Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 74 of 144
Found at i:16091612 original size:21 final size:21
Alignment explanation
Indices: 16091588--16091683 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 21
16091578 ATCGATAACA
*
16091588 GTTGGCCGTTGACTGTTGACT
1 GTTGACCGTTGACTGTTGACT
* *
16091609 GTTGATCGTTGACTGTTGACC
1 GTTGACCGTTGACTGTTGACT
* ** * *
16091630 ATTGATTGTAGACAGTTGACT
1 GTTGACCGTTGACTGTTGACT
*
16091651 GTTGGCC-TTGA-TCGTTGACT
1 GTTGACCGTTGACT-GTTGACT
*
16091671 -TTGATCGTTGACT
1 GTTGACCGTTGACT
16091684 TTTTTCAAAA
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
19 4 0.07
20 14 0.25
21 38 0.68
ACGTcount: A:0.16, C:0.17, G:0.28, T:0.40
Consensus pattern (21 bp):
GTTGACCGTTGACTGTTGACT
Found at i:16091683 original size:13 final size:13
Alignment explanation
Indices: 16091658--16091685 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16091648 ACTGTTGGCC
16091658 TTGATCGTTGACT
1 TTGATCGTTGACT
16091671 TTGATCGTTGACT
1 TTGATCGTTGACT
16091684 TT
1 TT
16091686 TTTCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGATCGTTGACT
Found at i:16097643 original size:145 final size:144
Alignment explanation
Indices: 16097434--16098211 Score: 929
Period size: 146 Copynumber: 5.4 Consensus size: 144
16097424 TGATTAAACA
* * *
16097434 AAAATCACTACTTTACTT-CAAAATCAAAACTTTTATTTCGAAATAGTTTTAAAAAAATAAAACT
1 AAAATAACTATTTTACTTAAAAAATC-AAACTTTTATTTCGAAATAG-TTTAAAAAAATAAAACT
* * *
16097498 TTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAAGCAGATTTTTATTTTTAAAAATC
64 TTGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAA-TAGATTTTTATTTTTAAAAATA
**
16097563 TAAACT-TTTTTTAATT
128 TAAACTCTTTTTTAAAG
**
16097579 AAAATAACTATTTTACTTAAAAAATCAAACTTTTACATCGAAATAGTTTTAAAAAAATAAAACTT
1 AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCGAAATAG-TTTAAAAAAATAAAACTT
* * *
16097644 TGTTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAAACAGATTTTTATTTTTAAAAATCTA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATA
**
16097709 AA--CTTTTTTAATT
130 AACTCTTTTTTAAAG
* **
16097722 AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCAAAATAG-TT-AAAAAATCGGAACTT
1 AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCGAAATAGTTTAAAAAAAT-AAAACTT
* * *
16097785 TATTTAAAAATTTAAACTATTT-TTT-AAATAACT-AAAATTAGATTTTTATTTTTAAAAATATA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATA
16097847 AACTCTCTTTTTTAAAG
130 AA--CTCTTTTTTAAAG
* * * *
16097864 AAAATTATTATTTTACTT-AAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATTAAACTT
1 AAAATAACTATTTTACTTAAAAAAT-CAAACTTTTATTTCGAAATAGTTTAAAAAAATAAAACTT
* ** *
16097928 T-ATTAAAAATTTAAACTTTTTTCTTTAAAATAACTAAAAAATAGAAATTTATCTTTAAAAATAT
65 TGTTTAAAAATTTAAAC-TTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATAT
*
16097992 AAACTTTCTCTTTTTTAGAG
129 AAA----CTCTTTTTTAAAG
* * * * *
16098012 AAAATTATTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATA-ATTAAAAAAATTAAAATTT
1 AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCGAAATAGTTTAAAAAAA-TAAAACTT
* *
16098076 TGTTTCAAAATTTAAAC-TTTTCTTTAAAATAA-TTAAAAATAGATTTTTATTTTTAAAAATATA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATA
16098139 AACTTTTTCTTTTTTAAAG
130 AAC----TCTTTTTTAAAG
* * *
16098158 AAAATCACTATTTTACTTAAAAATTCAAACTTTTATTTCAAAATAG-TTAAAAAA
1 AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCGAAATAGTTTAAAAAA
16098212 TTTTAAAACT
Statistics
Matches: 562, Mismatches: 47, Indels: 47
0.86 0.07 0.07
Matches are distributed among these distances:
138 28 0.05
139 7 0.01
140 10 0.02
141 33 0.06
142 60 0.11
143 64 0.11
144 36 0.06
145 102 0.18
146 123 0.22
147 23 0.04
148 58 0.10
149 18 0.03
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (144 bp):
AAAATAACTATTTTACTTAAAAAATCAAACTTTTATTTCGAAATAGTTTAAAAAAATAAAACTTT
GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTTAAAAATATAA
ACTCTTTTTTAAAG
Found at i:16097744 original size:19 final size:18
Alignment explanation
Indices: 16097709--16097743 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16097699 TAAAAATCTA
*
16097709 AACTTTTTTAATTAAAAT
1 AACTATTTTAATTAAAAT
*
16097727 AACTATTTTACTTAAAA
1 AACTATTTTAATTAAAA
16097744 AATCAAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (18 bp):
AACTATTTTAATTAAAAT
Found at i:16097774 original size:30 final size:30
Alignment explanation
Indices: 16097738--16097795 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
16097728 ACTATTTTAC
*
16097738 TTAAAAAATC-AAACTTTTATTTCAAAATAG
1 TTAAAAAATCGAAAC-TTTATTTAAAAATAG
*
16097768 TTAAAAAATCGGAACTTTATTTAAAAAT
1 TTAAAAAATCGAAACTTTATTTAAAAAT
16097796 TTAAACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (30 bp):
TTAAAAAATCGAAACTTTATTTAAAAATAG
Found at i:16097989 original size:20 final size:21
Alignment explanation
Indices: 16097964--16098004 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16097954 AAAATAACTA
16097964 AAAAATAGAAA-TTTATCTTT
1 AAAAATAGAAACTTTATCTTT
* *
16097984 AAAAATATAAACTTTCTCTTT
1 AAAAATAGAAACTTTATCTTT
16098005 TTTAGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (21 bp):
AAAAATAGAAACTTTATCTTT
Found at i:16098044 original size:98 final size:95
Alignment explanation
Indices: 16097926--16098100 Score: 219
Period size: 97 Copynumber: 1.8 Consensus size: 95
16097916 AAAATTAAAC
* * *
16097926 TTTATTAAAAATTTAAACTTTTTTCTTTAAAATAACT-AAAAAA-TAGAAATTTATCTTTAAAAA
1 TTTATTAAAAATTCAAACTTTTAT-TTCAAAATAACTAAAAAAATTA-AAATTT-TCTTTAAAAA
16097989 TATAAACTTTCTCTTTTTTAGAGAAAATTATTAT
63 TATAAACTTT-TCTTTTTTAGAGAAAATTATTAT
* * * * *
16098023 TTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAATTAAAATTTTGTTTCAAAATT
1 TTTA-TTAAAAATTCAAACTTTTATTTCAAAATAACTAAAAAAATTAAAATTTTCTTTAAAAATA
16098088 TAAACTTTTCTTT
65 TAAACTTTTCTTT
16098101 AAAATAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
96 5 0.07
97 30 0.45
98 30 0.45
99 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (95 bp):
TTTATTAAAAATTCAAACTTTTATTTCAAAATAACTAAAAAAATTAAAATTTTCTTTAAAAATAT
AAACTTTTCTTTTTTAGAGAAAATTATTAT
Found at i:16098090 original size:20 final size:19
Alignment explanation
Indices: 16098062--16098105 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
16098052 AAATAATTAA
* *
16098062 AAAAATTAAAATTTTGTTT
1 AAAATTTAAAATTTTCTTT
*
16098081 CAAAATTTAAACTTTTCTTT
1 -AAAATTTAAAATTTTCTTT
16098101 AAAAT
1 AAAAT
16098106 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAATTTAAAATTTTCTTT
Found at i:16098653 original size:3 final size:3
Alignment explanation
Indices: 16098647--16098684 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16098637 AAATAATAAT
16098647 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16098685 TGATCATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16101573 original size:4 final size:4
Alignment explanation
Indices: 16101564--16101641 Score: 51
Period size: 4 Copynumber: 20.5 Consensus size: 4
16101554 CATTTTATTG
* * *
16101564 TTAT TTAT TTAT TTAT TT-T TT-T GTAT TTAAT TTAA AT-T TTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTAT
* *
16101609 TTTT TATAT TTAT TT-T TTAT TT-T TTAT TCAT TT
1 TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TT
16101642 TATATTTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
3 15 0.26
4 35 0.61
5 7 0.12
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:16101590 original size:28 final size:27
Alignment explanation
Indices: 16101556--16101636 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
16101546 ATTCAATCCA
16101556 TTTTATTGTTATTTATTTATTTATT-TT
1 TTTTATT-TTATTTATTTATTTATTATT
* **
16101583 TTTGTATTTAATTTAAAT-TTTATTATT
1 TTT-TATTTTATTTATTTATTTATTATT
*
16101610 TTTTATATTTATTT-TTTATTTTTTATT
1 TTTTAT-TTTATTTATTTATTTATTATT
16101637 CATTTTATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
26 10 0.23
27 29 0.67
28 4 0.09
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTATTTTATTTATTTATTTATTATT
Found at i:16101615 original size:7 final size:7
Alignment explanation
Indices: 16101567--16101661 Score: 59
Period size: 7 Copynumber: 13.0 Consensus size: 7
16101557 TTTATTGTTA
16101567 TTTATTT
1 TTTATTT
16101574 ATTTATTT
1 -TTTATTT
*
16101582 TTT-TGTA
1 TTTAT-TT
*
16101589 TTTAATT
1 TTTATTT
**
16101596 TAAATTT
1 TTTATTT
16101603 TATTATTT
1 T-TTATTT
*
16101611 TTTA-TA
1 TTTATTT
16101617 TTTATTT
1 TTTATTT
16101624 TTTATTT
1 TTTATTT
16101631 TTTATTCAT
1 TTTATT--T
16101640 TTTATATT
1 TTTAT-TT
**
16101648 TTTACCT
1 TTTATTT
16101655 TTTATTT
1 TTTATTT
16101662 AATTACATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
6 6 0.09
7 36 0.55
8 17 0.26
9 6 0.09
10 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (7 bp):
TTTATTT
Found at i:16101619 original size:23 final size:20
Alignment explanation
Indices: 16101564--16101635 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
16101554 CATTTTATTG
*
16101564 TTATTTATT-TATTTATTTT
1 TTATTTTTTATATTTATTTT
*
16101583 TT-TGTATTTA-ATTTAAATTTT
1 TTAT-TTTTTATATTT--ATTTT
16101604 ATTATTTTTTATATTTATTTT
1 -TTATTTTTTATATTTATTTT
16101625 TTATTTTTTAT
1 TTATTTTTTAT
16101636 TCATTTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.02
19 9 0.21
20 11 0.26
21 10 0.23
22 7 0.16
23 5 0.12
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (20 bp):
TTATTTTTTATATTTATTTT
Found at i:16101636 original size:18 final size:18
Alignment explanation
Indices: 16101564--16101650 Score: 68
Period size: 18 Copynumber: 4.4 Consensus size: 18
16101554 CATTTTATTG
16101564 TTATTTATTTATTTATTTT
1 TTATTT-TTTATTTATTTT
*
16101583 TT-TGTATTTAATTTAAATTTT
1 TTAT-T-TTTTATTT--ATTTT
16101604 ATTATTTTTTATATTTATTTT
1 -TTA-TTTTT-TATTTATTTT
*
16101625 TTATTTTTTATTCATTTT
1 TTATTTTTTATTTATTTT
*
16101643 ATATTTTT
1 TTATTTTT
16101651 ACCTTTTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
18 17 0.30
19 14 0.25
20 4 0.07
