Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 144 of 145
Found at i:47952668 original size:76 final size:76
Alignment explanation
Indices: 47952542--47952693 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
47952532 TATGACTGTT
*
47952542 ACAAGTATTTAAGCATGCAGTAAACAGAATAACTGACTCAACTAACTGTAATTACAGATCACTCA
1 ACAAGTATCTAAGCATGCAGTAAACAGAATAACTGACTCAACTAACTGTAATTACAGATCACTCA
47952607 TTAGGATCATA
66 TTAGGATCATA
47952618 ACAAGTATCTAAGCATGCAGTAAACAGAATAACTGACTCAACTAACTGTAATTACAGATCACTCA
1 ACAAGTATCTAAGCATGCAGTAAACAGAATAACTGACTCAACTAACTGTAATTACAGATCACTCA
47952683 TTAGGATCATA
66 TTAGGATCATA
47952694 TATATATTGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (76 bp):
ACAAGTATCTAAGCATGCAGTAAACAGAATAACTGACTCAACTAACTGTAATTACAGATCACTCA
TTAGGATCATA
Found at i:47963882 original size:17 final size:17
Alignment explanation
Indices: 47963849--47963881 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47963839 AAAAAGTATT
*
47963849 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
47963866 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
47963882 AGTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:47964800 original size:17 final size:17
Alignment explanation
Indices: 47964767--47964799 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
47964757 AAAAAGTATT
*
47964767 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
47964784 TTAAAAA-ATTTAAAAA
1 TTAAAAATATTTAAAAA
47964800 AGTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:47966045 original size:31 final size:30
Alignment explanation
Indices: 47965978--47966053 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
47965968 AAATTATTTT
* *
47965978 TTGGGGCCTAAACTTGTCAACTTTTTTATA
1 TTGGGGCCTAAACTTGACAACTTTTTTAGA
*
47966008 TTGGGGCCTGAACTTGACAA-TTGTTTCTAGA
1 TTGGGGCCTAAACTTGACAACTT-TTT-TAGA
47966039 TTGGGGCCTAAACTT
1 TTGGGGCCTAAACTT
47966054 TTTTATCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.05
30 21 0.52
31 17 0.43
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.38
Consensus pattern (30 bp):
TTGGGGCCTAAACTTGACAACTTTTTTAGA
Found at i:47970592 original size:12 final size:12
Alignment explanation
Indices: 47970575--47970600 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47970565 ACATCATATG
47970575 TATCAACTGAGC
1 TATCAACTGAGC
47970587 TATCAACTGAGC
1 TATCAACTGAGC
47970599 TA
1 TA
47970601 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (12 bp):
TATCAACTGAGC
Found at i:47970608 original size:2 final size:2
Alignment explanation
Indices: 47970601--47970631 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47970591 AACTGAGCTA
47970601 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 A
47970632 CAAAAGGAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47970939 original size:19 final size:20
Alignment explanation
Indices: 47970906--47970943 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47970896 GAAAAATCTA
47970906 ATTTTTTTATAATTTTTAAT
1 ATTTTTTTATAATTTTTAAT
*
47970926 ATTTTTTTGT-ATTTTTAA
1 ATTTTTTTATAATTTTTAA
47970944 GATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTTTTTATAATTTTTAAT
Found at i:47973898 original size:13 final size:13
Alignment explanation
Indices: 47973882--47973934 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
47973872 TTTAAACCAA
*
47973882 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
47973895 ACTTATT-AAAAGC
1 ACTT-TTCAAAAGC
* *
47973908 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
47973921 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
47973934 A
1 A
47973935 ATGAAGAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 29 0.88
14 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:47974088 original size:10 final size:10
Alignment explanation
Indices: 47974073--47974103 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
47974063 TCGACCTCAA
47974073 TTTAATTTTT
1 TTTAATTTTT
47974083 TTTAA-TTTT
1 TTTAATTTTT
47974092 TTTAATTTTT
1 TTTAATTTTT
47974102 TT
1 TT
47974104 ATTTTGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTAATTTTT
Found at i:47974093 original size:9 final size:9
Alignment explanation
Indices: 47974073--47974108 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
47974063 TCGACCTCAA
47974073 TTTAATTTTT
1 TTTAA-TTTT
47974083 TTTAATTTT
1 TTTAATTTT
47974092 TTTAATTTT
1 TTTAATTTT
47974101 TTT-ATTTT
1 TTTAATTTT
47974109 GAAACAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 5 0.19
9 16 0.62
10 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTAATTTT
Found at i:47975264 original size:30 final size:31
Alignment explanation
Indices: 47975208--47975265 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
47975198 AACAGTCTAA
*
47975208 TAACTTAAATAAAATCTTTTGAATAGTTCAT
1 TAACTTAAATAAAATCTTTAGAATAGTTCAT
**
47975239 TAACTTAAATGCAA-CTTTAGAATAGTT
1 TAACTTAAATAAAATCTTTAGAATAGTT
47975266 TAGTAACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (31 bp):
TAACTTAAATAAAATCTTTAGAATAGTTCAT
Found at i:47975273 original size:30 final size:31
Alignment explanation
Indices: 47975208--47975273 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
47975198 AACAGTCTAA
* *
47975208 TAACTTAAATAAAATCTTTTGAATAGTTCAT
1 TAACTTAAATAAAATCTTTAGAATAGTTCAG
** *
47975239 TAACTTAAATGCAA-CTTTAGAATAGTTTAG
1 TAACTTAAATAAAATCTTTAGAATAGTTCAG
47975269 TAACT
1 TAACT
47975274 ATTTTGCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (31 bp):
TAACTTAAATAAAATCTTTAGAATAGTTCAG
Found at i:47975645 original size:31 final size:31
Alignment explanation
Indices: 47975581--47975645 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
47975571 CAGCCCAATG
* * *
47975581 ACTTAAATATAATCTTTTGAATAGTTAATTA
1 ACTTAAATATAAACTTTAGAATAGTTAAGTA
*
47975612 ACTTAAATGA-AAACTTTAGAATAGTTTAGTA
1 ACTTAAAT-ATAAACTTTAGAATAGTTAAGTA
47975643 ACT
1 ACT
47975646 ATTTTTTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (31 bp):
ACTTAAATATAAACTTTAGAATAGTTAAGTA
Found at i:47980911 original size:7 final size:7
Alignment explanation
Indices: 47980899--47980931 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
47980889 AAATTATTTT
47980899 AAAAATA
1 AAAAATA
47980906 AAAAATA
1 AAAAATA
47980913 AAAAATA
1 AAAAATA
47980920 AAAAATA
1 AAAAATA
47980927 AAAAA
1 AAAAA
47980932 AAGTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:47983278 original size:16 final size:18
Alignment explanation
Indices: 47983239--47983272 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47983229 TAAGTTTATA
47983239 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
47983256 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
47983273 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:47985049 original size:40 final size:39
Alignment explanation
Indices: 47985005--47985131 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
47984995 ACCAGTTTCG
*
47985005 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGGATAATACGAAGTAATAA-TTGA
** * *
47985045 CACCCAGTATCTCATCGGCTAA-ACTGAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGATAATAC-GAAGTAATAATTGA
* * * *
47985082 CACCCAATGCCTCATTGAATTAATCCGAAGTAATAGATTGA
1 CACCCAGTGCCTCATCGGA-TAATACGAAGTAATA-ATTGA
47985123 CACCCAGTG
1 CACCCAGTG
47985132 TCACATCGAC
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
37 16 0.24
38 10 0.15
39 4 0.06
40 25 0.37
41 12 0.18
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATACGAAGTAATAATTGA
Found at i:47986447 original size:9 final size:9
Alignment explanation
Indices: 47986435--47986468 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
47986425 ACTTTTTATA
47986435 TTTTTAAAT
1 TTTTTAAAT
47986444 TTTTTATAAT
1 TTTTTA-AAT
47986454 TTTTTAAAT
1 TTTTTAAAT
*
47986463 TATTTA
1 TTTTTA
47986469 TTGACATGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:47986457 original size:19 final size:17
Alignment explanation
Indices: 47986427--47986469 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
47986417 TTTGATGAAC
47986427 TTTTTATATTTTTAAAT
1 TTTTTATATTTTTAAAT
47986444 TTTTTATAATTTTTTAAAT
1 TTTTTAT-A-TTTTTAAAT
*
47986463 TATTTAT
1 TTTTTAT
47986470 TGACATGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATATTTTTAAAT
Found at i:47990267 original size:14 final size:15
Alignment explanation
Indices: 47990244--47990277 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
47990234 GTTTATTTTG
47990244 TTTTGATTTTTGTTT
1 TTTTGATTTTTGTTT
47990259 TTTTG-TTTTTGTTT
1 TTTTGATTTTTGTTT
47990273 TTTTG
1 TTTTG
47990278 CAGGCAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTGATTTTTGTTT
Found at i:48000568 original size:27 final size:27
Alignment explanation
Indices: 48000532--48000616 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
48000522 TTTTAATCCT
*
48000532 TTGGCA-CATTGGTGCCGCTAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
48000558 TTGGCACCATTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
* *
48000585 TTGGCACCTTTGATGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
48000612 GTGGC
1 TTGGC
48000617 CTGATCAGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 6 0.11
27 48 0.89
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATGGCA
Found at i:48000712 original size:27 final size:27
Alignment explanation
Indices: 48000654--48000722 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
48000644 GTTTTTTTGG
**
48000654 TATATTTTGGTAAATAAAAAAAATTAT
