTAAGATCACGCTCATATCTTATAGTTCGCTGATTTAAGATCACGGCTAATCTACATAGCACG
CTGATTTAAGATCGCGCTCCTATCTTACAGCCTACTGATTTAAGATCACGACTAATTTACATAGC
ACACCA
Found at i:74279009 original size:47 final size:48
Alignment explanation
Indices: 74278921--74279012 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 48
74278911 TAATGTGACA
* * *
74278921 TTGTTCACGATTTTGATTATGTGGCAATATATTTGCGATTTTGGTGGC
1 TTGTCCACGATATTGATTATGTGGCAATATATCTGCGATTTTGGTGGC
* *
74278969 TTGTCCACGATATTGATTAT-TGGCAGTTTATCTGCGATTTTGGT
1 TTGTCCACGATATTGATTATGTGGCAATATATCTGCGATTTTGGT
74279013 AACACTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 21 0.54
48 18 0.46
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.46
Consensus pattern (48 bp):
TTGTCCACGATATTGATTATGTGGCAATATATCTGCGATTTTGGTGGC
Found at i:74281867 original size:19 final size:19
Alignment explanation
Indices: 74281843--74281879 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74281833 TATTTGCACC
*
74281843 ACTCCGCTCCTCGCTCGCT
1 ACTCCGCTCCTAGCTCGCT
74281862 ACTCCGCTCCTAGCTCGC
1 ACTCCGCTCCTAGCTCGC
74281880 CACTTTCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.08, C:0.51, G:0.16, T:0.24
Consensus pattern (19 bp):
ACTCCGCTCCTAGCTCGCT
Found at i:74285674 original size:2 final size:2
Alignment explanation
Indices: 74285667--74285697 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74285657 AAGAATTTGT
74285667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
74285698 TTACGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:74288856 original size:2 final size:2
Alignment explanation
Indices: 74288849--74288881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
74288839 TCTAAAACTG
74288849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74288882 AGGAAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74294237 original size:26 final size:26
Alignment explanation
Indices: 74294200--74294283 Score: 159
Period size: 26 Copynumber: 3.2 Consensus size: 26
74294190 TGATACAAAT
*
74294200 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74294226 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74294252 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
74294278 TGATAA
1 TGATAA
74294284 AAATTTCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Done.