21 10 0.18
22 5 0.09
23 5 0.09
24 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (18 bp):
TTATTTTTTATTTATTTT
Found at i:16101658 original size:31 final size:30
Alignment explanation
Indices: 16101600--16101661 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
16101590 TTAATTTAAA
* **
16101600 TTTTATTATTTTTTATATTTATTTTTTATT
1 TTTTATTATTTTATATATTTACCTTTTATT
*
16101630 TTTTATTCATTTTATATTTTTACCTTTTATT
1 TTTTATT-ATTTTATATATTTACCTTTTATT
16101661 T
1 T
16101662 AATTACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTATTATTTTATATATTTACCTTTTATT
Found at i:16101696 original size:30 final size:32
Alignment explanation
Indices: 16101638--16101696 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
16101628 TTTTTTATTC
* *
16101638 ATTTTATATTTTTACCTTTTATTTAATTACAT
1 ATTTTATATTTTTACCTTTGATTCAATTACAT
*
16101670 ATTTT-TA-TTTTATCTTTGATTCAATTA
1 ATTTTATATTTTTACCTTTGATTCAATTA
16101697 TATTTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 2 0.08
32 5 0.21
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (32 bp):
ATTTTATATTTTTACCTTTGATTCAATTACAT
Found at i:16104359 original size:24 final size:24
Alignment explanation
Indices: 16104327--16104383 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
16104317 GGAAAGCATT
16104327 CAGAATTGCAGTCATAAGTTGATA
1 CAGAATTGCAGTCATAAGTTGATA
16104351 CAGAATTGCAGTCATAAGTTGATA
1 CAGAATTGCAGTCATAAGTTGATA
16104375 CAGAATTGC
1 CAGAATTGC
16104384 GGCCAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (24 bp):
CAGAATTGCAGTCATAAGTTGATA
Found at i:16113160 original size:19 final size:20
Alignment explanation
Indices: 16113125--16113172 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
16113115 GTTAGTTGCA
16113125 TGCATTTATTTTAATTGTCAT-
1 TGCATTT-TTTTAATTGTC-TC
16113146 TGCATTTTTTT-ATTGTCTC
1 TGCATTTTTTTAATTGTCTC
16113165 TGCATTTT
1 TGCATTTT
16113173 ATTTGTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 4 0.15
21 7 0.27
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (20 bp):
TGCATTTTTTTAATTGTCTC
Found at i:16116411 original size:18 final size:17
Alignment explanation
Indices: 16116388--16116423 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16116378 CTTTTAGAAC
16116388 ATAAAATAAAAAGATAAA
1 ATAAAATAAAAAG-TAAA
*
16116406 ATAAAATAGAAAGTAAA
1 ATAAAATAAAAAGTAAA
16116423 A
1 A
16116424 GCAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (17 bp):
ATAAAATAAAAAGTAAA
Found at i:16119253 original size:21 final size:20
Alignment explanation
Indices: 16119207--16119262 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
16119197 ATTAAATTGT
* *
16119207 TTAAAACAATAAATAAAATA
1 TTAAAACAAAAAATAAAAGA
**
16119227 AGAAAACAAGAAAATAAAAGA
1 TTAAAACAA-AAAATAAAAGA
*
16119248 TTAAAA-AAATAATAA
1 TTAAAACAAAAAATAA
16119263 TAAAAAACTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 13 0.46
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (20 bp):
TTAAAACAAAAAATAAAAGA
Found at i:16125375 original size:22 final size:23
Alignment explanation
Indices: 16125349--16125392 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
16125339 AAACTGTTAA
16125349 AATTGTCA-ATGTAA-TAAAAGTT
1 AATTGTCAGA-GTAATTAAAAGTT
16125371 AATTGTCAGAGTAATTAAAAGT
1 AATTGTCAGAGTAATTAAAAGT
16125393 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (23 bp):
AATTGTCAGAGTAATTAAAAGTT
Found at i:16141172 original size:21 final size:21
Alignment explanation
Indices: 16141132--16141173 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16141122 CTGTCACCAA
***
16141132 AAGATCTTCCTCATTTTCTTC
1 AAGATCTTCCTCAGGATCTTC
16141153 AAGATCTTCCTCAGGATCTTC
1 AAGATCTTCCTCAGGATCTTC
16141174 TTACTCTTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (21 bp):
AAGATCTTCCTCAGGATCTTC
Found at i:16142790 original size:23 final size:22
Alignment explanation
Indices: 16142764--16142807 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16142754 AAAATATTTC
*
16142764 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
16142787 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
16142808 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:16148216 original size:17 final size:17
Alignment explanation
Indices: 16148192--16148238 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
16148182 ATATATATGG
*
16148192 AAATGCAATGACAATAT
1 AAATGCAATGACAATAA
* *
16148209 AGATGCAACGACAATAA
1 AAATGCAATGACAATAA
16148226 AAATGCAATGACA
1 AAATGCAATGACA
16148239 TTAATAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.17
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:16192636 original size:12 final size:12
Alignment explanation
Indices: 16192619--16192644 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16192609 AGTTGTATGA
16192619 ATAATGATTGCG
1 ATAATGATTGCG
16192631 ATAATGATTGCG
1 ATAATGATTGCG
16192643 AT
1 AT
16192645 GACATTTTTA
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:0.08, G:0.23, T:0.35
Consensus pattern (12 bp):
ATAATGATTGCG
Found at i:16202082 original size:17 final size:18
Alignment explanation
Indices: 16202060--16202098 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
16202050 AGGGCCTATA
*
16202060 TAAATATAAACATG-AAT
1 TAAATATAAACAAGCAAT
16202077 TAAATATAAACAAGCAAT
1 TAAATATAAACAAGCAAT
16202095 TAAA
1 TAAA
16202099 CACAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAATATAAACAAGCAAT
Found at i:16216931 original size:17 final size:18
Alignment explanation
Indices: 16216897--16216933 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16216887 ATCTTCTTCT
*
16216897 TTTTCTTCCTTTTTTTCC
1 TTTTCTTCCTTCTTTTCC
16216915 TTTTCTT-CTTCTTTTCC
1 TTTTCTTCCTTCTTTTCC
16216932 TT
1 TT
16216934 CTTCCTCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTCTTCCTTCTTTTCC
Found at i:16234234 original size:46 final size:46
Alignment explanation
Indices: 16234184--16234278 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
16234174 TGAATCCTTC
16234184 TATTTTTGGATGAATGATTGAAATTGCATTAGTAATAAATGAATAG
1 TATTTTTGGATGAATGATTGAAATTGCATTAGTAATAAATGAATAG
16234230 TATTTTTGGATGAATGATTGAAATTGCATTAGTAATAAATGAATAG
1 TATTTTTGGATGAATGATTGAAATTGCATTAGTAATAAATGAATAG
16234276 TAT
1 TAT
16234279 CATTCTTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (46 bp):
TATTTTTGGATGAATGATTGAAATTGCATTAGTAATAAATGAATAG
Found at i:16234270 original size:25 final size:25
Alignment explanation
Indices: 16234196--16234271 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
16234186 TTTTTGGATG
16234196 AATGATTGAAATTGCATTAGTAATA
1 AATGATTGAAATTGCATTAGTAATA
* * * * *
16234221 AATGAAT-AGTATT---TTTG-GATG
1 AATGATTGA-AATTGCATTAGTAATA
16234242 AATGATTGAAATTGCATTAGTAATA
1 AATGATTGAAATTGCATTAGTAATA
16234267 AATGA
1 AATGA
16234272 ATAGTATCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
21 11 0.31
22 4 0.11
24 4 0.11
25 16 0.46
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (25 bp):
AATGATTGAAATTGCATTAGTAATA
Found at i:16236100 original size:19 final size:19
Alignment explanation
Indices: 16236076--16236116 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
16236066 AAGTCACGGA
*
16236076 TTTACATTTGATCTATTTC
1 TTTACACTTGATCTATTTC
16236095 TTTACACTTGATCTATTTC
1 TTTACACTTGATCTATTTC
16236114 TTT
1 TTT
16236117 TAATTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTACACTTGATCTATTTC
Found at i:16237084 original size:16 final size:17
Alignment explanation
Indices: 16237063--16237098 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
16237053 TATTCTAAAC
16237063 AAAATTA-AGCTAAGTT
1 AAAATTACAGCTAAGTT
*
16237079 AAAATTACATCTAAGTT
1 AAAATTACAGCTAAGTT
16237096 AAA
1 AAA
16237099 TTCCTATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (17 bp):
AAAATTACAGCTAAGTT
Found at i:16239027 original size:18 final size:18
Alignment explanation
Indices: 16238998--16239041 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
16238988 AAATGTACTA
16238998 ACAAAT-AAAATGCAATG
1 ACAAATAAAAATGCAATG
16239015 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
16239033 ACAACTAAA
1 ACAAATAAA
16239042 TGAGATGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:16241261 original size:21 final size:22
Alignment explanation
Indices: 16241214--16241266 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
16241204 TTATTCTTGC
16241214 ATAAAA-ATAAAAAGGAAACAA
1 ATAAAAGATAAAAAGGAAACAA
16241235 AT-AAAGATAAAAA-GAAA-AA
1 ATAAAAGATAAAAAGGAAACAA
16241254 AGTAAAAG-TAAAA
1 A-TAAAAGATAAAA
16241267 TTTGTAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 13 0.45
21 13 0.45
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (22 bp):
ATAAAAGATAAAAAGGAAACAA
Found at i:16255409 original size:19 final size:17
Alignment explanation
Indices: 16255374--16255422 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
16255364 AGTCATTTGA
16255374 AAAAGAAAAAAACAAAG
1 AAAAGAAAAAAACAAAG
* *
16255391 TAATAAGAAAAAGAGAAAG
1 -AA-AAGAAAAAAACAAAG
16255410 AAAAGAAATAAAA
1 AAAAGAAA-AAAA
16255423 TTTTGATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.23
18 7 0.27
19 13 0.50
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAAACAAAG
Found at i:16257472 original size:18 final size:18
Alignment explanation
Indices: 16257435--16257479 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
16257425 AGGAAAACCT
*
16257435 TGAGGAAGAGAAAGGAAA
1 TGAGGAAGAGAAAAGAAA
16257453 TGAGGAAGAGAAGAAG-AA
1 TGAGGAAGAGAA-AAGAAA
*
16257471 TGAAGAAGA
1 TGAGGAAGA
16257480 TAAAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.07
Consensus pattern (18 bp):
TGAGGAAGAGAAAAGAAA
Found at i:16257888 original size:18 final size:18
Alignment explanation
Indices: 16257862--16257906 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16257852 ATGCATTGCA
* * *
16257862 TTTAGTTGTCATTTCATT
1 TTTATTTGTCACTGCATT
16257880 TTTATTTGTCACTGCATT