1 TATATTTTGGTAAATAAAAAAAAGGAT
* * *
48000681 AATATTTTAGTAAATAAAAAAAGGGAT
1 TATATTTTGGTAAATAAAAAAAAGGAT
48000708 TATATTTTGGTAAAT
1 TATATTTTGGTAAAT
48000723 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (27 bp):
TATATTTTGGTAAATAAAAAAAAGGAT
Found at i:48004079 original size:60 final size:60
Alignment explanation
Indices: 48003985--48004097 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
48003975 CTAACTATGT
* * *
48003985 CCTTGCATAACAATGATTGATTGTTTCCATATGATCCTAGACTTAATTATTAGCATACGG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCATACGG
* * *
48004045 CCTTGGATAACAATGATTAATTGCTTCTAGATGATTCTAGACTTAATTATTAG
1 CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAG
48004098 TGTAAACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (60 bp):
CCTTGCATAACAATGATTAATTGCTTCCAGATGATCCTAGACTTAATTATTAGCATACGG
Found at i:48007529 original size:18 final size:20
Alignment explanation
Indices: 48007506--48007543 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
48007496 ATAATTTAAT
48007506 ATAAATATA-A-ATATAAAC
1 ATAAATATATATATATAAAC
48007524 ATAAATATATATATATAAAC
1 ATAAATATATATATATAAAC
48007544 TTTATTTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 1 0.06
20 8 0.44
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAAATATATATATATAAAC
Found at i:48007540 original size:6 final size:6
Alignment explanation
Indices: 48007503--48007538 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
48007493 CTAATAATTT
* *
48007503 AATATA AATATA AATATA AACATA AATATA TATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
48007539 TAAACTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:48010308 original size:14 final size:14
Alignment explanation
Indices: 48010281--48010315 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
48010271 TGGCATAGTG
48010281 AAAAAAATTGGAAA
1 AAAAAAATTGGAAA
48010295 AATAAAAATT-GAAA
1 AA-AAAAATTGGAAA
48010309 AAAAAAA
1 AAAAAAA
48010316 GAAAGAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (14 bp):
AAAAAAATTGGAAA
Found at i:48012024 original size:16 final size:17
Alignment explanation
Indices: 48011995--48012028 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48011985 ATAAATTTTA
*
48011995 GTTTTTTCCTCAAAAAT
1 GTTTTGTCCTCAAAAAT
48012012 GTTTTGTCC-CAAAAAT
1 GTTTTGTCCTCAAAAAT
48012028 G
1 G
48012029 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (17 bp):
GTTTTGTCCTCAAAAAT
Found at i:48013253 original size:17 final size:17
Alignment explanation
Indices: 48013227--48013280 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
48013217 AAATATATTT
*
48013227 ATTTTTAAATTTTTTTA
1 ATTTTAAAATTTTTTTA
48013244 ATTTTAAAATATTTTTTTA
1 ATTTT-AAA-ATTTTTTTA
*
48013263 ATTTTAAAATATTTTTA
1 ATTTTAAAATTTTTTTA
48013280 A
1 A
48013281 AATACTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 14 0.42
18 5 0.15
19 14 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTAAAATTTTTTTA
Found at i:48013259 original size:19 final size:19
Alignment explanation
Indices: 48013235--48013278 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
48013225 TTATTTTTAA
48013235 ATTTTTTTAATTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
48013254 ATTTTTTTAATTTTAAAAT
1 ATTTTTTTAATTTTAAAAT
48013273 ATTTTT
1 ATTTTT
48013279 AAAATACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTTAATTTTAAAAT
Found at i:48013281 original size:30 final size:29
Alignment explanation
Indices: 48013245--48013321 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
48013235 ATTTTTTTAA
48013245 TTTTAAAATATTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTTTAATTTTAAAA-AT
***
48013275 TTTTAAAATACTTTTTTTAATTTTTTTAAT
1 TTTTAAAATA-TTTTTTTAATTTTAAAAAT
*
48013305 TTTTAAAATAATTTTTT
1 TTTTAAAATATTTTTTT
48013322 GGCATTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 6 0.14
30 22 0.52
31 14 0.33
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTAAAATATTTTTTTAATTTTAAAAAT
Found at i:48014948 original size:15 final size:15
Alignment explanation
Indices: 48014928--48014959 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48014918 CATCTAATCT
48014928 CCATCTATTTTGCCA
1 CCATCTATTTTGCCA
48014943 CCATCTATTTTGCCA
1 CCATCTATTTTGCCA
48014958 CC
1 CC
48014960 GACTCTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (15 bp):
CCATCTATTTTGCCA
Found at i:48022481 original size:312 final size:312
Alignment explanation
Indices: 48021907--48022520 Score: 925
Period size: 313 Copynumber: 2.0 Consensus size: 312
48021897 CTTAAAACTG
* *
48021907 AAAATAAGATTTCCAAACATGGATAATCATCTTATTTTAATCGAAAAGAAAAAGCAAAAAATAAA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAAT--A
* * *
48021972 AATAATAAAATTCCTATTCTTAAGTAAGTGAAAAAAAACAACAACTTACATCTACTAAATTATCC
64 AATAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCC
**
48022037 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAGT
129 ATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAAC
* * *
48022102 ATATTTAATTTTTAAGAATACATAGAGGTTAACAACTAATTTTCAACTCAAGTAAGTAAGGAAAT
194 ATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAAT
48022167 GACCATAAAAAAAAAT-ATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
259 GACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
*
48022220 AAAATAAGATTTCCAAACATGGATAATGATCTCATTTTAATCAAAAAGAAAAAGC-AAAAAT-AA
1 AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
*
48022283 TAA-AAAATTTCATATTCCTAATTAAGTGAAAAACAATTAATAAACAACTTACATCTACTAAATT
66 TAATAAAA-TTCATATTCCTAAGTAAGTG-AAAA-AA--AA-AAACAACTTACATCTACTAAATT
*
48022347 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAA-TTCATAATTTCACT-GAACTTGCA
125 ATCCATCGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCA
* * * *
48022410 GAACATATTTAATTTTTAACAATATATAGAGATTAACAACTAATTTTGAACTCAAGTATGCATGG
190 GAACATATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGG
* * * *
48022475 AAATGACGATCAACAAAAATAATGAAGAATGCAGCAATAACGTATC
255 AAATGACCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATC
48022521 GTATAAACTG
Statistics
Matches: 273, Mismatches: 21, Indels: 14
0.89 0.07 0.05
Matches are distributed among these distances:
308 4 0.01
309 22 0.08
310 4 0.01
311 2 0.01
312 87 0.32
313 92 0.34
314 62 0.23
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (312 bp):
AAAATAAGATTTCCAAACATGGATAATCATCTCATTTTAATCAAAAAGAAAAAGCAAAAAATAAA
TAATAAAATTCATATTCCTAAGTAAGTGAAAAAAAAAAACAACTTACATCTACTAAATTATCCAT
CGCAAACAACATAGACAAACTTTATGACTTCAAATTTCATAATTTCACTCAAACTTGCAGAACAT
ATTTAATTTTTAACAATACATAGAGATTAACAACTAATTTTCAACTCAAGTAAGCAAGGAAATGA
CCATAAAAAAAAATAATGAAGAATGCAACAATAACGTATCATCTAAAATAAA
Found at i:48023440 original size:2 final size:2
Alignment explanation
Indices: 48023433--48023457 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48023423 NNNNNNNNNN
48023433 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 A
48023458 AATAAGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48038643 original size:24 final size:24
Alignment explanation
Indices: 48038616--48038664 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
48038606 GAACGCTTGG
*
48038616 TTATTTTACGTGTTCATTTCATGA
1 TTATTTTAAGTGTTCATTTCATGA
48038640 TTATTTTAAGTGTTCATTTCATGA
1 TTATTTTAAGTGTTCATTTCATGA
48038664 T
1 T
48038665 ATGTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.55
Consensus pattern (24 bp):
TTATTTTAAGTGTTCATTTCATGA
Found at i:48039281 original size:12 final size:12
Alignment explanation
Indices: 48039264--48039288 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48039254 AAAATGATGC
48039264 TATATTAATAAT
1 TATATTAATAAT
48039276 TATATTAATAAT
1 TATATTAATAAT
48039288 T
1 T
48039289 TATGAGAATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTAATAAT
Found at i:48039357 original size:29 final size:30
Alignment explanation
Indices: 48039304--48039362 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48039294 GAATTAAATC
*
48039304 AAATCAAAACTTCATTTATAAAATTACACA
1 AAATCAAAACTTCATATATAAAATTACACA
* * *
48039334 AAATCAAAA-TTTATATATATAATTGCACA
1 AAATCAAAACTTCATATATAAAATTACACA
48039363 TTAAACCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATCAAAACTTCATATATAAAATTACACA
Found at i:48047380 original size:82 final size:81
Alignment explanation
Indices: 48047229--48047474 Score: 201
Period size: 94 Copynumber: 2.8 Consensus size: 81
48047219 CAACGAAAAA
* * * *
48047229 AAAAAAGTCCTAGATCCAGAAATTTGTTGATTCTCGATTTCCTTTCCCTAATTTTCCAGTCTCA-
1 AAAAAA-T-CTAGATCCAGAAATTTGTTAATTTTCAATTTCC---CCCTAATTTTCCCGTCTCAG
* *
48047293 A-AAAAAGAAAAACAGCGGGG
61 AGAAAAAGAAAAACAACAGGG
48047313 AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAATTTTCCCCCTAATTTTCCCGTCTCAGAGAA
1 AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAA-TTTCCCCCTAATTTTCCCGTCTCAGAG--
48047378 AAATATTACTAAAAGAAAAACAACAGGG
63 -------A--AAAAGAAAAACAACAGGG
* * * *
48047406 AAAAGAATCGAAAGCCATAAATTTGTTAATTTTCAAAATTT-CCCCTAATTTTCCCGTCTCAGAG
1 AAAA-AATCTAGATCCAGAAATTTGTTAATTTTC--AATTTCCCCCTAATTTTCCCGTCTCAGAG
48047470 AAAAA
63 AAAAA
48047475 ATATTACCAA
Statistics
Matches: 135, Mismatches: 10, Indels: 35
0.75 0.06 0.19
Matches are distributed among these distances:
80 18 0.13
81 1 0.01
82 25 0.19
83 10 0.07
84 6 0.04
85 1 0.01
91 1 0.01
93 20 0.15
94 48 0.36
95 3 0.02
96 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (81 bp):
AAAAAATCTAGATCCAGAAATTTGTTAATTTTCAATTTCCCCCTAATTTTCCCGTCTCAGAGAAA
AAGAAAAACAACAGGG
Found at i:48047451 original size:94 final size:93
Alignment explanation
Indices: 48047295--48047777 Score: 448
Period size: 88 Copynumber: 5.1 Consensus size: 93
48047285 CAGTCTCAAA
* *
48047295 AAAAGAAAAACAGCGGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAATTTTCCCCCTAA
1 AAAAGAAAAACAACAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAATTTTCCCCCTAA
48047360 TTTTCCCGTCTCAGAGAAAAATATTACT
66 TTTTCCCGTCTCAGAGAAAAATATTACT
* * * * *
48047388 AAAAGAAAAACAACAGGGAAAAGAATCGAAAGCCATAAATTTGTTAATTTTCAAAATTT-CCCCT
1 AAAAGAAAAACAACAGGGAAAA-AATCTAGATCCAGAAATTTGTTAATTTTC-AATTTTCCCCCT
*
48047452 AATTTTCCCGTCTCAGAGAAAAAATATTACC
64 AATTTTCCCGTCTCAGAG-AAAAATATTACT
* * * *
48047483 AAAAG--AAA-AACAGGAAAAAAAATACCCTAGATCCAGAATTTTGTTGATTTTCGATTTTCCCC
1 AAAAGAAAAACAACAGG-GAAAAAAT---CTAGATCCAGAAATTTGTTAATTTTCAATTTT-CCC
*
48047545 CCTAATTTTCCCGTCTTAGAGAAAAATATTACT
61 CCTAATTTTCCCGTCTCAGAGAAAAATATTACT
* * * *
48047578 AAAAGAAAAAC-ATA---AAAAAA--TAGATCCAGAAATCTGTTGATTTTCGATTTTTCCCCCTA
1 AAAAGAAAAACAACAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTC-AATTTTCCCCCTA
* *
48047637 ATTTTCCCGTCTTAGACAAAAATATTACT
65 ATTTTCCCGTCTCAGAGAAAAATATTACT
** * *
48047666 AAAAGAAAAACATGA-AGAAAAAAAAAACCTCTAGATCCAGAAATCTGTTGATTTTCGAAATTGT
1 AAAAGAAAAACA--ACAG--GGAAAAAA--TCTAGATCCAGAAATTTGTTAATTTTC--AATT-T
** * * * *
48047730 TTTCCCTAATTTTCTCGTCCCAGAAAAAAAAATATTACC
57 TCCCCCTAATTTTCCCGTCTCAG--AGAAAAATATTACT
48047769 AAAAGAAAA
1 AAAAGAAAA
48047778 TATCAATGAT
Statistics
Matches: 327, Mismatches: 34, Indels: 48
0.80 0.08 0.12
Matches are distributed among these distances:
88 69 0.21
89 4 0.01
90 1 0.00
91 1 0.00
92 9 0.03
93 33 0.10
94 52 0.16
95 63 0.19
96 22 0.07
97 5 0.02
99 25 0.08
100 3 0.01
101 19 0.06
103 21 0.06
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (93 bp):
AAAAGAAAAACAACAGGGAAAAAATCTAGATCCAGAAATTTGTTAATTTTCAATTTTCCCCCTAA
TTTTCCCGTCTCAGAGAAAAATATTACT
Found at i:48047630 original size:96 final size:82
Alignment explanation
Indices: 48047348--48047687 Score: 148
Period size: 95 Copynumber: 3.7 Consensus size: 82
48047338 TAATTTTCAA
* *
48047348 TTTTCCCCCTAATTTTCCCGTCTCAGAGAAAAATATTACTAAAAGAAAAACAACAGGGAAAAGAA
1 TTTTCCCCCTAATTTTCCCGTCTTAGAGAAAAATATTACTAAAAGAAAAAC-ATA---AAAA-AA
* * * * * *
48047413 TCGAAAGCCATAAATTTGTTAATT
61 -CTAGATCCAGAATTTTGTTGA-T
* * * *
48047437 TTCAAAATTTCCCCTAATTTTCCCGTCTCAGAGAAAAAATATTACCAAAAGAAAAACAGGAAAAA
1 TT-----TTCCCCCTAATTTTCCCGTCTTAGAG-AAAAATATTACTAAAAGAAAAAC---ATAAA
48047502 AAATACCCTAGATCCAGAATTTTGTTGATTTT
57 AAA-A--CTAGATCCAGAATTTTGTTGA---T
** * * *
48047534 CGATTTTCCCCCCTAATTTTCC--CGTCT-TAGAGAAAAATATTACTAAAAGAAAAACATAAAAA
1 ---TTTTCCCCCTAATTTTCCCGTC-T-TAGAGA-AAAA-TATTACTAAAAGAAAAACATAAAAA
48047596 AA-TAGATCCAGAAATCTGTTGATTTTCGAT
59 AACTAGATCCAG-AAT-T-TTG---TT-GAT
*
48047626 TTTTCCCCCTAATTTTCCCGTCTTAGACAAAAATATTACTAAAAGAAAAACATGAAGAAAAA
1 TTTTCCCCCTAATTTTCCCGTCTTAGAGAAAAATATTACTAAAAGAAAAACAT-AA-AAAAA
48047688 AAAAACCTCT
Statistics
Matches: 194, Mismatches: 26, Indels: 61
0.69 0.09 0.22
Matches are distributed among these distances:
88 29 0.15
89 27 0.14
90 9 0.05
91 5 0.03
92 8 0.04
93 3 0.02
94 39 0.20
95 68 0.35
97 4 0.02
100 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (82 bp):
TTTTCCCCCTAATTTTCCCGTCTTAGAGAAAAATATTACTAAAAGAAAAACATAAAAAAACTAGA
TCCAGAATTTTGTTGAT
Found at i:48050971 original size:31 final size:30
Alignment explanation
Indices: 48050924--48050983 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
48050914 CACTCAAGTG
*
48050924 AATTAAATAAAAAATTTTAAATAGTTTAATA
1 AATTAAATAAAAAATTTCAAATA-TTTAATA
* *
48050955 AATTTAATGAAAAATTTCAAATATTTAAT
1 AATTAAATAAAAAATTTCAAATATTTAAT
48050984 GACTATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (30 bp):
AATTAAATAAAAAATTTCAAATATTTAATA
Found at i:48052102 original size:183 final size:183
Alignment explanation
Indices: 48051793--48052123 Score: 502
Period size: 183 Copynumber: 1.8 Consensus size: 183
48051783 GGGAATTTAG
*
48051793 TGATTTGGGCATCTGGGTAATGTTAATTTTGCGGGGATTATTGAAATTTGGATGTAGATTCTAGT
1 TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
*
48051858 ATGATTCAAATGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAA
66 ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAA
* *
48051923 ATTTGAATGTAGATTCTAACATGGCTGTTATTTTTTTTATTCAAATGGACTAT
131 ATTTAAATCTAGATTCTAACATGGCTGTTATTTTTTTTATTCAAATGGACTAT
* ** * * * *
48051976 TGATTTGGGCATCTGGGTAGTGTTAATTTTTTTATGGATTTTTGGAATTTTGATGTAGATTCTAG
1 TGATTTGGGCATCTGGGTAATGTTAA-TTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAG
* * * * *
48052041 TATGATTCAAACGGATTATTTA-TTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTTA
65 TATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGA
48052105 AATTTAAATCTAGATTCTA
130 AATTTAAATCTAGATTCTA
48052124 GCGTGAAACT
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
183 82 0.63
184 49 0.37
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (183 bp):
TGATTTGGGCATCTGGGTAATGTTAATTTTGCAGGGATTATTGAAATTTGGATGTAGATTCTAGT
ATGATTCAAACGGACTAGTGATTTTGGGCATCTGGGAAGTGTTAATTTTGCGATCGATTTTTGAA
ATTTAAATCTAGATTCTAACATGGCTGTTATTTTTTTTATTCAAATGGACTAT
Found at i:48052109 original size:84 final size:84
Alignment explanation
Indices: 48051961--48052124 Score: 220
Period size: 84 Copynumber: 2.0 Consensus size: 84
48051951 TATTTTTTTT
* * *** *
48051961 ATTCAAATGGACTATTGATTTGGGCATCTGGGTAGTGTTAATTTTTTTATGGATTTTTGGAATTT
1 ATTCAAACGGACTATTGATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTGAAATTT
** *
48052026 TGATGTAGATTCTAGTATG
66 AAATCTAGATTCTAGTATG
* * *
48052045 ATTCAAACGGATTATTTATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTTAAATTT
1 ATTCAAACGGACTATTGATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTGAAATTT
48052110 AAATCTAGATTCTAG
66 AAATCTAGATTCTAG
48052125 CGTGAAACTG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (84 bp):
ATTCAAACGGACTATTGATTTGGGCATCTGGGAAGTGTTAATTTTGCGATGGATTTTTGAAATTT
AAATCTAGATTCTAGTATG
Found at i:48057557 original size:29 final size:29
Alignment explanation
Indices: 48057510--48057567 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
48057500 TTTGATTCTT
* *
48057510 TTTAATAGTATAGGGACTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
* *
48057539 TTTAATAATAGAGGTACTAATTTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
48057568 ATCTCTGTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:48062156 original size:14 final size:15
Alignment explanation
Indices: 48062122--48062153 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48062112 AATATTCTAT
48062122 AATT-AAAAACCCTA
1 AATTCAAAAACCCTA
48062136 AATTCAAAAACCCTA
1 AATTCAAAAACCCTA
48062151 AAT
1 AAT
48062154 CAATTCCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AATTCAAAAACCCTA
Found at i:48063953 original size:13 final size:13
Alignment explanation
Indices: 48063935--48063959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48063925 TATTCTTTAA
48063935 AATAATTTTATAC
1 AATAATTTTATAC
48063948 AATAATTTTATA
1 AATAATTTTATA
48063960 AATTTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTTTATAC
Found at i:48064714 original size:2 final size:2
Alignment explanation
Indices: 48064707--48064735 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48064697 AACCTGAACA
48064707 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 A
48064736 AGATCTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48065237 original size:30 final size:30
Alignment explanation
Indices: 48065202--48065262 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48065192 CAAAACCCAA
48065202 ATTCAAATAAAACTCAATACAATTTAATTG
1 ATTCAAATAAAACTCAATACAATTTAATTG
48065232 ATTCAAATAAAACTCAATACAATTTAATTG
1 ATTCAAATAAAACTCAATACAATTTAATTG
48065262 A
1 A
48065263 CGTTGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (30 bp):
ATTCAAATAAAACTCAATACAATTTAATTG
Found at i:48066740 original size:21 final size:20
Alignment explanation
Indices: 48066716--48066754 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48066706 TTTGGAGATT
48066716 AAAACTTGGAATCTTTTTTAA
1 AAAACTTGG-ATCTTTTTTAA
* *
48066737 AAAAGTTGGGTCTTTTTT
1 AAAACTTGGATCTTTTTT
48066755 TTGGCAGGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (20 bp):
AAAACTTGGATCTTTTTTAA
Found at i:48067378 original size:182 final size:185
Alignment explanation
Indices: 48067007--48067648 Score: 996
Period size: 192 Copynumber: 3.5 Consensus size: 185
48066997 CCACACACAT
* * *
48067007 ATATATATATATTAGAAGTTAGCTATGCCCTATATG-ATA-ATTTTTTTTTTCTATTAGCTGAAA
1 ATATATATAAATTAGAAGTTAGCTATGCCCT-TATGTAAAGAATTTTTTTTTCTATTAGCTGAAA
*
48067070 TCCAAGAACAAATGGTTTCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTAT
65 TCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTAT
48067135 GGATAATTTGATCAAATTTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
130 GGATAATTTGATC-AA-TTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
48067193 ATATATA-AAATTAGAAGTTAGCTATGCCCTTATGTAAAGAATTTTTTTTTCTATTAGCTGAAAT
1 ATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAAGAATTTTTTTTTCTATTAGCTGAAAT
* * * *
48067257 TCAAGAACAAAT-G-ATATAT-TTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTGTG
66 CCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTATG
48067319 GATAATTTGATCAATCTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