1 TTTATTTGTCACTGCATT
16257898 TTTATTTGT
1 TTTATTTGT
16257907 TGGTACAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTATTTGTCACTGCATT
Found at i:16260564 original size:35 final size:36
Alignment explanation
Indices: 16260502--16260574 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 36
16260492 CTTCTGAAGA
*
16260502 TAACCTTGTAGATTTGTTTTCTAAGACTCTTGTAAC
1 TAACCTTGTAGATATGTTTTCTAAGACTCTTGTAAC
16260538 TAACCTTGTAGATAT-TTTTCTAAGACTCTTGTAAC
1 TAACCTTGTAGATATGTTTTCTAAGACTCTTGTAAC
16260573 TA
1 TA
16260575 GGAGTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 22 0.61
36 14 0.39
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.44
Consensus pattern (36 bp):
TAACCTTGTAGATATGTTTTCTAAGACTCTTGTAAC
Found at i:16261840 original size:43 final size:42
Alignment explanation
Indices: 16261768--16262009 Score: 160
Period size: 41 Copynumber: 5.8 Consensus size: 42
16261758 GTATGAATAA
* * *
16261768 GGAAGACTCATGTCTCGGGTTGAGCATGAGAAATTATACAAAT
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTATA-AAAT
* *
16261811 GGAAGACTCATGTC-CTGAGATGAGAATGAG--ACTATGAAAAA
1 GGAAGACTCATGTCTC-GAGATGAGAATGAGAAATTAT-AAAAT
* * * * * *
16261852 GAAAGACTCATGTCTCGGGTTGAGCATGAGAATTTGTATAAAT
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTATA-AAAT
* *
16261895 GGAAGACTCATATCTTGAGATGAGAATGA-AAA-TATTAATAA-
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTA-TAA-AAT
* * * **
16261936 GGAAGGC-CTATTGTCTCGAAATGAGAATGAG--ATTTTGATTAT
1 GGAAGACTC-A-TGTCTCGAGATGAGAATGAGAAATTAT-AAAAT
* *
16261978 GGAAGACTCATATCTCGAGTTGAGAATGAGAA
1 GGAAGACTCATGTCTCGAGATGAGAATGAGAA
16262010 TATGGTTAAA
Statistics
Matches: 150, Mismatches: 32, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
40 1 0.01
41 60 0.40
42 35 0.23
43 54 0.36
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (42 bp):
GGAAGACTCATGTCTCGAGATGAGAATGAGAAATTATAAAAT
Found at i:16261881 original size:41 final size:41
Alignment explanation
Indices: 16261759--16261905 Score: 136
Period size: 43 Copynumber: 3.5 Consensus size: 41
16261749 ATACTTGGTG
* *
16261759 TATGAATAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAAAT
1 TATGAAAAAGGAAGACTCATGTCTCGGGTTGAGCATGAG--AC
* * * *
16261802 TAT-ACAAATGGAAGACTCATGTC-CTGAGATGAGAATGAGAC
1 TATGA-AAAAGGAAGACTCATGTCTC-GGGTTGAGCATGAGAC
* *
16261843 TATGAAAAAGAAAGACTCATGTCTCGGGTTGAGCATGAGAA
1 TATGAAAAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAC
* *
16261884 TTTGTATAAATGGAAGACTCAT
1 TATG-A-AAAAGGAAGACTCAT
16261906 ATCTTGAGAT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 35 0.42
42 5 0.06
43 43 0.52
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (41 bp):
TATGAAAAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAC
Found at i:16261900 original size:84 final size:84
Alignment explanation
Indices: 16261759--16261923 Score: 267
Period size: 84 Copynumber: 2.0 Consensus size: 84
16261749 ATACTTGGTG
* * *
16261759 TATGAATAAGGAAGACTCATGTCTCGGGTTGAGCATGAGAAATTATACAAATGGAAGACTCATGT
1 TATGAAAAAGAAAGACTCATGTCTCGGGTTGAGCATGAGAAATTATACAAATGGAAGACTCATAT
16261824 CCTGAGATGAGAATGAGAC
66 CCTGAGATGAGAATGAGAC
* * *
16261843 TATGAAAAAGAAAGACTCATGTCTCGGGTTGAGCATGAGAATTTGTATAAATGGAAGACTCATAT
1 TATGAAAAAGAAAGACTCATGTCTCGGGTTGAGCATGAGAAATTATACAAATGGAAGACTCATAT
*
16261908 CTTGAGATGAGAATGA
66 CCTGAGATGAGAATGA
16261924 AAATATTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (84 bp):
TATGAAAAAGAAAGACTCATGTCTCGGGTTGAGCATGAGAAATTATACAAATGGAAGACTCATAT
CCTGAGATGAGAATGAGAC
Found at i:16289853 original size:18 final size:19
Alignment explanation
Indices: 16289830--16289880 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
16289820 CTGTAGATAG
*
16289830 TTTTCA-TGCATTTTTCTT
1 TTTTCATTGCATTTTTATT
*
16289848 TTTTCATTGCAATTTTATT
1 TTTTCATTGCATTTTTATT
*
16289867 TTATCATTGCATTT
1 TTTTCATTGCATTT
16289881 CTTTTGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTTCATTGCATTTTTATT
Found at i:16295997 original size:27 final size:27
Alignment explanation
Indices: 16295959--16296011 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
16295949 GAGAAATCAA
16295959 TGGTTCCTTCTAATGCTATCACACCCT
1 TGGTTCCTTCTAATGCTATCACACCCT
16295986 TGGTTCCTTCTAATGCTATCACACCC
1 TGGTTCCTTCTAATGCTATCACACCC
16296012 CTAAACTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.11, T:0.36
Consensus pattern (27 bp):
TGGTTCCTTCTAATGCTATCACACCCT
Found at i:16299722 original size:18 final size:18
Alignment explanation
Indices: 16299683--16299722 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16299673 ACCAGATAAT
* *
16299683 ATGCGATCACAAGACCAG
1 ATGCGATCACAAAACCAA
*
16299701 ATGCGATCACAAAATCAA
1 ATGCGATCACAAAACCAA
16299719 ATGC
1 ATGC
16299723 ATTCATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (18 bp):
ATGCGATCACAAAACCAA
Found at i:16315442 original size:16 final size:16
Alignment explanation
Indices: 16315421--16315454 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16315411 CATACTTGAA
16315421 ATTAATTGAAAACATG
1 ATTAATTGAAAACATG
16315437 ATTAATTGAAAACATG
1 ATTAATTGAAAACATG
16315453 AT
1 AT
16315455 ATCATAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (16 bp):
ATTAATTGAAAACATG
Found at i:16319363 original size:22 final size:22
Alignment explanation
Indices: 16319338--16319382 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16319328 GAGTTTACAG
16319338 TAAGCCTAACTGTTTCTCCACT
1 TAAGCCTAACTGTTTCTCCACT
16319360 TAAGCCTAACTGTTTCTCCACT
1 TAAGCCTAACTGTTTCTCCACT
16319382 T
1 T
16319383 TCATACGAAA
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:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (22 bp):
TAAGCCTAACTGTTTCTCCACT
Found at i:16321908 original size:6 final size:6
Alignment explanation
Indices: 16321897--16321935 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16321887 TGATCAAAAT
* * *
16321897 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
16321936 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:16325082 original size:41 final size:40
Alignment explanation
Indices: 16325034--16325134 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
16325024 TCGACCTCGA
** *
16325034 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
16325074 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
16325112 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
16325135 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:16329400 original size:6 final size:6
Alignment explanation
Indices: 16329389--16329427 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16329379 TGATCAAAAT
* * *
16329389 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
16329428 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:16334789 original size:43 final size:43
Alignment explanation
Indices: 16334723--16334951 Score: 171
Period size: 43 Copynumber: 5.4 Consensus size: 43
16334713 CTTGGCATAG
* * * *
16334723 ATGGAATACTCATGTCTCAGGATGAGAACGAGATTATGTACAA
1 ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
* *
16334766 ATGGAAGACTCATGTCTCGGGATGAGCATTAGATTATGTATAA
1 ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
* ** **
16334809 ATGGAAGACTCATGACTCGAAATGAGCATGAGATTATGT-TTA
1 ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
* * * * * * * **
16334851 A-GGAAGACTCGTGACTCGGAATCAACATAAGATTCTGT-TTA
1 ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
* * *** **
16334892 A-GGAAGACTCGTGACTCAAAATGAGCATGAGATTATGTTTAA
1 ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
*
16334934 A-GGAAGACTTATGTCTCG
1 ATGGAAGACTCATGTCTCG
16334952 ATAGAGCGTA
Statistics
Matches: 157, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
41 66 0.42
42 19 0.12
43 72 0.46
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (43 bp):
ATGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTACAA
Found at i:16334868 original size:41 final size:41
Alignment explanation
Indices: 16334768--16334952 Score: 208
Period size: 41 Copynumber: 4.4 Consensus size: 41
16334758 ATGTACAAAT
* ** * *
16334768 GGAAGACTCATGTCTCGGGATGAGCATTAGATTATGTATAAA
1 GGAAGACTCATGACTCGAAATGAGCATGAGATTATGT-TTAA
16334810 TGGAAGACTCATGACTCGAAATGAGCATGAGATTATGTTTAA
1 -GGAAGACTCATGACTCGAAATGAGCATGAGATTATGTTTAA
* * * * * *
16334852 GGAAGACTCGTGACTCGGAATCAACATAAGATTCTGTTTAA
1 GGAAGACTCATGACTCGAAATGAGCATGAGATTATGTTTAA
* *
16334893 GGAAGACTCGTGACTCAAAATGAGCATGAGATTATGTTTAAA
1 GGAAGACTCATGACTCGAAATGAGCATGAGATTATGTTT-AA
* *
16334935 GGAAGACTTATGTCTCGA
1 GGAAGACTCATGACTCGA
16334953 TAGAGCGTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 68 0.57
42 19 0.16
43 33 0.28
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (41 bp):
GGAAGACTCATGACTCGAAATGAGCATGAGATTATGTTTAA
Found at i:16335646 original size:21 final size:21
Alignment explanation
Indices: 16335616--16335690 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
16335606 GGAGTTCCTA
* *
16335616 GTATCGGTAGAAG-CATGACTT
1 GTATCAGTAGAAGTTAT-ACTT
*
16335637 ATATCAGTAGAAGTTATACTT
1 GTATCAGTAGAAGTTATACTT
16335658 GTATCAGTAGAAGTTATACTT
1 GTATCAGTAGAAGTTATACTT
16335679 GTATCAGTAGAA
1 GTATCAGTAGAA
16335691 CTAGCATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 47 0.96
22 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (21 bp):
GTATCAGTAGAAGTTATACTT
Found at i:16337042 original size:20 final size:20
Alignment explanation
Indices: 16337017--16337057 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16337007 ACTTTATTGT
16337017 TTTAATTATTATTAAAACAA
1 TTTAATTATTATTAAAACAA
16337037 TTTAATTATTATTAAAACAA
1 TTTAATTATTATTAAAACAA
16337057 T
1 T
16337058 AACATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAATTATTATTAAAACAA
Found at i:16348290 original size:18 final size:17
Alignment explanation
Indices: 16348260--16348296 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