131 GATAATTTGATCAAT-TTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
* *
48067375 ATATATA-AAATTAGAAGTTAGCTGTGCTCATAGGCCATATGTAAAGAATTTTTTTTTCTATTAG
1 ATATATATAAATTAGAAGTTA-----GCT-AT-GCCCTTATGTAAAGAATTTTTTTTTCTATTAG
48067439 CTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGAT
59 CTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGAT
*
48067504 AATTATGGATAATTTGGTCAATTTATTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
124 AATTATGGATAATTTGATCAATTT-TTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
* *
48067567 ATATATATAGATTAGAAGTTAGCTATGCCCTTATGT-AAGAA-ATTTTTTTCTATTAGCTGAAAT
1 ATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAAGAATTTTTTTTTCTATTAGCTGAAAT
48067630 CCAAGAACAAATGGTATCT
66 CCAAGAACAAATGGTATCT
48067649 ATATAGATTA
Statistics
Matches: 422, Mismatches: 19, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
181 1 0.00
182 62 0.15
183 54 0.13
184 47 0.11
185 30 0.07
186 50 0.12
187 5 0.01
188 5 0.01
189 48 0.11
190 1 0.00
191 6 0.01
192 101 0.24
193 12 0.03
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.48
Consensus pattern (185 bp):
ATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAAGAATTTTTTTTTCTATTAGCTGAAAT
CCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAATTTTGATTTGATAATTATG
GATAATTTGATCAATTTTTTACTCTTGTTTTAAGAATTTGAAGTTGTTTTAGTTC
Found at i:48067702 original size:121 final size:122
Alignment explanation
Indices: 48067548--48067770 Score: 421
Period size: 121 Copynumber: 1.8 Consensus size: 122
48067538 GTTTTAAGAA
*
48067548 TTTGAAGTTGTTTTAGTTCATATATATAGATTAGAAGTTAGCTATGCCCTTATGTAAG-AAATTT
1 TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAAATTT
48067612 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
66 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
*
48067669 TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGCCTTTATGTAAGAAAATTT
1 TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAAATTT
48067734 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
66 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCT
48067771 TTCTTTCTTT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
121 56 0.57
122 43 0.43
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (122 bp):
TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGCCCTTATGTAAGAAAATTT
TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
Found at i:48067790 original size:306 final size:310
Alignment explanation
Indices: 48067356--48067955 Score: 982
Period size: 306 Copynumber: 1.9 Consensus size: 310
48067346 GTTTTAAGAA
*
48067356 TTTGAAGTTGTTTTAGTTCATATATAAAATTAGAAGTTAGCTGTGCTCATAGGCCATATGTAAAG
1 TTTGAAGTTGTTTTAGTTCATATATAAAATTAGAAGTTAGCTATGCTCAT----CATATGTAAAG
**
48067421 AATTTTTTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTT
62 AAAATTTTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTT
*
48067486 TATTAATTTTGATTTGATAATTATGGATAATTTGGTCAATT-TATTTACTCTTGTTTTAAGAATT
127 TATTAATTTTGATTTGATAATTATGGATAATTTGATCAATTGT-TTTACTCTTGTTTTAAGAATT
* * *
48067550 TGAAGTTGTTTTAGTTCATATATATAGATTAGAAGTTAGCTATGCCCTTATGT-AAGAAA-T-TT
191 TGAAATTGTTTTAGTTCATATATA-A-ATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCTT
48067612 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
254 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
*
48067669 TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGC-C-T-TTATGT-AAGAAA
1 TTTGAAGTTGTTTTAGTTCATATATA-AAATTAGAAGTTAGCTATGCTCATCATATGTAAAGAAA
48067730 ATTTTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTAT
65 ATTTTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTAT
* *
48067795 TAATTTTGATTTGATAATTGTGGATACTTTGATCAATTGTTTTACTCTTGTTTTAAGAATTTGAA
130 TAATTTTGATTTGATAATTATGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGAATTTGAA
48067860 ATTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCTTTTTTCT
195 ATTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCTTTTTTCT
48067925 ATTAGCTGAAATCCAAGAACAAATGGTATCT
260 ATTAGCTGAAATCCAAGAACAAATGGTATCT
48067956 TTCTTTCTGT
Statistics
Matches: 272, Mismatches: 10, Indels: 16
0.91 0.03 0.05
Matches are distributed among these distances:
304 24 0.09
305 7 0.03
306 149 0.55
307 45 0.17
312 1 0.00
313 27 0.10
314 19 0.07
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (310 bp):
TTTGAAGTTGTTTTAGTTCATATATAAAATTAGAAGTTAGCTATGCTCATCATATGTAAAGAAAA
TTTTTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATT
AATTTTGATTTGATAATTATGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGAATTTGAAA
TTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCTTTTTTCTA
TTAGCTGAAATCCAAGAACAAATGGTATCTATATAGATTAGAAGTTGTTC
Found at i:48068021 original size:181 final size:180
Alignment explanation
Indices: 48067669--48068075 Score: 647
Period size: 181 Copynumber: 2.2 Consensus size: 180
48067659 GAAGTTGTTC
** *
48067669 TTTGAAGTTGTTTTAGTTCATATATATAAATTAGAAGTTAGCTATGCCTTTATGTAAGAAAATTT
1 TTTGAAGTTGTTTTAGTTC--ATATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAAATTT
48067734 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATCTTTCTTTCTTTCTGTTTTTGTTTATTAAT
64 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTA---TTCTTTCTTTCTGTTTTTGTTTATTAAT
*
48067799 TTTGATTTGATAATTGTGGATACTTTGATCAATTGTTTTACTCTTGTTTTAAGAA
126 TTTGATTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGAA
* *
48067854 TTTGAAATTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAAGAAATTCTT
1 TTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATAT-AAGAAAAT-TT
48067919 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTA-TCTTTCTTTCTGTTTTTGTTTATTAATTTT
64 TTTTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTTT
48067983 GATTTGATAATTGTGGATAATTTGATCAATCT-TTTTACTCTTGTTTTAAGAA
129 GATTTGATAATTGTGGATAATTTGATCAAT-TGTTTTACTCTTGTTTTAAGAA
* *
48068035 TTTGAAGTTGTTTTTGTTCATTTATAAAGTTAGAAGTTAGC
1 TTTGAAGTTGTTTTAGTTCATATATAAA-TTAGAAGTTAGC
48068076 GGTGCTCATA
Statistics
Matches: 209, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
181 104 0.50
182 13 0.06
183 31 0.15
184 7 0.03
185 54 0.26
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (180 bp):
TTTGAAGTTGTTTTAGTTCATATATAAATTAGAAGTTAGCTATGCCCATATATAAGAAAATTTTT
TTCTATTAGCTGAAATCCAAGAACAAATGGTATTCTTTCTTTCTGTTTTTGTTTATTAATTTTGA
TTTGATAATTGTGGATAATTTGATCAATTGTTTTACTCTTGTTTTAAGAA
Found at i:48072574 original size:15 final size:16
Alignment explanation
Indices: 48072551--48072583 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
48072541 CAATTTTATT
48072551 AAATAAAAAT-ATATA
1 AAATAAAAATAATATA
*
48072566 AAATTAAAATAATATA
1 AAATAAAAATAATATA
48072582 AA
1 AA
48072584 TACATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAAATAATATA
Found at i:48074293 original size:42 final size:41
Alignment explanation
Indices: 48074227--48074331 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 41
48074217 TATTGTTTTC
48074227 TCTTAGCTTATTTTTGCATTTTTATTCAATTTCTGAAGTTAGT
1 TCTTAGCTTA-TTTTGCATTTTTATTCAATTT-TGAAGTTAGT
*
48074270 TCTTAGCTTATTTTGCATTTTTATTTAATTTTGAAGTTAGT
1 TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
*
48074311 TCGTAGCTTATTTTGCATTTT
1 TCTTAGCTTATTTTGCATTTT
48074332 ATTACGAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 30 0.50
42 20 0.33
43 10 0.17
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (41 bp):
TCTTAGCTTATTTTGCATTTTTATTCAATTTTGAAGTTAGT
Found at i:48078494 original size:54 final size:55
Alignment explanation
Indices: 48078350--48078498 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 55
48078340 ATTTCTGGAG
* * * *
48078350 ATCA-AATTTCTAGAAGGGAATCAACCTTCACTCCCGGTAGGATGATTGCTCGAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATGATTACTCGAA
* * * *
48078404 ATCAGAA-TTCTAGAAAGGAATCAACCTTCGCCTCTGATAGGATTG-TTAC-CATAA
1 ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGA-TGATTACTC-GAA
48078458 ATC-GAATTTCTAGAAGGGAATCAACC-TCTACTTCTGATAGG
1 ATCAGAATTTCTAGAAGGGAATCAACCTTC-ACTTCTGATAGG
48078499 GTCATTACGA
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
53 6 0.08
54 69 0.87
55 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (55 bp):
ATCAGAATTTCTAGAAGGGAATCAACCTTCACTTCTGATAGGATGATTACTCGAA
Found at i:48082592 original size:3 final size:3
Alignment explanation
Indices: 48082584--48082630 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
48082574 ATTGTTGCAT
48082584 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
48082631 GTCTCACATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:48084572 original size:26 final size:28
Alignment explanation
Indices: 48084536--48084590 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
48084526 CTCCTTTGCA
48084536 TGAGCTTAGATATTT-TT-TTTTTCCTT
1 TGAGCTTAGATATTTCTTGTTTTTCCTT
*
48084562 TGAGCTTAGATATTTCTTGTTTTTTCTT
1 TGAGCTTAGATATTTCTTGTTTTTCCTT
48084590 T
1 T
48084591 TAGGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 15 0.58
27 2 0.08
28 9 0.35
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.62
Consensus pattern (28 bp):
TGAGCTTAGATATTTCTTGTTTTTCCTT
Found at i:48086726 original size:174 final size:174
Alignment explanation
Indices: 48086436--48087586 Score: 2059
Period size: 174 Copynumber: 6.6 Consensus size: 174
48086426 GTTATTTTCA
* * * * * *
48086436 GATGGAAATGAAATTGTATCGATTCGAAATGGTGAAGGTAAGCTTGTTAATACTAGTATATTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
* * * * *
48086501 TGTCTAGGAGCTCATGGAACTTGAAAACTTAATGTGTGATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
48086566 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
48086610 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
48086675 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
48086740 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
48086784 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
48086849 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
48086914 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
48086958 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
48087023 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
48087088 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
48087132 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
48087197 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
48087262 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
48087306 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
48087371 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
* *
48087436 AGTACTAAATTTGGTTGCAATAACCTCGTTGTCATTGTTTTCTC
131 AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
* * * * * * * * *
48087480 AATGGAAACGAAATTGTATCGTTTCAAAATGGTGAATGTAAGCTTGTTAATACTAGTATAATCCA
1 GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
* * * * *
48087545 AGTATGTGAGCTCATAGAACTTGAAAACTTAATGTGTAATCC
66 TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCC
48087587 GGTAAAAGTA
Statistics
Matches: 950, Mismatches: 27, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 950 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (174 bp):
GATGGAAATGAAATTGTTTTGTTTCGAAATGGTGAAGGTAAGCTTGTTGATACCAGTATACTCCA
TGTCTATGAGCTCATAGAACATGAAAACTTGATGTGTAATCCTTAATTCATTAAGTGCTCGAATC
AGTACTAAATTTGGTTGCAATTACCTCGTTGTCATTGTTTTCTT
Found at i:48097693 original size:20 final size:21
Alignment explanation
Indices: 48097653--48097693 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48097643 AATTCATAAC
*
48097653 AAAAAATATATATTTATCATA
1 AAAAAATACATATTTATCATA
*
48097674 AAAAAATACCTATTTA-CATA
1 AAAAAATACATATTTATCATA
48097694 TATTATGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAATACATATTTATCATA
Found at i:48097973 original size:17 final size:17
Alignment explanation
Indices: 48097946--48097987 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
48097936 TATTTTTATT
48097946 TTTTATAATTTTAATG-AA
1 TTTT-TAATTTTAA-GAAA
*
48097964 TTTTTAATTTTCAGAAA
1 TTTTTAATTTTAAGAAA
48097981 TTTTTAA
1 TTTTTAA
48097988 AAATTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.77
18 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTTAATTTTAAGAAA
Found at i:48097973 original size:27 final size:29
Alignment explanation
Indices: 48097918--48097998 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 29
48097908 ATTTTTCATG
*
48097918 TTTATAAATTTTAAAAAATATTTTTATTT
1 TTTATAAATTTTAAAAAATATTTTAATTT
**
48097947 TTTAT-AATTTTAATGAAT-TTTTAA-TT
1 TTTATAAATTTTAAAAAATATTTTAATTT
* * *
48097973 TTCAGAAATTTT-TAAAA-ATTTTAATT
1 TTTATAAATTTTAAAAAATATTTTAATT
48097999 GAAAATGCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 13 0.32
27 12 0.29
28 11 0.27
29 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTATAAATTTTAAAAAATATTTTAATTT
Found at i:48106261 original size:20 final size:19
Alignment explanation
Indices: 48106222--48106259 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48106212 AACAACTTTC
48106222 AAAAATTTAAAATATTTAT
1 AAAAATTTAAAATATTTAT
*
48106241 AAAAATTTTAAA-ATTTAT
1 AAAAATTTAAAATATTTAT
48106259 A
1 A
48106260 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTTAAAATATTTAT
Found at i:48106271 original size:18 final size:19
Alignment explanation
Indices: 48106222--48106299 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
48106212 AACAACTTTC
48106222 AAAAA-TTTAAAATATTTAT
1 AAAAATTTTAAAA-ATTTAT
48106241 AAAAATTTT-AAAATTTAT
1 AAAAATTTTAAAAATTTAT
* *
48106259 -ATATTTTTAAAAAATTT-T
1 AAAAATTTT-AAAAATTTAT
*
48106277 -AAAATTTATAAAGAATATAT
1 AAAAATTT-TAAA-AATTTAT
48106297 AAA
1 AAA
48106300 GTAAAAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 6 0.13
18 15 0.32
19 20 0.43
20 4 0.09
21 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
AAAAATTTTAAAAATTTAT
Found at i:48106271 original size:27 final size:28
Alignment explanation
Indices: 48106223--48106288 Score: 100
Period size: 27 Copynumber: 2.4 Consensus size: 28
48106213 ACAACTTTCA
48106223 AAAATTTA-AAATATTTATAAAAATTTT
1 AAAATTTATAAATATTTATAAAAATTTT
* *
48106250 AAAATTTATATATTTTTA-AAAAATTTT
1 AAAATTTATAAATATTTATAAAAATTTT
48106277 AAAATTTATAAA
1 AAAATTTATAAA
48106289 GAATATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATTTATAAATATTTATAAAAATTTT
Found at i:48111125 original size:79 final size:79
Alignment explanation
Indices: 48110841--48111393 Score: 596
Period size: 81 Copynumber: 6.9 Consensus size: 79
48110831 AGTTTTAAGT
* * ** *
48110841 ATTGTGTCAAAAA-AGCAAATATGATCGGAATTTATAATGAGATTGTTTAAAAAAATATCTTAAA
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTCAAAAAAA-ATCTTAAA
48110905 TGGGTGGTTCTAGAC
65 TGGGTGGTTCTAGAC
* * * * *
48110920 GTTATGTCAAAAAGAGCAGATATGATCAAAACTTATAATTAGATTGTTCAAAAAATAATCTTAAA
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTCAAAAAA-AATCTTAAA
*
48110985 TGGGTGGTTCTTCTAGGC
65 TGGGTGG---TTCTAGAC
* * * *
48111003 ATTGTGTC-AAAAGAACATATATGATCAGAACTTATAATAAGATTGTTCAAAAAAAATCTTAAAT
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTCAAAAAAAATCTTAAAT
* *
48111067 GGATGGTTCTAGTC
66 GGGTGGTTCTAGAC
* *
48111081 ATTGTGTCAAAAAGAGCAGATATGATCAAAACCTATAATGAGATTGTTCAAAAAAAAAACTCTTG
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTC--AAAAAAAA-TCTTA
* *
48111146 AAT---TTGTTCTAGGC
63 AATGGGTGGTTCTAGAC
** * * * *
48111160 ATTGTGTCAAAAA-ATATATATATGATCAGAATCTATAATAAGATTGTTGAAAAAAAAAATCTTA
1 ATTGTGTCAAAAAGA-GCAGATATGATCAGAACCTATAATGAGATTGTT--CAAAAAAAATCTTA
* *
48111224 AATGAGTGGTTCTAGCC
63 AATGGGTGGTTCTAGAC
* * *
48111241 ATTGTGTTAAAAAGAGCAGATATAATCAAAACCTATAATGAGATTGTTCAAAAAAAAAATCTTAA
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTC--AAAAAAAATCTTAA
*
48111306 ATGGGTGATTCTAGAC
64 ATGGGTGGTTCTAGAC
* * * * *
48111322 GTTGTGTAAAAAAGAACAGATATGATCAGAATCTATGATGAGATTGTTCAAAAAAAATCTTAAAT
1 ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTCAAAAAAAATCTTAAAT
*
48111387 GAGTGGT
66 GGGTGGT
48111394 ATGAGTCAAT
Statistics
Matches: 400, Mismatches: 56, Indels: 36
0.81 0.11 0.07
Matches are distributed among these distances:
78 23 0.06
79 124 0.31
80 50 0.12
81 140 0.35
82 50 0.12
83 13 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (79 bp):
ATTGTGTCAAAAAGAGCAGATATGATCAGAACCTATAATGAGATTGTTCAAAAAAAATCTTAAAT
GGGTGGTTCTAGAC
Found at i:48114871 original size:2 final size:2
Alignment explanation
Indices: 48114859--48114899 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
48114849 ATTTAAGCAT
*
48114859 TA TA TA AA TA 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 TA TA TA TA TA T
48114900 TCACAGGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:48117525 original size:31 final size:30
Alignment explanation
Indices: 48117490--48117588 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 30
48117480 ACAATAAGCA
*
48117490 TTTTAAAATTTTAATTAGGTCCTCTCAAAAT
1 TTTTAAAATTTTAATTACGTCCT-TCAAAAT
* **
48117521 TTTTAAAAATTCTAATTACG-CCTTCCAAAGG
1 TTTT-AAAATTTTAATTACGTCCTT-CAAAAT
**
48117552 TTTTAAAATTTTAATTATATCCTTCAAAAT
1 TTTTAAAATTTTAATTACGTCCTTCAAAAT
48117582 TTATTAA
1 TT-TTAA
48117589 TCCTCTTAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
30 19 0.35
31 23 0.42
32 13 0.24
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTTAAAATTTTAATTACGTCCTTCAAAAT
Found at i:48122113 original size:68 final size:68
Alignment explanation
Indices: 48122004--48122141 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
48121994 GTTGAATGAA
48122004 TTGGATGTAAATTTAAAATGCTGCGTCGAGTGATAAGGAACTTGATTTTCTTTAAGTAAAGTCAC
1 TTGGATGTAAATTTAAAATGCTGCGTCGAGTGATAAGGAACTTGATTTTCTTTAAGTAAAGTCAC
48122069 GAG
66 GAG
48122072 TTGGATGTAAATTTAAAATGCTGCGTCGAGTGATAAGGAACTTGATTTTCTTTAAGTAAAGTCAC
1 TTGGATGTAAATTTAAAATGCTGCGTCGAGTGATAAGGAACTTGATTTTCTTTAAGTAAAGTCAC
48122137 GAG
66 GAG
48122140 TT
1 TT
48122142 TGAGTCTTGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (68 bp):
TTGGATGTAAATTTAAAATGCTGCGTCGAGTGATAAGGAACTTGATTTTCTTTAAGTAAAGTCAC
GAG
Found at i:48122915 original size:37 final size:37
Alignment explanation
Indices: 48122865--48122938 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
48122855 TCATTAAATT
* * * *
48122865 TTAATCTAAAATAAATCATTTGACGTTCTAATGATGA
1 TTAATCTAAAATAAATCATCTAACATTCGAATGATGA
48122902 TTAATCTAAAATAAATCATCTAACATTCGAATGATGA
1 TTAATCTAAAATAAATCATCTAACATTCGAATGATGA
48122939 AATATAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (37 bp):
TTAATCTAAAATAAATCATCTAACATTCGAATGATGA
Found at i:48123542 original size:16 final size:16
Alignment explanation
Indices: 48123521--48123560 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
48123511 TCAACTTAAT
48123521 AGGCCCAAGCCCAACA
1 AGGCCCAAGCCCAACA
*
48123537 AGGCCCAAGCCCAATA
1 AGGCCCAAGCCCAACA
48123553 AGGCCCAA
1 AGGCCCAA
48123561 ATATATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.40, G:0.20, T:0.03
Consensus pattern (16 bp):
AGGCCCAAGCCCAACA
Found at i:48123743 original size:22 final size:23
Alignment explanation