16348250 AATAATAAAT
*
16348260 ATAATTTTATTTTTTTA
1 ATAATTTTATTTTTATA
16348277 ATAATTTATATTTTTATA
1 ATAATTT-TATTTTTATA
16348295 AT
1 AT
16348297 TTTTAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATAATTTTATTTTTATA
Found at i:16350977 original size:6 final size:6
Alignment explanation
Indices: 16350966--16350999 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
16350956 TTTGCCTATC
* *
16350966 TATACA TATACA TATACA GATACA TATACG TATA
1 TATACA TATACA TATACA TATACA TATACA TATA
16351000 TTTATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (6 bp):
TATACA
Found at i:16351993 original size:29 final size:29
Alignment explanation
Indices: 16351960--16352466 Score: 154
Period size: 29 Copynumber: 17.5 Consensus size: 29
16351950 CAAACTTTCC
16351960 AAAATTACCATTTTACCCCTGAACATCCA
1 AAAATTACCATTTTACCCCTGAACATCCA
** **
16351989 AAAATTATAATTTTA-CCCTCGAGTATCCA
1 AAAATTACCATTTTACCCCT-GAACATCCA
* * *
16352018 AACAATTACCATTTTACCCC-AAACTTTTC-
1 AA-AATTACCATTTTACCCCTGAAC-ATCCA
*
16352047 AAAATTACCATTTTACTCCC-GAGA-GTCCA
1 AAAATTACCATTTTAC-CCCTGA-ACATCCA
* **
16352076 AAAATTACCGTTTTACCCCT-AGATGTCCA
1 AAAATTACCATTTTACCCCTGA-ACATCCA
* ** * *
16352105 AAAATT-GCATTTTTGA-CTTTGAACTTTCTA
1 AAAATTACCA-TTTT-ACCCCTGAAC-ATCCA
* * *** *
16352135 AAAATTACCAGTTTACCCTTGAGTGTCTA
1 AAAATTACCATTTTACCCCTGAACATCCA
* * ***
16352164 AAAATTATCATTTTA-CCCTTAGGTGTCCA
1 AAAATTACCATTTTACCCCTGA-ACATCCA
*
16352193 AAAATTACCGTTTTA-CCCTCGAACATCCA
1 AAAATTACCATTTTACCCCT-GAACATCCA
* * *
16352222 AAAATTACCGTTTTGTTCCCC-G-GCATCCA
1 AAAATTACC-ATTT-TACCCCTGAACATCCA
***
16352251 AAAATTACCATTTTA-CCCTCGAGTGTCCA
1 AAAATTACCATTTTACCCCT-GAACATCCA
* * * * **
16352280 AAAAATATCGTTTTACCCAC-AAATGTCCA
1 AAAATTACCATTTTACCC-CTGAACATCCA
* ** *
16352309 AAAATTA-CATTTTTGACCTCAAAACATCCG
1 AAAATTACCA-TTTT-ACCCCTGAACATCCA
* * * * *
16352339 AAAATTATCGTTTTACCTCAGGACATCCA
1 AAAATTACCATTTTACCCCTGAACATCCA
* ***
16352368 AAAATTACCATTTTA-CACTCGAGTGTCCA
1 AAAATTACCATTTTACCCCT-GAACATCCA
* * *
16352397 AAAATTATCGTTTTA-CCCTCGGACATCCA
1 AAAATTACCATTTTACCCCT-GAACATCCA
* * **
16352426 AAAATTATCGTTTTGGCCCTCG-ACATCC-
1 AAAATTACCATTTTACCCCT-GAACATCCA
16352454 AAAATTA-CATTTT
1 AAAATTACCATTTT
16352467 TGACTCCATT
Statistics
Matches: 369, Mismatches: 78, Indels: 64
0.72 0.15 0.13
Matches are distributed among these distances:
26 3 0.01
27 6 0.02
28 45 0.12
29 238 0.64
30 66 0.18
31 8 0.02
32 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTGAACATCCA
Found at i:16352105 original size:87 final size:85
Alignment explanation
Indices: 16351947--16352302 Score: 249
Period size: 87 Copynumber: 4.1 Consensus size: 85
16351937 TGTTTTGACC
* * * *
16351947 CCCCAAACTTTCCAAAATTACCATTTTACCCCTGA-ACATCCAAAAATTATAATTTTA-CCCTCG
1 CCCCAAACTTTTCAAAATTACCATTTTACCCC-GAGA-GTCCAAAAATTATCATTTTACCCCTAG
*
16352010 AGTATCCAAACAATTACCATTTTA
64 A-TGTCCAAA-AATTACCATTTTA
* *
16352034 CCCCAAACTTTTCAAAATTACCATTTTACTCCCGAGAGTCCAAAAATTACCGTTTTACCCCTAGA
1 CCCCAAACTTTTCAAAATTACCATTTTAC-CCCGAGAGTCCAAAAATTATCATTTTACCCCTAGA
*
16352099 TGTCCAAAAATT-GCATTTTTGA
65 TGTCCAAAAATTACCA-TTTT-A
**** * * * * * *
16352121 CTTTGAACTTTCTAAAAATTACCAGTTTACCCTTGAGTGTCTAAAAATTATCATTTTACCCTTAG
1 CCCCAAACTTT-TCAAAATTACCATTTTACCC-CGAGAGTCCAAAAATTATCATTTTACCCCTAG
* *
16352186 GTGTCCAAAAATTACCGTTTTA
64 ATGTCCAAAAATTACCATTTTA
* * * * * *
16352208 CCCTCGAAC-ATCCAAAAATTACCGTTTTGTTCCCCG-GCA-TCCAAAAATTACCATTTTA-CCC
1 CCC-CAAACTTTTC-AAAATTACC-ATTT-TACCCCGAG-AGTCCAAAAATTATCATTTTACCCC
* * * *
16352269 TCGAGTGTCCAAAAAATATCGTTTTA
61 TAGA-TGTCCAAAAATTACCATTTTA
16352295 CCCACAAA
1 CCC-CAAA
16352303 TGTCCAAAAA
Statistics
Matches: 212, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
85 2 0.01
86 12 0.06
87 118 0.56
88 75 0.35
89 5 0.02
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (85 bp):
CCCCAAACTTTTCAAAATTACCATTTTACCCCGAGAGTCCAAAAATTATCATTTTACCCCTAGAT
GTCCAAAAATTACCATTTTA
Found at i:16352169 original size:88 final size:87
Alignment explanation
Indices: 16352039--16352198 Score: 214
Period size: 88 Copynumber: 1.8 Consensus size: 87
16352029 TTTTACCCCA
* * *
16352039 AACTTTTCAAAATTACCATTTTACTCCCGAGAGTCCAAAAATTACCGTTTTACCCCTAGATGTCC
1 AACTTTTAAAAATTACCAGTTTACTCCCGAGAGTCCAAAAATTACCATTTTACCCCTAGATGTCC
16352104 AAAAATTGCATTTTTGACTTTG
66 AAAAATTGCATTTTTGACTTTG
* * * * * *
16352126 AACTTTCTAAAAATTACCAGTTTAC-CCTTGAGTGTCTAAAAATTATCATTTTACCCTTAGGTGT
1 AACTTT-TAAAAATTACCAGTTTACTCC-CGAGAGTCCAAAAATTACCATTTTACCCCTAGATGT
16352190 CCAAAAATT
64 CCAAAAATT
16352199 ACCGTTTTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 8 0.13
88 54 0.87
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (87 bp):
AACTTTTAAAAATTACCAGTTTACTCCCGAGAGTCCAAAAATTACCATTTTACCCCTAGATGTCC
AAAAATTGCATTTTTGACTTTG
Found at i:16352323 original size:87 final size:87
Alignment explanation
Indices: 16352163--16352323 Score: 216
Period size: 87 Copynumber: 1.9 Consensus size: 87
16352153 TTGAGTGTCT
* * * * *
16352163 AAAAATTATCATTTTACCCTTAGGTGTCCAAAAATTACCGTTTTACCCTCGAACATCCAAAAATT
1 AAAAATTACCATTTTACCCTGAGGTGTCCAAAAAATACCGTTTTACCCACAAACATCCAAAAATT
*
16352228 ACCGTTTTGTTCCCCGGCATCC
66 ACAGTTTTGTTCCCCGGCATCC
* **
16352250 AAAAATTACCATTTTACCCTCGA-GTGTCCAAAAAATATCGTTTTACCCACAAATGTCCAAAAAT
1 AAAAATTACCATTTTACCCT-GAGGTGTCCAAAAAATACCGTTTTACCCACAAACATCCAAAAAT
*
16352314 TACATTTTTG
65 TACAGTTTTG
16352324 ACCTCAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (87 bp):
AAAAATTACCATTTTACCCTGAGGTGTCCAAAAAATACCGTTTTACCCACAAACATCCAAAAATT
ACAGTTTTGTTCCCCGGCATCC
Found at i:16352455 original size:58 final size:57
Alignment explanation
Indices: 16351960--16352457 Score: 243
Period size: 58 Copynumber: 8.5 Consensus size: 57
16351950 CAAACTTTCC
** *
16351960 AAAATTACCATTTTACCC-CTGAACATCCAAAAATTATAATTTTACCCTC-GAGTATCCA
1 AAAATTACCATTTTACCCTC-G-ACATCCAAAAATTATCGTTTTACCCTCGGA-CATCCA
* * * * * *
16352018 AACAATTACCATTTTACCC-CAAACTTTTC-AAAATTACCATTTTACTCC-CGAGA-GTCCA
1 AA-AATTACCATTTTACCCTC-GAC-ATCCAAAAATTATCGTTTTAC-CCTCG-GACATCCA
* * ** * * * * *
16352076 AAAATTACCGTTTTACCCCTAGATGTCCAAAAATTGCAT--TTTTGA-CTTTGAACTTTCTA
1 AAAATTACCATTTTA-CCCTCGACATCCAAAAATT--ATCGTTTT-ACCCTCGGAC-ATCCA
* * ** * * * **
16352135 AAAATTACCAGTTTACCCTTGAGTGTCTAAAAATTATCATTTTACCCTTAGG-TGTCCA
1 AAAATTACCATTTTACCCTCGA-CATCCAAAAATTATCGTTTTACCC-TCGGACATCCA
* * *
16352193 AAAATTACCGTTTTACCCTCGAACATCCAAAAATTACCGTTTTGTTCCC-CGG-CATCCA
1 AAAATTACCATTTTACCCTCG-ACATCCAAAAATTATCG-TTT-TACCCTCGGACATCCA
** * * ** **
16352251 AAAATTACCATTTTACCCTCGAGTGTCCAAAAAATATCGTTTTACCCACAAATGTCCA
1 AAAATTACCATTTTACCCTCGA-CATCCAAAAATTATCGTTTTACCCTCGGACATCCA
* *
16352309 AAAATTA-CATTTTTGA-CCTCAAAACATCCGAAAATTATCGTTTTA-CCTCAGGACATCCA
1 AAAATTACCA-TTTT-ACCCTC--GACATCCAAAAATTATCGTTTTACCCTC-GGACATCCA
* **
16352368 AAAATTACCATTTTACACTCGAGTGTCCAAAAATTATCGTTTTACCCTCGGACATCCA
1 AAAATTACCATTTTACCCTCGA-CATCCAAAAATTATCGTTTTACCCTCGGACATCCA
* * *
16352426 AAAATTATCGTTTTGGCCCTCGACATCCAAAA
1 AAAATTACCATTTT-ACCCTCGACATCCAAAA
16352458 TTACATTTTT
Statistics
Matches: 333, Mismatches: 72, Indels: 70
0.70 0.15 0.15
Matches are distributed among these distances:
56 4 0.01
57 26 0.08
58 186 0.56
59 105 0.32
60 12 0.04
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (57 bp):
AAAATTACCATTTTACCCTCGACATCCAAAAATTATCGTTTTACCCTCGGACATCCA
Found at i:16357107 original size:31 final size:29
Alignment explanation
Indices: 16357047--16357142 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
16357037 TTCGATGAAG
* *
16357047 AAAAATAA-AGAA-AAAAAGATAATATAAA
1 AAAAAAAAGAGAAGAAAAAGA-AAAATAAA
*
16357075 AAAAGCAAAGAGAAGAAAAAGAAAAATAAA
1 AAAA-AAAAGAGAAGAAAAAGAAAAATAAA
* * *
16357105 AAAAAAAAGA-AAGAAAGAAAAAAAAGAAC
1 AAAAAAAAGAGAAGAAA-AAGAAAAATAAA
16357134 AAAAAAAAG
1 AAAAAAAAG
16357143 GGAGAGGTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
28 10 0.18
29 25 0.44
30 15 0.26
31 7 0.12
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (29 bp):
AAAAAAAAGAGAAGAAAAAGAAAAATAAA
Found at i:16357108 original size:32 final size:31
Alignment explanation
Indices: 16357055--16357141 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 31
16357045 AGAAAAATAA
* *
16357055 AGAA-AAAAAG-ATAATATAAAAAAAGCAAAG
1 AGAAGAAAAAGAAAAATAAAAAAAAAG-AAAG
16357085 AGAAGAAAAAGAAAAATAAAAAAAAAAAGAAAG
1 AGAAGAAAAAGAAAAAT--AAAAAAAAAGAAAG
*
16357118 A-AAGAAAAA-AAAGAACAAAAAAAA
1 AGAAGAAAAAGAAA-AATAAAAAAAA
16357142 GGGAGAGGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
30 12 0.24
31 9 0.18
32 14 0.29
33 5 0.10
34 9 0.18
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (31 bp):
AGAAGAAAAAGAAAAATAAAAAAAAAGAAAG
Found at i:16357109 original size:33 final size:32
Alignment explanation
Indices: 16357072--16357141 Score: 97
Period size: 32 Copynumber: 2.1 Consensus size: 32
16357062 AAGATAATAT
*
16357072 AAAAAAAGCAAAGAGAAGAAAAAGAAA-AATAAAA
1 AAAAAAAG-AAAGA-AAGAAAAA-AAAGAACAAAA
16357106 AAAAAAAGAAAGAAAGAAAAAAAAGAACAAAA
1 AAAAAAAGAAAGAAAGAAAAAAAAGAACAAAA
16357138 AAAA
1 AAAA
16357142 GGGAGAGGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 3 0.09
32 18 0.53
33 5 0.15
34 8 0.24
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.01
Consensus pattern (32 bp):
AAAAAAAGAAAGAAAGAAAAAAAAGAACAAAA
Found at i:16357111 original size:12 final size:12
Alignment explanation
Indices: 16357047--16357142 Score: 61
Period size: 12 Copynumber: 7.5 Consensus size: 12
16357037 TTCGATGAAG
* *
16357047 AAAAATAAAGAA
1 AAAAAGAAAAAA
16357059 AAAAAGATAATATAA
1 AAAAAGA-AA-A-AA
16357074 AAAAAGCAAAGAGAA
1 AAAAAG-AAA-A-AA
16357089 GAAAAAG-AAAAA
1 -AAAAAGAAAAAA
*
16357101 TAAAA-AAAAAA
1 AAAAAGAAAAAA
*
16357112 AGAAAGAAAGAAA
1 AAAAAGAAA-AAA
*
16357125 AAAAAGAACAAA
1 AAAAAGAAAAAA
16357137 AAAAAG
1 AAAAAG
16357143 GGAGAGGTCA
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
11 12 0.18