Indices: 48123712--48123768 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
48123702 CTATTTGCAA
*
48123712 TGTGTAGGTTTCT-CTTATGTCT
1 TGTGTGGGTTTCTCCTTATGTCT
*
48123734 TGTGTGGGTTTTGTCCTTATGTCT
1 TGTGTGGG-TTTCTCCTTATGTCT
48123758 TGTGTGGGTTT
1 TGTGTGGGTTT
48123769 TGTCCATTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 7 0.23
23 7 0.23
24 17 0.55
ACGTcount: A:0.05, C:0.11, G:0.30, T:0.54
Consensus pattern (23 bp):
TGTGTGGGTTTCTCCTTATGTCT
Found at i:48123752 original size:24 final size:24
Alignment explanation
Indices: 48123725--48123773 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48123715 GTAGGTTTCT
48123725 CTTATGTCTTGTGTGGGTTTTGTC
1 CTTATGTCTTGTGTGGGTTTTGTC
48123749 CTTATGTCTTGTGTGGGTTTTGTC
1 CTTATGTCTTGTGTGGGTTTTGTC
48123773 C
1 C
48123774 ATTCTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.04, C:0.14, G:0.29, T:0.53
Consensus pattern (24 bp):
CTTATGTCTTGTGTGGGTTTTGTC
Found at i:48127806 original size:21 final size:21
Alignment explanation
Indices: 48127782--48127821 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48127772 ATCGAGGTCA
48127782 CGTTGTAATATATATATATCG
1 CGTTGTAATATATATATATCG
48127803 CGTTGTAATATATATATAT
1 CGTTGTAATATATATATAT
48127822 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (21 bp):
CGTTGTAATATATATATATCG
Found at i:48127815 original size:2 final size:2
Alignment explanation
Indices: 48127810--48127843 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48127800 TCGCGTTGTA
48127810 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
48127844 CAAGCAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48128954 original size:37 final size:38
Alignment explanation
Indices: 48128899--48128975 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
48128889 GATCCAAGTT
* * *
48128899 TTCAGAGGGAATTAATGAGATGCATACATGT-GGGGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
*
48128936 TTCAAAGGGAAATAATGAGATGTATACATGTCGGAGTA
1 TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
48128974 TT
1 TT
48128976 ATGTGGGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (38 bp):
TTCAAAGGGAAATAATGAGATGCATACATGTCGGAGTA
Found at i:48133414 original size:11 final size:11
Alignment explanation
Indices: 48133398--48133455 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
48133388 TATTTTTTTA
48133398 TTTTAAAATAC
1 TTTTAAAATAC
48133409 TTTTAAAATAC
1 TTTTAAAATAC
48133420 TTTTTTAAAAT--
1 --TTTTAAAATAC
* *
48133431 TTTTTAAAT-T
1 TTTTAAAATAC
48133441 TTTTAAAATAC
1 TTTTAAAATAC
48133452 TTTT
1 TTTT
48133456 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.20
10 8 0.20
11 15 0.38
13 9 0.22
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:48133465 original size:10 final size:10
Alignment explanation
Indices: 48133420--48133504 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 10
48133410 TTTAAAATAC
*
48133420 TTTTTTAAAA
1 TTTTTTAAAT
48133430 TTTTTTAAAT
1 TTTTTTAAAT
*
48133440 TTTTTAAAAT
1 TTTTTTAAAT
48133450 ACTTTTTT-AAT
1 --TTTTTTAAAT
*
48133461 TTTTTTTAA-
1 TTTTTTAAAT
*
48133470 -TTTTAAAAT
1 TTTTTTAAAT
*
48133479 ATATTTTTTAAT
1 -T-TTTTTAAAT
*
48133491 TTTTTTTAAT
1 TTTTTTAAAT
48133501 TTTT
1 TTTT
48133505 AAAATAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
8 6 0.10
9 6 0.10
10 33 0.54
11 4 0.07
12 12 0.20
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:48133530 original size:31 final size:30
Alignment explanation
Indices: 48133409--48133517 Score: 148
Period size: 30 Copynumber: 3.6 Consensus size: 30
48133399 TTTAAAATAC
* * *
48133409 TTTTAAAATACTTTTTTAAAATTTTTTAAATT
1 TTTTAAAATAATTTTTT-AATTTTTTTTAA-T
*
48133441 TTTTAAAATACTTTTTTAATTTTTTTTAA-
1 TTTTAAAATAATTTTTTAATTTTTTTTAAT
48133470 TTTTAAAATATATTTTTTAATTTTTTTTAAT
1 TTTTAAAATA-ATTTTTTAATTTTTTTTAAT
48133501 TTTTAAAATAATTTTTT
1 TTTTAAAATAATTTTTT
48133518 GGTATTTATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
29 10 0.14
30 25 0.35
31 20 0.28
32 17 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTAAAATAATTTTTTAATTTTTTTTAAT
Found at i:48149558 original size:12 final size:11
Alignment explanation
Indices: 48149531--48149556 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48149521 ATTTTTTAAA
48149531 TTTTAAAATAT
1 TTTTAAAATAT
48149542 TTTTAAAATAT
1 TTTTAAAATAT
48149553 TTTT
1 TTTT
48149557 TATTTTTAAA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:48149575 original size:19 final size:18
Alignment explanation
Indices: 48149539--48149576 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48149529 AATTTTAAAA
*
48149539 TATTTTTAAAATATTTTT
1 TATTTTTAAAATAATTTT
48149557 TATTTTTAAAATAAATTTT
1 TATTTTTAAAAT-AATTTT
48149576 T
1 T
48149577 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTAAAATAATTTT
Found at i:48149761 original size:12 final size:12
Alignment explanation
Indices: 48149744--48149770 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48149734 GATCACCTCT
48149744 ACTCAAATAGTC
1 ACTCAAATAGTC
48149756 ACTCAAATAGTC
1 ACTCAAATAGTC
48149768 ACT
1 ACT
48149771 TGTGTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (12 bp):
ACTCAAATAGTC
Found at i:48155348 original size:23 final size:24
Alignment explanation
Indices: 48155299--48155345 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
48155289 ATAATTATTG
48155299 GCAATGTGTTCTTGCTTTTTCCTT
1 GCAATGTGTTCTTGCTTTTTCCTT
48155323 GCAATGTGTTCTTGCTTTTTCCT
1 GCAATGTGTTCTTGCTTTTTCCT
48155346 GCATAGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.17, T:0.53
Consensus pattern (24 bp):
GCAATGTGTTCTTGCTTTTTCCTT
Found at i:48161007 original size:22 final size:22
Alignment explanation
Indices: 48160982--48161026 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
48160972 AATAATAAAA
48160982 ATATATTTTTAT-ATTAATATTT
1 ATATATTTTTATAATTAA-ATTT
48161004 ATATATTTTTATAATTAAATTT
1 ATATATTTTTATAATTAAATTT
48161026 A
1 A
48161027 AATAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATATTTTTATAATTAAATTT
Found at i:48164281 original size:6 final size:6
Alignment explanation
Indices: 48164272--48164300 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48164262 TGGGTTGAGG
48164272 TTGCGC TTGCGC TTGCGC TTGCGC TTGCG
1 TTGCGC TTGCGC TTGCGC TTGCGC TTGCG
48164301 GGGTTGGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.34, T:0.34
Consensus pattern (6 bp):
TTGCGC
Found at i:48165246 original size:2 final size:2
Alignment explanation
Indices: 48165239--48165277 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
48165229 ATTATAACAA
48165239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48165278 ATGATATAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48171000 original size:15 final size:15
Alignment explanation
Indices: 48170980--48171012 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48170970 CTTGAAAGGC
48170980 ATTCTCAATATAATA
1 ATTCTCAATATAATA
*
48170995 ATTCTCAATATACTA
1 ATTCTCAATATAATA
48171010 ATT
1 ATT
48171013 TATAGAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTCTCAATATAATA
Found at i:48172038 original size:2 final size:2
Alignment explanation
Indices: 48172031--48172059 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48172021 TAATATTGGG
48172031 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 T
48172060 TAAAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48173751 original size:31 final size:31
Alignment explanation
Indices: 48173708--48173775 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
48173698 TTGCAATTTG
* *
48173708 GTCATTGAACTATTCAGAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
*
48173739 GTCACTGAACTATTCAAAAGTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
48173770 GTCACT
1 GTCACT
48173776 ACGATGGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:48177055 original size:4 final size:4
Alignment explanation
Indices: 48177046--48177086 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
48177036 GCCCATTTTA
*
48177046 ATGT ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
48177087 AGAGATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:48180526 original size:19 final size:19
Alignment explanation
Indices: 48180486--48180535 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
48180476 TAAATGAAAT
* *
48180486 AAATTATTAAAAATTCATA
1 AAATTATTAAAAATTAAAA
*
48180505 AAATTTTTAAAAATTAAAAA
1 AAATTATTAAAAATT-AAAA
48180525 AAATTA-TAAAA
1 AAATTATTAAAA
48180536 TTTGTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTATTAAAAATTAAAA
Found at i:48180804 original size:21 final size:21
Alignment explanation
Indices: 48180764--48180804 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48180754 TTGAAAGAAA
* *
48180764 ATAAATATTTTTGAATTTTTT
1 ATAAATATTTTTAAAATTTTT
*
48180785 ATAATTATTTTTAAAATTTT
1 ATAAATATTTTTAAAATTTT
48180805 AGAATCAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATAAATATTTTTAAAATTTTT
Found at i:48181513 original size:87 final size:87
Alignment explanation
Indices: 48181409--48181577 Score: 329
Period size: 87 Copynumber: 1.9 Consensus size: 87
48181399 GAGTTAAACA
48181409 TCTCGGAACTCCAAAACTCCGATCCTCTTTGGGTGTGCATGAGCATGGTGTCCCATGCCAACATA
1 TCTCGGAACTCCAAAACTCCGATCCTCTTTGGGTGTGCATGAGCATGGTGTCCCATGCCAACATA
48181474 GCTCTCTTCACTACAATTTAAC
66 GCTCTCTTCACTACAATTTAAC
*
48181496 TCTCGGAACTCCGAAACTCCGATCCTCTTTGGGTGTGCATGAGCATGGTGTCCCATGCCAACATA