12 20 0.30
13 13 0.19
14 2 0.03
15 13 0.19
16 7 0.10
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:16358385 original size:51 final size:51
Alignment explanation
Indices: 16358266--16358449 Score: 228
Period size: 51 Copynumber: 3.6 Consensus size: 51
16358256 TTTCATTTCA
* * * * *
16358266 TACTCACGATGTCA-TATAGTCATCAGACCTCTTATTCCAT-ATAAGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCATCAT--GGATTCATT
* * * *
16358319 TGCTCACGATAACACTGAGTCATAGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCATGGATTCATT
*
16358370 TACTCACAATGACACTTAGTCATCGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCATGGATTCATT
16358421 TACTCACGATGACACTTAGTCATCGGACC
1 TACTCACGATGACACTTAGTCATCGGACC
16358450 CTTTCCTTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
51 81 0.71
52 8 0.07
53 24 0.21
54 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCATGGATTCATT
Found at i:16360570 original size:49 final size:49
Alignment explanation
Indices: 16360479--16360733 Score: 158
Period size: 49 Copynumber: 5.2 Consensus size: 49
16360469 AGTTCATAAC
** * * * * *
16360479 GGCGAACCCGGTACCTTAGAAGATGTGATGGGAATGGTTGAGGCTGCAAT
1 GGCGAACCCGGTACCACA-AAAATTTGAAGGGAAAGGTTGAGGCTGTAAT
* *
16360529 GGCGAACCCGATACCACAAAAATTTGAAGGGAAAGGTTGAGG-TCGTAAA
1 GGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGCT-GTAAT
* ** * ** *
16360578 GGCAAACCCGGTACCTTAAAAGATATTG-TGGGAAAAATTGAGGCCGTAAT
1 GGCGAACCCGGTACCACAAAA-AT-TTGAAGGGAAAGGTTGAGGCTGTAAT
* * * * * * * *
16360628 GGCGAATCCGGTTCCATAGAGA--TGCAATAGGAAAGGTTGAGGCCGCAAT
1 GGCGAACCCGGTACCACAAAAATTTG-AA-GGGAAAGGTTGAGGCTGTAAT
** * * * *
16360677 TACGAACCCGGTACCACAAAGATTTGAAGGGGAAGGTTGAGGTTATAAT
1 GGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGCTGTAAT
16360726 GGCGAACC
1 GGCGAACC
16360734 TGATACCTTA
Statistics
Matches: 153, Mismatches: 43, Indels: 19
0.71 0.20 0.09
Matches are distributed among these distances:
46 2 0.01
48 1 0.01
49 95 0.62
50 50 0.33
51 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.20
Consensus pattern (49 bp):
GGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGCTGTAAT
Found at i:16360631 original size:99 final size:99
Alignment explanation
Indices: 16360455--16360633 Score: 234
Period size: 99 Copynumber: 1.8 Consensus size: 99
16360445 ATGAAGATTC
* * * * ***
16360455 GAAGCGAAAGGTTGAGTTCATAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAATGGTTGA
1 GAAGCGAAAGGTTGAGGTCATAAAGGCAAACCCGGTACCTTAAAAGATGTGATGGGAAAAATTGA
*
16360520 GGCTGCAATGGCGAACCCGATACCACAAAAATTT
66 GGCCGCAATGGCGAACCCGATACCACAAAAATTT
* * *
16360554 GAAGGGAAAGGTTGAGGTCGTAAAGGCAAACCCGGTACCTTAAAAGATATTG-TGGGAAAAATTG
1 GAAGCGAAAGGTTGAGGTCATAAAGGCAAACCCGGTACCTTAAAAGAT-GTGATGGGAAAAATTG
*
16360618 AGGCCGTAATGGCGAA
65 AGGCCGCAATGGCGAA
16360634 TCCGGTTCCA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 65 0.97
100 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.20
Consensus pattern (99 bp):
GAAGCGAAAGGTTGAGGTCATAAAGGCAAACCCGGTACCTTAAAAGATGTGATGGGAAAAATTGA
GGCCGCAATGGCGAACCCGATACCACAAAAATTT
Found at i:16360833 original size:148 final size:148
Alignment explanation
Indices: 16360509--16360839 Score: 448
Period size: 148 Copynumber: 2.2 Consensus size: 148
16360499 AGATGTGATG
* * *
16360509 GGAATGGTTGAGGCTGCAATGGCGAACCCGATACCACAAAAATTTGAAGGGAAAGGTTGAGGTCG
1 GGAAAGGTTGAGGCTGCAATGGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGTCA
* * * * *
16360574 TAAAGGCAAACCCGGTACCTTAAAAGATATTGTGGGAAAAATTGAGGCCGTAATGGCGAATCCGG
66 TAAAGGCAAACCCGATACCTTAAAAGATATTGTGGGAAAAATTAAGGCCGCAACGGCGAATACGG
16360639 TTCCATAGAGATGCAATA
131 TTCCATAGAGATGCAATA
* ** * * *
16360657 GGAAAGGTTGAGGCCGCAATTACGAACCCGGTACCACAAAGATTTGAAGGGGAAGGTTGAGGTTA
1 GGAAAGGTTGAGGCTGCAATGGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGTCA
* * * * **
16360722 TAATGGCGAACCTGATACCTTAAAAGATTTTGTGGGAAGGATTAAGGCCGCAACGGCGAATACGG
66 TAAAGGCAAACCCGATACCTTAAAAGATATTGTGGGAAAAATTAAGGCCGCAACGGCGAATACGG
16360787 TTCCATAGAGATGCAAT-
131 TTCCATAGAGATGCAATA
* *
16360804 GGAAAAGGTTGAGGCTGCAACGGCAAACCCGGTACC
1 GG-AAAGGTTGAGGCTGCAATGGCGAACCCGGTACC
16360840 TTAAAAACAT
Statistics
Matches: 157, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
147 2 0.01
148 155 0.99
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (148 bp):
GGAAAGGTTGAGGCTGCAATGGCGAACCCGGTACCACAAAAATTTGAAGGGAAAGGTTGAGGTCA
TAAAGGCAAACCCGATACCTTAAAAGATATTGTGGGAAAAATTAAGGCCGCAACGGCGAATACGG
TTCCATAGAGATGCAATA
Found at i:16361162 original size:39 final size:39
Alignment explanation
Indices: 16361114--16361376 Score: 142
Period size: 39 Copynumber: 6.7 Consensus size: 39
16361104 GATGACTCTG
* *
16361114 ATCTCTTACCCCGATCATGGGGCAGATTATAGCCATCCG
1 ATCTCTTACCCCGATCATGGGGCAGATTACAGCCATCCA
* * * * * * *
16361153 ATCTTTTACCTCGAGCCT-GGGAAAAAT-CA-CCATTAGCCA
1 ATCTCTTACCCCGATCATGGGGCAGATTACAGCCA-T--CCA
* * * * * *
16361192 ATCTCTTACCCTGAGCTTGAGGCAAATTACAGCCATCCT
1 ATCTCTTACCCCGATCATGGGGCAGATTACAGCCATCCA
* * * * * * *
16361231 ATCTTTTACCCTGAGT-TTGGGGCAAATCACCA-TCAACCA
1 ATCTCTTACCCCGA-TCATGGGGCAGATTA-CAGCCATCCA
* ** * * *
16361270 ATCTCTTACCCCGA-GATAGGGGCAGATTGTAACCATTCG
1 ATCTCTTACCCCGATCAT-GGGGCAGATTACAGCCATCCA
* * *
16361309 ATCTTTTACCCCGACCATGGGGCAGATCACAGCCATCCA
1 ATCTCTTACCCCGATCATGGGGCAGATTACAGCCATCCA
16361348 ATCTCTTACCCCAGATCATGGGGCAGATT
1 ATCTCTTACCCC-GATCATGGGGCAGATT
16361377 GCAGTTATCC
Statistics
Matches: 165, Mismatches: 46, Indels: 25
0.70 0.19 0.11
Matches are distributed among these distances:
36 3 0.02
37 2 0.01
38 8 0.05
39 122 0.74
40 24 0.15
41 3 0.02
42 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGATCATGGGGCAGATTACAGCCATCCA
Found at i:16361313 original size:78 final size:78
Alignment explanation
Indices: 16361114--16361376 Score: 246
Period size: 78 Copynumber: 3.4 Consensus size: 78
16361104 GATGACTCTG
* * **
16361114 ATCTCTTACCCCGATCAT-GGGGCAGATTATAGCCATCCGATCTTTTA-CCTCGAGCCTGGGAAA
1 ATCTCTTACCCCGA-GATAGGGGCAGATTATAGCCATCCGATCTTTTACCCT-GAGCATGGGGCA
* *
16361177 AATCACCATTAGCCA
64 AATCACCATCAACCA
* * * * * * * **
16361192 ATCTCTTACCCTGAGCTTGAGGCAAATTACAGCCATCCTATCTTTTACCCTGAGTTTGGGGCAAA
1 ATCTCTTACCCCGAGATAGGGGCAGATTATAGCCATCCGATCTTTTACCCTGAGCATGGGGCAAA
16361257 TCACCATCAACCA
66 TCACCATCAACCA
* * * * * *
16361270 ATCTCTTACCCCGAGATAGGGGCAGATTGTAACCATTCGATCTTTTACCCCGACCATGGGGCAGA
1 ATCTCTTACCCCGAGATAGGGGCAGATTATAGCCATCCGATCTTTTACCCTGAGCATGGGGCAAA
* *
16361335 TCA-CAGCCATCCA
66 TCACCA-TCAACCA
16361348 ATCTCTTACCCC-AGATCATGGGGCAGATT
1 ATCTCTTACCCCGAGAT-A-GGGGCAGATT
16361377 GCAGTTATCC
Statistics
Matches: 150, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
77 7 0.05
78 130 0.87
79 13 0.09
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCCCGAGATAGGGGCAGATTATAGCCATCCGATCTTTTACCCTGAGCATGGGGCAAA
TCACCATCAACCA
Found at i:16361668 original size:48 final size:48
Alignment explanation
Indices: 16361611--16361733 Score: 210
Period size: 48 Copynumber: 2.6 Consensus size: 48
16361601 CTTCGAACCC
*
16361611 CAGCTTCCTGATGAGATACTGAGAAGTAGGTCGTAGCAATAAAATGAT
1 CAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGAT
* *
16361659 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGT
1 CAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGAT
*
16361707 CAGCTTCCTGATGAGATACAGAGAAGT
1 CAGCTTCCTGATGAGATACTGAGAAGT
16361734 GGATTGAAAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (48 bp):
CAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAATGAT
Found at i:16361872 original size:220 final size:209
Alignment explanation
Indices: 16361407--16362065 Score: 837
Period size: 220 Copynumber: 3.1 Consensus size: 209
16361397 AGGCGGTCAT
* * * * * *
16361407 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT-AAGTGGTCATCTTCTTGACGAGATGCA
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCGTCTTCCTGATGAGATACA
* * * *
16361471 GAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAATAA-TGAGGCGG
66 GAGAAGTGGACAAAATCAGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAATAAGTGATGCGG
* * * *
16361535 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGGCTCAATATGAGC-AA
131 TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATGTGAGCGAA
16361599 ATCTTCGAACCCCAG
196 A-CTTCGAACCCCAG
* *
16361614 CTTCCTGATGAGATACTGAGAAGTAGGTCGTAGCAATAAAATGATCAG-CTTCCTGATGAGATAC
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATC-GTCTTCCTGATGAGATAC
* *
16361678 TGAGAAGCAGGTCGAAGCAATAAAATGGTCAG-CTTCCTGATGAGATACAGAGAAGTGGATTGAA
65 --AG-AG-AAGT-G--G--ACAAAA---TCAGTCTTCCTGATGAGATACAGAGAAGTGGATTGAA
* *
16361742 ACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAACAAAGCT
118 ATAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAACAAAGCT
* *
16361807 CAATGTGAGCGAAACTTTGAACCCCAA
183 CAATGTGAGCGAAACTTCGAACCCCAG
*
16361834 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCGTCTTCCTGATGAGATACA
* * ** *
16361899 GAGAAGTGGACCAAATCCGTCTTGTTGATGAGATACAGAGAAGCGGATT-AAGATAAGTGATGCG
66 GAGAAGTGGACAAAATCAGTCTTCCTGATGAGATACAGAGAAGTGGATTGAA-ATAAGTGATGCG
* * *
16361963 GTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTTAATG-GAGCGA
130 GTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATGTGAGCGA
*
16362027 AACTACGAACCCCAG
195 AACTTCGAACCCCAG
*
16362042 CTTCTTGATGAGATACTGAGAAGC
1 CTTCCTGATGAGATACTGAGAAGC
16362066 GAATTAAGAC
Statistics
Matches: 392, Mismatches: 41, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
207 35 0.09
208 65 0.17
209 91 0.23
210 2 0.01
211 6 0.02
212 3 0.01
213 2 0.01
215 1 0.00
216 3 0.01
217 6 0.02
218 2 0.01
219 36 0.09
220 137 0.35
221 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (209 bp):
CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATCGTCTTCCTGATGAGATACA
GAGAAGTGGACAAAATCAGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAATAAGTGATGCGG
TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAACAAAGCTCAATGTGAGCGAA
ACTTCGAACCCCAG
Found at i:16362242 original size:121 final size:120
Alignment explanation
Indices: 16361924--16362244 Score: 364
Period size: 123 Copynumber: 2.6 Consensus size: 120
16361914 TCCGTCTTGT
* * * * *
16361924 TGATGAGATAC-AGAGAAGCGGATTAAGATAAGTGATGCGGTCATCTTCTTGATGAGATACAGAG
1 TGATGAGATACTA-AGAAGCGAATGAAGACAAGTAAT--GGTCATCTTCCTGATGAGATACAGAG
16361988 AAGTATACCAAATCAATGAAACAAAGCTTAATGGAGCGAAACTACGAACCCCAGCTTC
63 AAGTATACCAAATCAATGAAACAAAGCTTAATGGAGCGAAACTACGAACCCCAGCTTC
* * * *
16362046 TTGATGAGATACTGAGAAGCGAATTAAGACAAGTGATGCAGTCATCTTCCTGATGAGATACAGAA
1 -TGATGAGATACTAAGAAGCGAATGAAGACAAGTAATG--GTCATCTTCCTGATGAGATACAGAG
* **
16362111 AAGTATACCAAATCAATGAAACAAAG-TTCAATGTTAGCGAAACTTTGAACCCCAGCTTC
63 AAGTATACCAAATCAATGAAACAAAGCTT-AATG-GAGCGAAACTACGAACCCCAGCTTC
** *
16362170 -GATGAGATACTAAGAAGCGGGTCGAAG-CAA-TAAAATGGTCACCTTCCTGATGAGATACAGAG
1 TGATGAGATACTAAGAAGCGAAT-GAAGACAAGT--AATGGTCATCTTCCTGATGAGATACAGAG
*
16362232 AAGTAAACCAAAT
63 AAGTATACCAAAT
16362245 TTGTCTTCCT
Statistics
Matches: 174, Mismatches: 16, Indels: 18
0.84 0.08 0.09
Matches are distributed among these distances:
121 37 0.21
122 24 0.14
123 91 0.52
124 22 0.13
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (120 bp):
TGATGAGATACTAAGAAGCGAATGAAGACAAGTAATGGTCATCTTCCTGATGAGATACAGAGAAG
TATACCAAATCAATGAAACAAAGCTTAATGGAGCGAAACTACGAACCCCAGCTTC
Found at i:16364231 original size:29 final size:29
Alignment explanation
Indices: 16364199--16364795 Score: 252
Period size: 29 Copynumber: 20.6 Consensus size: 29
16364189 CCAAACTTTC
*
16364199 CAAAAATTACCATTTTACCCCTAAACATT
1 CAAAAATTACCATTTTACCCCTGAACATT
** *
16364228 CAAAAATTACCATTTTA-CCCTCGAGTATC
1 CAAAAATTACCATTTTACCCCT-GAACATT
* ** *
16364257 CAAAAAAATTACCATTTTACCCC-GGATGTC
1 C--AAAAATTACCATTTTACCCCTGAACATT
* * *
16364287 CAAAAATT-TCATTTTTGACCCC-AAACTTT
1 CAAAAATTACCA-TTTT-ACCCCTGAACATT
*
16364316 CCAAAAATTACCATTTTA-CCCTCGAACATC
1 -CAAAAATTACCATTTTACCCCT-GAACATT
* ***
16364346 CAAAAATTACCA-TTTACCCCCGAGTGTCT
1 CAAAAATTACCATTTTACCCCTGAACAT-T
* * *
16364375 AAAAAATTACCATTTTA-CCCTCGAATATC
1 CAAAAATTACCATTTTACCCCT-GAACATT
* * *
16364404 CAAAAATTA-CATTTTTAACCTTGAACTTT
1 CAAAAATTACCA-TTTTACCCCTGAACATT
* *
16364433 CCAAAAATTACCATTTTACCCCTAAACATC
1 -CAAAAATTACCATTTTACCCCTGAACATT
***
16364463 CAAAAATTACCATTTTACCCCTGAGTGTT
1 CAAAAATTACCATTTTACCCCTGAACATT
**
16364492 CAAAAATTACCATTTTACCCCT--AGGTGT
1 CAAAAATTACCATTTTACCCCTGAACAT-T
* ***
16364520 CCAACAATTATTGTTTTA-CCCTCGAACA-T
1 -CAAAAATTACCATTTTACCCCT-GAACATT
* * ** * *
16364549 CTAATAATTACCGTTTTGTCCCTCAACATC
1 C-AAAAATTACCATTTTACCCCTGAACATT
* * *** *
16364579 CAAAAATTACCATTCTA-CTCTCGAGTGTC
1 CAAAAATTACCATTTTACCCCT-GAACATT
* * ** *
16364608 CAAAAATTACCGTTTTACCCAC-GGATGTC
1 CAAAAATTACCATTTTACCC-CTGAACATT
* *
16364637 CAAAAATTA-CATTTTTGACCTC-GAACATC
1 CAAAAATTACCA-TTTT-ACCCCTGAACATT
16364666 CAAAAATTACCATTTTA-CCCTCGAACATT
1 CAAAAATTACCATTTTACCCCT-GAACATT
* * * *
16364695 TAAAAATTACTATTTTATCCCC--AAGTATC
1 CAAAAATTACCATTTTA-CCCCTGAA-CATT
* * *
16364724 CAAAAATTACCGTTTTACCTCT--A-GTGT
1 CAAAAATTACCATTTTACCCCTGAACAT-T
*
16364751 CTAAAAATTACTATTTTACCCCTG-A-ATGT
1 C-AAAAATTACCATTTTACCCCTGAACAT-T
*
16364780 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
16364796 GCCCTCGGCA
Statistics
Matches: 434, Mismatches: 93, Indels: 83
0.71 0.15 0.14
Matches are distributed among these distances:
26 1 0.00
27 7 0.02
28 75 0.17
29 259 0.60
30 64 0.15
31 25 0.06
32 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCTGAACATT
Found at i:16364261 original size:58 final size:58
Alignment explanation
Indices: 16364197--16364795 Score: 384
Period size: 58 Copynumber: 10.3 Consensus size: 58
16364187 CCCCAAACTT
*
16364197 TCCAAAAATTACCATTTTACCCCTAAACATTCAAAAATTACCATTTTACCCTCGAGTA
1 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTCGAGTA
** ** * * * *
16364255 TCCAAAAAAATTACCATTTTACCCC-GGATGTCCAAAAATT-TCATTTTTGACCC-CAAACTT
1 TCC--AAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCA-TTTT-ACCCTC-GAGTA
* * *
16364315 TCCAAAAATTACCATTTTA-CCCTCGAACATCCAAAAATTACCA-TTTACCCCCGAGTG
1 TCCAAAAATTACCATTTTACCCCT-AAACATCCAAAAATTACCATTTTACCCTCGAGTA
* * * * * * *
16364372 TCTAAAAAATTACCATTTTA-CCCTCGAATATCCAAAAATTA-CATTTTTAACCTTGAACTT
1 TC-CAAAAATTACCATTTTACCCCT-AAACATCCAAAAATTACCA-TTTTACCCTCG-AGTA
*
16364432 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCC-CTGAGTG
1 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTC-GAGTA
* **** * *** **
16364490 TTCAAAAATTACCATTTTACCCCTAGGTGTCCAACAATTATTGTTTTACCCTCGAACA
1 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTCGAGTA
* * * ** * * * *
16364548 TCTAATAATTACCGTTTTGTCCCTCAACATCCAAAAATTACCATTCTACTCTCGAGTG
1 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTCGAGTA
* ** ** **
16364606 TCCAAAAATTACCGTTTTACCCAC-GGATGTCCAAAAATTA-CATTTTTGA-CCTCGAACA
1 TCCAAAAATTACCATTTTACCC-CTAAACATCCAAAAATTACCA-TTTT-ACCCTCGAGTA
* ** * *
16364664 TCCAAAAATTACCATTTTA-CCCTCGAACATTTAAAAATTACTATTTTATCCC-CAAGTA
1 TCCAAAAATTACCATTTTACCCCT-AAACATCCAAAAATTACCATTTTA-CCCTCGAGTA
* * *** * * * *
16364722 TCCAAAAATTACCGTTTTACCTCT-AGTGTCTAAAAATTACTATTTTACCC-CTGAATG
1 TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTC-GAGTA
16364779 TCC-AAAATTACCATTTT
1 TCCAAAAATTACCATTTT
16364796 GCCCTCGGCA
Statistics
Matches: 419, Mismatches: 95, Indels: 56
0.74 0.17 0.10
Matches are distributed among these distances:
56 18 0.04
57 42 0.10
58 237 0.57
59 81 0.19
60 41 0.10
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCCTAAACATCCAAAAATTACCATTTTACCCTCGAGTA
Found at i:16364409 original size:87 final size:86
Alignment explanation
Indices: 16364197--16364794 Score: 387
Period size: 87 Copynumber: 6.9 Consensus size: 86
16364187 CCCCAAACTT
* * * *
16364197 TCCAAAAATTACCATTTTACCC-CTAAACATTCAAAAATTACCATTTTACCCTCGAGTATCCAAA
1 TCCAAAAATTACCATTTTACCCTC-GAATATCCAAAAATTACCATTTTACCCTCGAATATCC--A
* *
16364261 AAAATTACCATTTTACCCCGGA-TG
63 AAAATTACCA-TTTACCCCCGAGTA
* * * *
16364285 TCCAAAAATT-TCATTTTTGACCC-CAAACTTTCCAAAAATTACCATTTTACCCTCGAACATCCA
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA-TATCCAAAAATTACCATTTTACCCTCGAATATCCA
*
16364348 AAAATTACCATTTACCCCCGAGTG
63 AAAATTACCATTTACCCCCGAGTA
* * * *
16364372 TCTAAAAAATTACCATTTTACCCTCGAATATCCAAAAATTA-CATTTTTAACCTTGAACTTTCCA
1 TC-CAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACCA-TTTTACCCTCGAA-TATCCA
** **
16364436 AAAATTACCATTTTACCCCTAAACA
63 AAAATTACCA-TTTACCCCCGAGTA
* * * * * *
16364461 TCCAAAAATTACCATTTTACCC-CTGAGTGTTCAAAAATTACCATTTTACCC-CTAGGTGTCCAA
1 TCCAAAAATTACCATTTTACCCTC-GAATATCCAAAAATTACCATTTTACCCTCGA-ATATCCAA
* *** * **
16364524 CAATTATTGTTTTACCCTCGAACA
64 AAATTA-CCATTTACCCCCGAGTA
* * * * * * * * *
16364548 TCTAATAATTACCGTTTTGTCCCTC-AACATCCAAAAATTACCATTCTACTCTCGAGTGTCCAAA
1 TCCAAAAATTACCATTTT-ACCCTCGAATATCCAAAAATTACCATTTTACCCTCGAATATCCAAA
* * *
16364612 AATTACCGTTTTACCCACG-GATG
65 AATTACC-ATTTACCCCCGAG-TA
* * **
16364635 TCCAAAAATTA-CATTTTTGA-CCTCGAACATCCAAAAATTACCATTTTACCCTCGAACATTTAA
1 TCCAAAAATTACCA-TTTT-ACCCTCGAATATCCAAAAATTACCATTTTACCCTCGAATATCCAA
* * *
16364698 AAATTACTATTTTATCCCCAAGTA
64 AAATTACCA-TTTACCCCCGAGTA
* * * * * * *
16364722 TCCAAAAATTACCGTTTTA-CCTCTAGTGTCTAAAAATTACTATTTTACCC-CTGAATGTCC-AA
1 TCCAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACCATTTTACCCTC-GAATATCCAAA
16364784 AATTACCATTT
65 AATTACCATTT
16364795 TGCCCTCGGC
Statistics
Matches: 402, Mismatches: 83, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
84 3 0.01
85 10 0.02
86 47 0.12
87 201 0.50
88 91 0.23
89 50 0.12
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (86 bp):
TCCAAAAATTACCATTTTACCCTCGAATATCCAAAAATTACCATTTTACCCTCGAATATCCAAAA
ATTACCATTTACCCCCGAGTA
Found at i:16366034 original size:21 final size:18
Alignment explanation
Indices: 16365993--16366043 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
16365983 TGTATCGTAA
16365993 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
*
16366011 TATTACTTAATAAAATAT
1 TATTAATTAATAAAATAT
*
16366029 TATTATTTAATAAAA
1 TATTAATTAATAAAA
16366044 ATATCATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:16367734 original size:84 final size:85
Alignment explanation
Indices: 16367572--16367736 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 85
16367562 TAAAATTGGA
* * *
16367572 AAATAAATATGTTTTAGGATCTATTTCCCGCCGCTCAACATATTTAATTCTATATTTGGATTTTG
1 AAATAAATATGTTTCAGGATCTATTTCCCACCGCTCAACATATTTAATTCCATATTTGGATTTTG
*
16367637 GTTCCAAGTAATAATTAAGT
66 GTTCCAAATAATAATTAAGT
* * * * * *
16367657 AAATAAATCTGTTTCGGGATTTA-TTCCCACCGTTTAACATATTTTATTCCA-ATTT-GATTTTG
1 AAATAAATATGTTTCAGGATCTATTTCCCACCGCTCAACATATTTAATTCCATATTTGGATTTTG
*
16367719 TTTCCAAATAA-AA-TAAGT
66 GTTCCAAATAATAATTAAGT
16367737 TGACTAAATC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.07
81 2 0.03
82 16 0.23
83 4 0.06
84 23 0.33
85 19 0.28
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (85 bp):
AAATAAATATGTTTCAGGATCTATTTCCCACCGCTCAACATATTTAATTCCATATTTGGATTTTG
GTTCCAAATAATAATTAAGT
Found at i:16367775 original size:81 final size:83
Alignment explanation
Indices: 16367608--16367800 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 83
16367598 CCCGCCGCTC
* *
16367608 AACATATTTAATTCTATATTTGGATTTTGGTTCCAAGTAATAATTAAGTAAATAAATCTGTTTCG
1 AACATATTTTATTCTATATTT-GATTTTGGTTCCAAATAATAATTAAGTAAATAAATCTGTTTCG
* * *
16367673 GGATTTATTCCCACCGTTT
65 AGATATATTCCCACCGATT
* * * *
16367692 AACATATTTTATTCCA-ATTTGATTTTGTTTCCAAATAA-AA-TAAGTTGACTAAATCTGTTTCG
1 AACATATTTTATTCTATATTTGATTTTGGTTCCAAATAATAATTAAG-TAAATAAATCTGTTTCG
* ** *
16367754 AGATATATTTCTGCTGATT
65 AGATATATTCCCACCGATT
* *
16367773 AACAGATTATATTCTATATTTGCATTTT
1 AACATATTTTATTCTATATTTG-ATTTT
16367801 ATAATAATCA