1 TCTCGGAACTCCAAAACTCCGATCCTCTTTGGGTGTGCATGAGCATGGTGTCCCATGCCAACATA
48181561 GCTCTCTTCACTACAAT
66 GCTCTCTTCACTACAAT
48181578 CTTAGCACTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (87 bp):
TCTCGGAACTCCAAAACTCCGATCCTCTTTGGGTGTGCATGAGCATGGTGTCCCATGCCAACATA
GCTCTCTTCACTACAATTTAAC
Found at i:48183066 original size:34 final size:34
Alignment explanation
Indices: 48182995--48183059 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
48182985 GTTTTTGAAA
48182995 TTTTAAATAAATTAATTAAATTAGAGTTTAGGGT
1 TTTTAAATAAATTAATTAAATTAGAGTTTAGGGT
* *
48183029 TTTTAAGA-AAATTATTTAAATTATAGTTTAG
1 TTTTAA-ATAAATTAATTAAATTAGAGTTTAG
48183060 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (34 bp):
TTTTAAATAAATTAATTAAATTAGAGTTTAGGGT
Found at i:48183493 original size:126 final size:126
Alignment explanation
Indices: 48183143--48183771 Score: 1010
Period size: 126 Copynumber: 5.0 Consensus size: 126
48183133 ATAGTATCTG
* *
48183143 AAAAATAATTTTGAGAAGACGGTTCTGAA-AAGATAATGTAAAAAACGCTTCAAGCAGGATGCAC
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTAAAAAACGCTTCAAGTAGGATGCAC
* * * *
48183207 TGTTAGCAAAATTACTGAAAAAAGCTCCCGCGTGGATGCTCTTTTTCTATAGTAGTTCCTGA
65 TGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
* *
48183269 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGT-TTAAAAACGCTTCAAGTAGGATGCAAT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
*
48183333 GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTAA
66 GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
* * ** *
48183394 AAAAATAATTTTGAGAAGACGGTTATGAACAAATAGTGTCAAAAACATTTCAAGTAGAATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
**
48183459 GTCAATAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
66 GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
* * **
48183520 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAATGCTTCAAACAGGATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
* * * *
48183585 GTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTGTTTTTCTACAGTAGCTCCTGA
66 GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
48183646 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
1 AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
*
48183711 GTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
66 GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
48183772 TTGACCCTAG
Statistics
Matches: 461, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 116 0.25
126 343 0.74
127 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (126 bp):
AAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAACGCTTCAAGTAGGATGCACT
GTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
Found at i:48186800 original size:24 final size:24
Alignment explanation
Indices: 48186744--48186800 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
48186734 CACTCTTTAT
*
48186744 ATTTTATTAAAAATATAAAAATAA
1 ATTTTATTAAAAATATAAAAACAA
*
48186768 ATTACTATT-AAAATATGAAAAACAA
1 ATT-TTATTAAAAATAT-AAAAACAA
*
48186793 CTTTTATT
1 ATTTTATT
48186801 TTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTTTATTAAAAATATAAAAACAA
Found at i:48188862 original size:11 final size:11
Alignment explanation
Indices: 48188836--48188875 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
48188826 AGAGAGCTTT
48188836 GAGAAATTTAGA
1 GAGAAATTT-GA
48188848 GAGAAATTTGA
1 GAGAAATTTGA
*
48188859 GAGAAAATTGA
1 GAGAAATTTGA
48188870 -AGAAAT
1 GAGAAAT
48188876 AGTGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:48192699 original size:27 final size:26
Alignment explanation
Indices: 48192669--48192728 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
48192659 GACCAATCAC
* *
48192669 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGG-ACCAAAGGTGCAAAAGAG
*
48192696 ATTGGCCTGACCAAAGGTGCAAAAGAG
1 ATTGG-CGGACCAAAGGTGCAAAAGAG
48192723 ATTGGC
1 ATTGGC
48192729 CTGACCGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (26 bp):
ATTGGCGGACCAAAGGTGCAAAAGAG
Found at i:48192729 original size:27 final size:27
Alignment explanation
Indices: 48192678--48192734 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
48192668 CATTGGCGGC
* *
48192678 ACCAAAGGTGCCAAAGTGATTGGCCTG
1 ACCAAAGGTGCAAAAGAGATTGGCCTG
48192705 ACCAAAGGTGCAAAAGAGATTGGCCTG
1 ACCAAAGGTGCAAAAGAGATTGGCCTG
48192732 ACC
1 ACC
48192735 GGACTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (27 bp):
ACCAAAGGTGCAAAAGAGATTGGCCTG
Found at i:48193309 original size:18 final size:17
Alignment explanation
Indices: 48193280--48193314 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48193270 GTAATGTTTC
*
48193280 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
48193297 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
48193315 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:48193691 original size:27 final size:27
Alignment explanation
Indices: 48193653--48193709 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
48193643 ATTTTAATCC
*
48193653 GGTCAGGCCAATCTCTTTGGCACCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
*
48193680 GGTCAGGCCAATCACTTTGGCGCCTTT
1 GGTCAGGCCAATCACTTTGGCACCTTT
48193707 GGT
1 GGT
48193710 GCCGCCAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.26, T:0.32
Consensus pattern (27 bp):
GGTCAGGCCAATCACTTTGGCACCTTT
Found at i:48193716 original size:27 final size:27
Alignment explanation
Indices: 48193653--48193718 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
48193643 ATTTTAATCC
* *
48193653 GGTCAGGCCAATCTCTTTGGCACCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
* *
48193680 GGTCAGGCCAATCACTTTGGCGCCTTT
1 GGTCACGCCAATCACTTTGGCACCTTT
48193707 GGTGC-CGCCAAT
1 GGT-CACGCCAAT
48193719 GTGATTGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.29
Consensus pattern (27 bp):
GGTCACGCCAATCACTTTGGCACCTTT
Found at i:48193831 original size:27 final size:28
Alignment explanation
Indices: 48193776--48193837 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
48193766 TTGTTTTTGT
***
48193776 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAATAGGATA
48193804 ATATTTTGGTAAATAAAAAAA-AGGATA
1 ATATTTTGGTAAATAAAAAAATAGGATA
*
48193831 ACATTTT
1 ATATTTT
48193838 AGTTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAATAGGATA
Found at i:48213286 original size:40 final size:40
Alignment explanation
Indices: 48213231--48213310 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
48213221 GTGTAAGAGA
48213231 ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
1 ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
48213271 ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
1 ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
48213311 GCGGTGCGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.38, T:0.28
Consensus pattern (40 bp):
ACATTAAGGGTGGGTTTAGATGGGCAATTAGGTGCACGGT
Found at i:48218105 original size:39 final size:39
Alignment explanation
Indices: 48218062--48218139 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
48218052 TGTTTCATAA
48218062 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
1 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
48218101 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
1 AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
48218140 TTGATTGGTA
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:0.46, C:0.08, G:0.28, T:0.18
Consensus pattern (39 bp):
AAGGAAAAACTAAATTGTGGACAAAAGGGAATGTGAGCT
Found at i:48223708 original size:30 final size:31
Alignment explanation
Indices: 48223651--48223708 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
48223641 TCAGTGACTA
*
48223651 TTTTGTTACTTTTTTATAAAGTTAGTGATTG
1 TTTTGTTACTTTTTCATAAAGTTAGTGATTG
48223682 TTTTGTTA-TTTTTCA-AAAGTTGAGTGA
1 TTTTGTTACTTTTTCATAAAGTT-AGTGA
48223709 CTGAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 11 0.44
31 8 0.32
ACGTcount: A:0.24, C:0.03, G:0.17, T:0.55
Consensus pattern (31 bp):
TTTTGTTACTTTTTCATAAAGTTAGTGATTG
Found at i:48223835 original size:29 final size:29
Alignment explanation
Indices: 48223803--48223859 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
48223793 AAAACTTTTG
48223803 ATTATTTACACAAATAACCTATTTTGAAA
1 ATTATTTACACAAATAACCTATTTTGAAA
** *
48223832 ATTATTTACGTAAATGACCTATTTTGAA
1 ATTATTTACACAAATAACCTATTTTGAA
48223860 CAGTAAACGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (29 bp):
ATTATTTACACAAATAACCTATTTTGAAA
Found at i:48224075 original size:38 final size:38
Alignment explanation
Indices: 48224033--48224108 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
48224023 AGATTGGCAT
* *
48224033 AAATTAGTGGCTAAAATTAGTATAACTTTAAATAAAAA
1 AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
*
48224071 AAATTAGTGGCGCAAATTAATATAACTTTAAATAAAAA
1 AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
48224109 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (38 bp):
AAATTAGTGGCGAAAATTAATATAACTTTAAATAAAAA
Found at i:48226522 original size:100 final size:100
Alignment explanation
Indices: 48226406--48226614 Score: 395
Period size: 100 Copynumber: 2.1 Consensus size: 100
48226396 ATTAAATACA
48226406 TTAAAAT--TATTAAAATAAATATTTCCCAACAAATGAAAAAAATTAAAAAATATACTTAAATAA
1 TTAAAATAGTATTAAAATAAATATTTCCCAACAAATGAAAAAAATTAAAAAATATACTTAAATAA
*
48226469 CACTAAAATAAGTGTAATGTAAGAAACATATACCT
66 CACTAAAATAAGTGTAATGTAAGAAACAAATACCT
48226504 TTAAAATAGTATTAAAATAAATATTTCCCAACAAATGAAAAAAATTAAAAAATATACTTAAATAA