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
80 4 0.04
81 42 0.47
82 21 0.23
83 9 0.10
84 14 0.16
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (83 bp):
AACATATTTTATTCTATATTTGATTTTGGTTCCAAATAATAATTAAGTAAATAAATCTGTTTCGA
GATATATTCCCACCGATT
Found at i:16369450 original size:15 final size:15
Alignment explanation
Indices: 16369432--16369520 Score: 67
Period size: 15 Copynumber: 5.9 Consensus size: 15
16369422 GTGTTGCTAG
16369432 CACTCATGTTGCGAA
1 CACTCATGTTGCGAA
*
16369447 CACTGGA-GTTGCGAA
1 CACT-CATGTTGCGAA
*
16369462 CACTCATGTTACGAGTA
1 CACTCATGTTGCGA--A
* *
16369479 CACACA--TTGAGAA
1 CACTCATGTTGCGAA
* *
16369492 CACTGATGTGGCGAA
1 CACTCATGTTGCGAA
*
16369507 CACTCGTGTTGCGA
1 CACTCATGTTGCGA
16369521 GCATGAATGA
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
13 5 0.09
14 1 0.02
15 42 0.76
16 1 0.02
17 6 0.11
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (15 bp):
CACTCATGTTGCGAA
Found at i:16370890 original size:23 final size:21
Alignment explanation
Indices: 16370864--16370905 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
16370854 AGATTAGCAT
16370864 GAAAATATCAAAAAAGAAAGAAA
1 GAAAAT-TCAAAAAA-AAAGAAA
*
16370887 GAAAATTCGAAAAAAAAGA
1 GAAAATTCAAAAAAAAAGA
16370906 CAGATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.10
Consensus pattern (21 bp):
GAAAATTCAAAAAAAAAGAAA
Found at i:16372511 original size:773 final size:773
Alignment explanation
Indices: 16371403--16374748 Score: 6171
Period size: 773 Copynumber: 4.3 Consensus size: 773
16371393 AATATTAAGT
*
16371403 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAACCCCATTTA
1 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
* *
16371468 TTTTCCTTTCGTACTATAAATCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAAATAAA
66 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
* *
16371533 ATTGCTATTGTTTTGTCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
131 ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
*
16371598 TCACAACTCGGCCCATATACTTGCGGAAGCCTAAAAATACACACCGAACGGGAGTACGTTCAGAT
196 TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
16371663 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
261 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
16371728 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
326 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
*
16371793 GGAAATAATTTCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
391 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
*
16371858 TTTTCAACGAATCAATTGTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
456 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
* * * *
16371923 GGATGTCATTTTGGTGGGAATTAACCCAAAATTGGTATTGCTCATTCATGAATACCTTTACCCCA
521 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
16371988 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
586 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
* * * * *
16372053 TCGGAAGATCCTGATAAGGTAGCGACTAATTGATTGAAGAAAAATCCTAAAAATGATGATTGCAG
651 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
*
16372118 AAATCATATCGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
716 AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
*
16372176 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTATTTACTAAATTCCAAAACCCATTTA
1 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
*
16372241 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTCGTAGGAATTAAA
66 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
* *
16372306 ATTGCAATTGTTTCGCCTCTCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
131 ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
* * *
16372371 TCACAACTCGGCCCATATACTTGTGGAAGCTCAAAAATACACACCAAACGGGAGTACGTTCAGAT
196 TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
*
16372436 TGTTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
261 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
16372501 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
326 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
*
16372566 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATATAGGG
391 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
16372631 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
456 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
*
16372696 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAGCACCTTTACCCCA
521 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
16372761 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
586 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
16372826 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
651 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
*
16372891 AAATCATATTAAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
716 AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
16372949 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
1 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
*
16373014 TTTTCCTTTCGTGCTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
66 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
* *
16373079 ATTGCTATTGTTTCGCCTCCCTTGGGTATGATCCTCGGAACACTAGTTACTTCGTTGTAACTATA
131 ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
* *
16373144 TCACAACTCGGCCCATATACTTGCAGAAGCCCAAAAATACACACCGAACGGGAGTACATTCAGAT
196 TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
16373209 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
261 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
16373274 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
326 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
16373339 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
391 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
16373404 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
456 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
*
16373469 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAGCACCTTTACCCCA
521 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
16373534 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
586 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
16373599 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
651 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
16373664 AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
716 AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
*
16373722 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTACAAAACCCATTTA
1 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
*
16373787 TTTTCCTTTCGTGCTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
66 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
* *
16373852 ATTGCTATTGTTTCGCCTCCCTTGGGTATGATCCTCGGAACACTAGTTACTTCGTTGTAACTATA
131 ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
*
16373917 TCACAACTCGGCCCATATACTTGCAGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
196 TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
16373982 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
261 TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
16374047 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
326 ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
16374112 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
391 GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
* *
16374177 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAGACAAACCCTAGGCCTTACAACCCTA
456 TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
16374242 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
521 GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
*
16374307 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCCTTGTTGACTTGTTATGTTGGTGGAAGA
586 AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
* ** *
16374372 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAGAAATCCCAAAAACGACGATTGCAG
651 TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
* *
16374437 AAATCATATTGAAGCAAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCAGCTC
716 AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
16374495 TATTTCCC-----TTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
1 TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
*
16374555 TTTTCCTTTGGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
66 TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
* * *
16374620 ATTGTTATTGTTTCACCTCCCTTGGGTACAATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
131 ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
*
16374685 TCATAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGA
196 TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGA
16374749 GGCGGCCATT
Statistics
Matches: 2507, Mismatches: 66, Indels: 5
0.97 0.03 0.00
Matches are distributed among these distances:
768 236 0.09
773 2271 0.91
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (773 bp):
TATTTCCCTTATTTTATTTTATTTTATGTTAAGTTATTTGTTTACTAAATTCCAAAACCCATTTA
TTTTCCTTTCGTACTATAAACCCTAAAGAAAATATTAATTACTTATTTTCTTTGTAGGAATTAAA
ATTGCTATTGTTTCGCCTCCCTTGGGTACGATCCTCGGAATACTAGTTACTTCGTTGTAACTATA
TCACAACTCGGCCCATATACTTGCGGAAGCCCAAAAATACACACCGAACGGGAGTACGTTCAGAT
TGCTATACAATTCTTAGTTTCTTCCTAACAGATTGCTATACAATTCTTAGTTTCTTTCAATTCAT
ATTTTCAATCTTAAATTTCATGTTTACTTATATTATTGAATCTATGATGTCCAAAGAAACCATGA
GGAAATAATTCCATTGTGGGGGATTAAGGATTGGAAGTATGGTTATTTAATTATTGTATACAGGG
TTTTCAACGAATCAATTTTTTGGAAAAGGAAGAACGTGAAACAAACCCTAGGCCTGACAACCCTA
GGATGTCATTTAGGTGGGAATTAACCCAAAATTGGTATTGCCCATTCGTGAACACCTTTACCCCA
AAGCAATCTAGACTGTGACATCTAAAGATAAGTAGTCTTTGTTGACTTGTTATGTTGGTGGAAGA
TCGGAAGATCCTGCTAAGGTAGCGACTAATTGATTGAAGAAAAATCCCAAAAATAACGATTGCAA
AAATCATATTGAAGCGAGCTAATCCCCCATAAATTTGTTTATCGAGTTTTATCATCTC
Found at i:16378635 original size:23 final size:23