1 TTAAAATAGTATTAAAATAAATATTTCCCAACAAATGAAAAAAATTAAAAAATATACTTAAATAA
48226569 CACTAAAATAAGTGTAATGTAAGAAACAAATACCT
66 CACTAAAATAAGTGTAATGTAAGAAACAAATACCT
48226604 TTAAAATAGTA
1 TTAAAATAGTA
48226615 GCAAAATTAA
Statistics
Matches: 108, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
98 7 0.06
100 101 0.94
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (100 bp):
TTAAAATAGTATTAAAATAAATATTTCCCAACAAATGAAAAAAATTAAAAAATATACTTAAATAA
CACTAAAATAAGTGTAATGTAAGAAACAAATACCT
Found at i:48229606 original size:23 final size:23
Alignment explanation
Indices: 48229577--48229639 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
48229567 GGCCCGGCCC
*
48229577 ATTTTTAATTAAAATTAAAATTA
1 ATTTTTAATTAAAATTAAAACTA
* *
48229600 TTTTTTAAATAAAATTAAAACTA
1 ATTTTTAATTAAAATTAAAACTA
*
48229623 ATTGTT-ATTAAAATTAA
1 ATTTTTAATTAAAATTAA
48229640 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 10 0.29
23 24 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTTTAATTAAAATTAAAACTA
Found at i:48229652 original size:16 final size:16
Alignment explanation
Indices: 48229615--48229654 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
48229605 TAAATAAAAT
* *
48229615 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
48229631 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
48229647 TAAAATTA
1 TAAAATTA
48229655 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:48233033 original size:76 final size:76
Alignment explanation
Indices: 48232907--48233057 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
48232897 TGGCGAAGTT
*
48232907 GTGGTAGTTTCTTTGGTGGTGGAGGTAGAGGAGGAGGAGGTGGTGGGGGTGGAGGAGGTGGTGCT
1 GTGGTAGTTTCTTTGGCGGTGGAGGTAGAGGAGGAGGAGGTGGTGGGGGTGGAGGAGGTGGTGCT
48232972 TCAAGTAATGC
66 TCAAGTAATGC
*
48232983 GTGGTAGTTTCTTTGGCGGTGGAGGTGGAGGAGGAGGAGGTGGTGGGGGTGGAGGAGGTGGTGCT
1 GTGGTAGTTTCTTTGGCGGTGGAGGTAGAGGAGGAGGAGGTGGTGGGGGTGGAGGAGGTGGTGCT
48233048 TCAAGTAATG
66 TCAAGTAATG
48233058 GTATTGGATA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.17, C:0.05, G:0.52, T:0.26
Consensus pattern (76 bp):
GTGGTAGTTTCTTTGGCGGTGGAGGTAGAGGAGGAGGAGGTGGTGGGGGTGGAGGAGGTGGTGCT
TCAAGTAATGC
Found at i:48233510 original size:24 final size:24
Alignment explanation
Indices: 48233470--48233517 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
48233460 TAGCTGGCAT
48233470 TGAAGGAGGAGGAGGAGGTGGTGG
1 TGAAGGAGGAGGAGGAGGTGGTGG
*
48233494 TGAAGGCAGG-GGTGGAGGTGGTGG
1 TGAAGG-AGGAGGAGGAGGTGGTGG
48233518 AAATGGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.21, C:0.02, G:0.62, T:0.15
Consensus pattern (24 bp):
TGAAGGAGGAGGAGGAGGTGGTGG
Found at i:48233638 original size:6 final size:6
Alignment explanation
Indices: 48233627--48233655 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
48233617 GGGATTTGGT
48233627 ATGGGA ATGGGA ATGGGA ATGGGA ATGGG
1 ATGGGA ATGGGA ATGGGA ATGGGA ATGGG
48233656 CATTGGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (6 bp):
ATGGGA
Found at i:48234152 original size:2 final size:2
Alignment explanation
Indices: 48234145--48234175 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
48234135 CACATACAAC
48234145 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 A
48234176 CAAAATAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48250589 original size:114 final size:115
Alignment explanation
Indices: 48250378--48250606 Score: 451
Period size: 114 Copynumber: 2.0 Consensus size: 115
48250368 CTTGATTTTT
48250378 TTATTTCAAATTAGTCCCTGGTATTTTCTTAAGAAAAAGTTAGAGAAAAAGGTTAAAGTACGAAT
1 TTATTTCAAATTAGTCCCTGGTATTTTCTTAAGAAAAAGTTAGAGAAAAAGGTTAAAGTACGAAT
48250443 ATGATACAATTGTCAAGTTTAGAGATTAACTTGGACAAATAAAAAGTTCA
66 ATGATACAATTGTCAAGTTTAGAGATTAACTTGGACAAATAAAAAGTTCA
48250493 TTATTTCAAA-TAGTCCCTGGTATTTTCTTAAGAAAAAGTTAGAGAAAAAGGTTAAAGTACGAAT
1 TTATTTCAAATTAGTCCCTGGTATTTTCTTAAGAAAAAGTTAGAGAAAAAGGTTAAAGTACGAAT
48250557 ATGATACAATTGTCAAGTTTAGAGATTAACTTGGACAAATAAAAAGTTCA
66 ATGATACAATTGTCAAGTTTAGAGATTAACTTGGACAAATAAAAAGTTCA
48250607 AGCTCAAATG
Statistics
Matches: 114, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 104 0.91
115 10 0.09
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (115 bp):
TTATTTCAAATTAGTCCCTGGTATTTTCTTAAGAAAAAGTTAGAGAAAAAGGTTAAAGTACGAAT
ATGATACAATTGTCAAGTTTAGAGATTAACTTGGACAAATAAAAAGTTCA
Found at i:48266974 original size:20 final size:20
Alignment explanation
Indices: 48266949--48267019 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
48266939 AAAAATATAA
48266949 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTATAAAT
48266969 ATTTTG-AATTTTTGA-AAATT
1 ATTTTGAAATTTTT-ATAAA-T
* *
48266989 ATTTTGAATTATTTTTGTAATT
1 ATTTTGAA--ATTTTTATAAAT
*
48267011 TTTTTGAAA
1 ATTTTGAAA
48267020 GACCAATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 10 0.24
20 15 0.36
21 1 0.02
22 8 0.19
23 8 0.19
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAAATTTTTATAAAT
Found at i:48266980 original size:19 final size:20
Alignment explanation
Indices: 48266949--48266998 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
48266939 AAAAATATAA
48266949 ATTTTGAAATTTTT-ATAAA-T
1 ATTTTG-AATTTTTGA-AAATT
48266969 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTTTTGAAAATT
48266989 ATTTTGAATT
1 ATTTTGAATT
48266999 ATTTTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATTTTGAATTTTTGAAAATT
Found at i:48270628 original size:26 final size:26
Alignment explanation
Indices: 48270592--48270650 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
48270582 TTTTAAATGT
48270592 CAATTTAGATGTCCTATGTGACAATC
1 CAATTTAGATGTCCTATGTGACAATC
*
48270618 CAATTTGGATGTCCTATGTGACAATC
1 CAATTTAGATGTCCTATGTGACAATC
48270644 CAATTTA
1 CAATTTA
48270651 AATTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (26 bp):
CAATTTAGATGTCCTATGTGACAATC
Found at i:48281206 original size:31 final size:31
Alignment explanation
Indices: 48281171--48281231 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
48281161 AATTTTGAAA
* *
48281171 TTTAAAAAGTACAAGGACTGAAATTGATCAT
1 TTTAAAAAGTACAAAGACTAAAATTGATCAT
*
48281202 TTTAAAAAGTATAAAGACTAAAATTGATCA
1 TTTAAAAAGTACAAAGACTAAAATTGATCA
48281232 AATTAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (31 bp):
TTTAAAAAGTACAAAGACTAAAATTGATCAT
Found at i:48281602 original size:31 final size:31
Alignment explanation
Indices: 48281567--48281627 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
48281557 AATTTTGAAA
* *
48281567 TTTAAAAAGTACAAGGACTGAAATTGATCAT
1 TTTAAAAAGTACAAAGACTAAAATTGATCAT
*
48281598 TTTAAAAAGTATAAAGACTAAAATTGATCA
1 TTTAAAAAGTACAAAGACTAAAATTGATCA
48281628 AATTAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (31 bp):
TTTAAAAAGTACAAAGACTAAAATTGATCAT
Found at i:48281844 original size:396 final size:397
Alignment explanation
Indices: 48281112--48281909 Score: 1589
Period size: 396 Copynumber: 2.0 Consensus size: 397
48281102 AGATCAATAG
48281112 TAAAATTTGACCTAAGGGATTTAATTGCTAACATTTGGTTTCGAACTCAAATTTTGAAATTTAAA
1 TAAAATTTGACCTAAGGGATTTAATTGCTAACATTTGGTTTCGAACTCAAATTTTGAAATTTAAA
48281177 AAGTACAAGGACTGAAATTGATCATTTTAAAAAGTATAAAGACTAAAATTGATCAAATTAGAATA
66 AAGTACAAGGACTGAAATTGATCATTTTAAAAAGTATAAAGACTAAAATTGATCAAATTAGAATA
48281242 CAAAAATTAAATCGACAACTTATGCATAATACAGAGGTTAATGGTAAAAATTGACCTTTCTTTTT
131 CAAAAATTAAATCGACAACTTATGCATAATACAGAGGTTAATGGTAAAAATTGACCTTTCTTTTT
48281307 CTTCCTTTGGTTCACTAATCATTGTGATCACTAGTAACCTATTACCACTAGGCTTGTCCATGGCT
196 CTTCCTTTGGTTCACTAATCATTGTGATCACTAGTAACCTATTACCACTAGGCTTGTCCATGGCT
48281372 CGAACAGCCCACCTGGCCCAATAGGCCCAACCTAATTCGAGTTGGGCTTAGATAAAGATTTTTAT
261 CGAACAGCCCACCTGGCCCAATAGGCCCAACCTAATTCGAGTTGGGCTTAGATAAAGATTTTTAT
48281437 GTCTTGGACCAACCCAATATGAATTTAATTTAAAAATAAAAATAAAAATTTTAAATTAAATT-AA
326 GTCTTGGACCAACCCAATATGAATTTAATTTAAAAATAAAAATAAAAATTTTAAATTAAATTAAA
48281501 TTAATTA
391 TTAATTA
48281508 TAAAATTTGACCTAAGGGATTTAATTGCTAACATTTGGTTTCGAACTCAAATTTTGAAATTTAAA
1 TAAAATTTGACCTAAGGGATTTAATTGCTAACATTTGGTTTCGAACTCAAATTTTGAAATTTAAA
48281573 AAGTACAAGGACTGAAATTGATCATTTTAAAAAGTATAAAGACTAAAATTGATCAAATTAGAATA
66 AAGTACAAGGACTGAAATTGATCATTTTAAAAAGTATAAAGACTAAAATTGATCAAATTAGAATA
48281638 CAAAAATTAAATCGACAACTTATGCATAATACAGAGGTTAATGGTAAAAATTGACCTTTCTTTTT
131 CAAAAATTAAATCGACAACTTATGCATAATACAGAGGTTAATGGTAAAAATTGACCTTTCTTTTT
48281703 CTTCCTTTGGTTCACTAATCATTGTGATCACTAGTAACCTATTACCACTAGGCTTGTCCATGGCT
196 CTTCCTTTGGTTCACTAATCATTGTGATCACTAGTAACCTATTACCACTAGGCTTGTCCATGGCT
48281768 CGAACAGCCCACCTGGCCCAATAGGCCCAACCTAATTCGAGTTGGGCTTAGATAAAGATTTTTAT
261 CGAACAGCCCACCTGGCCCAATAGGCCCAACCTAATTCGAGTTGGGCTTAGATAAAGATTTTTAT
48281833 GTCTTGGACCAACCCAATATGAATTTAATTTAAAAATAAAAATAAAAATTTTAAATTAAATTAAA
326 GTCTTGGACCAACCCAATATGAATTTAATTTAAAAATAAAAATAAAAATTTTAAATTAAATTAAA
48281898 TTAATTA
391 TTAATTA
48281905 TAAAA
1 TAAAA
48281910 ATATATAAAT
Statistics
Matches: 401, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
396 387 0.97
397 14 0.03
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (397 bp):
TAAAATTTGACCTAAGGGATTTAATTGCTAACATTTGGTTTCGAACTCAAATTTTGAAATTTAAA
AAGTACAAGGACTGAAATTGATCATTTTAAAAAGTATAAAGACTAAAATTGATCAAATTAGAATA
CAAAAATTAAATCGACAACTTATGCATAATACAGAGGTTAATGGTAAAAATTGACCTTTCTTTTT
CTTCCTTTGGTTCACTAATCATTGTGATCACTAGTAACCTATTACCACTAGGCTTGTCCATGGCT
CGAACAGCCCACCTGGCCCAATAGGCCCAACCTAATTCGAGTTGGGCTTAGATAAAGATTTTTAT
GTCTTGGACCAACCCAATATGAATTTAATTTAAAAATAAAAATAAAAATTTTAAATTAAATTAAA
TTAATTA
Done.