Alignment explanation
Indices: 16378609--16378806 Score: 265
Period size: 23 Copynumber: 8.6 Consensus size: 23
16378599 ATACGTTTTA
* *
16378609 ACATTAATATTTAAGCACAAATT
1 ACATTAATATTTAAGCATAAATC
16378632 ACATTAATATTTAAGCATAAATC
1 ACATTAATATTTAAGCATAAATC
* *
16378655 ACATTAAT-TCGTAAACATAAATC
1 ACATTAATAT-TTAAGCATAAATC
* * *
16378678 ATATTAACATTTAAGCATAAATT
1 ACATTAATATTTAAGCATAAATC
* *
16378701 ACATTGATATTTAAGCACAAATC
1 ACATTAATATTTAAGCATAAATC
16378724 ACATTAATATTTAAGCATAAATC
1 ACATTAATATTTAAGCATAAATC
*
16378747 ACATTAACT-TGTAAGCATAAATC
1 ACATTAA-TATTTAAGCATAAATC
*
16378770 ATATTAATATTTAAGCATAAATC
1 ACATTAATATTTAAGCATAAATC
16378793 ACATTAATATTTAA
1 ACATTAATATTTAA
16378807 CACATTTAAT
Statistics
Matches: 151, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
22 2 0.01
23 147 0.97
24 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (23 bp):
ACATTAATATTTAAGCATAAATC
Found at i:16379317 original size:36 final size:36
Alignment explanation
Indices: 16379267--16379425 Score: 219
Period size: 36 Copynumber: 4.4 Consensus size: 36
16379257 TTAGCATAAT
*
16379267 ATATTCACTGTCACATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
16379303 ATATTTACTATCACATGGCATGAATAATATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* * * * *
16379339 ATATTTATTGTCTCATGGCATAAATAACATGCCTAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
16379375 ATATTTACTGTCTCATGGCATGAATAACATGCCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
*
16379411 ATATTTACTCTCACA
1 ATATTTACTGTCACA
16379426 ACAGTCATCA
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 108 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:16385102 original size:12 final size:12
Alignment explanation
Indices: 16385072--16385114 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
16385062 TCTTTTTTTC
*
16385072 CTTCTTCCTTTT
1 CTTCTTCCTTCT
*
16385084 CTACTTCCTTCT
1 CTTCTTCCTTCT
*
16385096 CTTCTTCTTTCT
1 CTTCTTCCTTCT
16385108 CTTCTTC
1 CTTCTTC
16385115 AATACCCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.60
Consensus pattern (12 bp):
CTTCTTCCTTCT
Found at i:16400550 original size:22 final size:22
Alignment explanation
Indices: 16400511--16400556 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16400501 GTTAAAGTGT
* *
16400511 AATTTTATTATTATTAAATTAA
1 AATTTTATAATTATTAAATGAA
16400533 AATTTTATAAATTA-TAAATGAA
1 AATTTTAT-AATTATTAAATGAA
16400555 AA
1 AA
16400557 GAATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AATTTTATAATTATTAAATGAA
Found at i:16401847 original size:5 final size:5
Alignment explanation
Indices: 16401837--16401875 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
16401827 ATAATCCACA
16401837 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
16401876 AGCAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:16402234 original size:21 final size:22
Alignment explanation
Indices: 16402208--16402251 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
16402198 AAAAAATTAT
16402208 AAAATATAATAC-AATAA-AATA
1 AAAATAT-ATACTAATAATAATA
16402229 AAAATATATACTAATAATAATA
1 AAAATATATACTAATAATAATA
16402251 A
1 A
16402252 TAATTGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATATATACTAATAATAATA
Found at i:16403402 original size:28 final size:29
Alignment explanation
Indices: 16403370--16403427 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
16403360 GATGGGGAGT
16403370 GGAA-TGGGA-GGAGGTAAAAGTTTTAGGG
1 GGAAGTGGGAGGGA-GTAAAAGTTTTAGGG
16403398 GGAATGTGGGAGGGAGTAAAAGTTTTAGGG
1 GGAA-GTGGGAGGGAGTAAAAGTTTTAGGG
16403428 AAAATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
30 20 0.74
31 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.47, T:0.22
Consensus pattern (29 bp):
GGAAGTGGGAGGGAGTAAAAGTTTTAGGG
Found at i:16405672 original size:14 final size:14
Alignment explanation
Indices: 16405653--16405686 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
16405643 TATCTTATAC
16405653 ATATATTTATTAAT
1 ATATATTTATTAAT
*
16405667 ATATATTTATTTAT
1 ATATATTTATTAAT
16405681 -TATATT
1 ATATATT
16405687 ACCATTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATATTTATTAAT
Found at i:16406784 original size:31 final size:29
Alignment explanation
Indices: 16406692--16406918 Score: 208
Period size: 30 Copynumber: 7.6 Consensus size: 29
16406682 CCTAGAAAGT
* *
16406692 CCCTAAAC-TTTCCAGAAATTATATTTTAA
1 CCCTAAACTTTTCCA-AAATTACATTTTGA
* * * * *
16406721 CCTTAAGCTTCTCCAAAATTAAATTTTAA
1 CCCTAAACTTTTCCAAAATTACATTTTGA
* * *
16406750 CCCTAGAATTTTTTCCAAGATTACCTTTTGA
1 CCCTA-AA-CTTTTCCAAAATTACATTTTGA
* *
16406781 CCCTCAAAATTTTCTAAAATTACATTTTGA
1 CCCT-AAACTTTTCCAAAATTACATTTTGA
*
16406811 CCCCTAAACTTTTCCAAAATTACATTTTAA
1 -CCCTAAACTTTTCCAAAATTACATTTTGA
*
16406841 CCCCTAAACTTTTCTAAAATTACATTTTGA
1 -CCCTAAACTTTTCCAAAATTACATTTTGA
* *
16406871 CCCTTAAACTTCTCCAAAATCACATTTTCGA
1 CCC-TAAACTTTTCCAAAATTACATTTT-GA
16406902 -CCTCAAA-TTTTCCAAAA
1 CCCT-AAACTTTTCCAAAA
16406919 GCTTGATTTT
Statistics
Matches: 165, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
29 36 0.22
30 100 0.61
31 28 0.17
32 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
CCCTAAACTTTTCCAAAATTACATTTTGA
Found at i:16406928 original size:90 final size:88
Alignment explanation
Indices: 16406732--16406968 Score: 230
Period size: 90 Copynumber: 2.6 Consensus size: 88
16406722 CTTAAGCTTC
* * * * *
16406732 TCCAAAATTAAATTTTAACCCTAGAATTTTTTCCAAGATTACCTTTTGACCCTCAAAATTTTCTA
1 TCCAAAATTACATTTTAACCCTA-AA--TTTTCCAAAATTACATTTTGACCCTCAAAATTCTCCA
*
16406797 AAATTACATTTTGACCCCTAAACTTT
63 AAATCACATTTTGACCCCTAAACTTT
* * *
16406823 TCCAAAATTACATTTTAACCCCTAAACTTTTCTAAAATTACATTTTGACCCTTAAACTTCTCCAA
1 TCCAAAATTACATTTTAA-CCCTAAA-TTTTCCAAAATTACATTTTGACCCTCAAAATTCTCCAA
*
16406888 AATCACATTTTCGACCTC-AAA-TTT
64 AATCACATTTT-GACCCCTAAACTTT
* * *
16406912 TCCAAAAGCTT-GATTTTAATCCC-AAATTTTCCAAAAATTTCAATTTTGATCCTCAAA
1 TCCAAAA--TTACATTTTAA-CCCTAAATTTTCC-AAAATTAC-ATTTTGACCCTCAAA
16406969 TTCCTCGAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
88 5 0.04
89 20 0.16
90 67 0.54
91 26 0.21
92 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (88 bp):
TCCAAAATTACATTTTAACCCTAAATTTTCCAAAATTACATTTTGACCCTCAAAATTCTCCAAAA
TCACATTTTGACCCCTAAACTTT
Found at i:16418938 original size:22 final size:22
Alignment explanation
Indices: 16418895--16418937 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16418885 AAAAAATTAT
16418895 TAAATATTAAAATAAAATAAAA
1 TAAATATTAAAATAAAATAAAA
*
16418917 TAAATATTAAAA-AAATTAAAA
1 TAAATATTAAAATAAAATAAAA
16418938 AATAATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAATATTAAAATAAAATAAAA
Found at i:16418944 original size:22 final size:22
Alignment explanation
Indices: 16418896--16418945 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16418886 AAAAATTATT
*
16418896 AAATATTAAAATAAAATAAAAT
1 AAATATTAAAATAAAATAAAAA
*
16418918 AAATATTAAAA-AAATTAAAAA
1 AAATATTAAAATAAAATAAAAA
16418939 ATAATAT
1 A-AATAT
16418946 GGGCAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATATTAAAATAAAATAAAAA
Found at i:16420820 original size:59 final size:59
Alignment explanation
Indices: 16420749--16420923 Score: 287
Period size: 59 Copynumber: 3.0 Consensus size: 59
16420739 TTGACTTTCG
* *
16420749 AGGGTAACATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTA
* * *
16420808 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGATAAAAATGGGATTTTAGAAAGTTTA
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTA
* *
16420867 AGGGTAAAATGGTAATTTTTGATGAAATTGGGGTTAAAAATGGGATTTTGGAAAGTT
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTT
16420924 CGAGGACCTA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.34
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTA
Found at i:16420900 original size:29 final size:30
Alignment explanation
Indices: 16420757--16420905 Score: 91
Period size: 30 Copynumber: 5.0 Consensus size: 30
16420747 CGAGGGTAAC
* *
16420757 ATGGTAATTTTTGGTGAAATCGGGGTTAAAA
1 ATGGTAATTTTTGATGAAATTGGGGTT-AAA
* *
16420788 ATGG-GA-TTTTG--GAAAGTTTGGGGGTAAA
1 ATGGTAATTTTTGATGAAA--TTGGGGTTAAA
* * *
16420816 ATGGTAATTTTTGGTGAAATCGGGGATAAAA
1 ATGGTAATTTTTGATGAAATTGGGG-TTAAA
* *
16420847 ATGG-GA-TTTT-A-GAAAGTTTAAGGG-TAAA
1 ATGGTAATTTTTGATGAAA--TT-GGGGTTAAA
16420875 ATGGTAATTTTTGATGAAATTGGGGTTAAA
1 ATGGTAATTTTTGATGAAATTGGGGTTAAA
16420905 A
1 A
16420906 ATGGGATTTT
Statistics
Matches: 89, Mismatches: 14, Indels: 31
0.66 0.10 0.23
Matches are distributed among these distances:
27 8 0.09
28 14 0.16
29 21 0.24
30 26 0.29
31 12 0.13
32 8 0.09
ACGTcount: A:0.34, C:0.01, G:0.30, T:0.34
Consensus pattern (30 bp):
ATGGTAATTTTTGATGAAATTGGGGTTAAA
Found at i:16420915 original size:29 final size:29
Alignment explanation
Indices: 16420765--16420916 Score: 93
Period size: 29 Copynumber: 5.2 Consensus size: 29
16420755 ACATGGTAAT
* *
16420765 TTTTGGTGAAATCGGGGTTAAAAATGGGA
1 TTTTGATGAAATTGGGGTTAAAAATGGGA
* *
16420794 TTTTG--GAAAGTTTGGGGGT-AAAATGGTAA
1 TTTTGATGAAA--TTGGGGTTAAAAATGG-GA
* * *
16420823 TTTTTGGTGAAATCGGGGATAAAAATGGGA
1 -TTTTGATGAAATTGGGGTTAAAAATGGGA
* *
16420853 TTTT-A-GAAAGTTTAAGGG-T-AAAATGGTAA
1 TTTTGATGAAA--TT-GGGGTTAAAAATGG-GA
16420882 TTTTTGATGAAATTGGGGTTAAAAATGGGA
1 -TTTTGATGAAATTGGGGTTAAAAATGGGA
16420912 TTTTG
1 TTTTG
16420917 GAAAGTTCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
27 8 0.08
28 14 0.15
29 27 0.28
30 23 0.24
31 15 0.16
32 8 0.08
ACGTcount: A:0.33, C:0.01, G:0.31, T:0.35
Consensus pattern (29 bp):
TTTTGATGAAATTGGGGTTAAAAATGGGA
Found at i:16422832 original size:34 final size:33
Alignment explanation
Indices: 16422802--16422896 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
16422792 AGATTAAATT
*
16422802 TAAA-TTAAATTCAAACTTAAATTTAAATTAAAAA
1 TAAACTTAAATTCAAA-ATAAATTTAAATT-AAAA
* * *
16422836 TAAATTTAAATTTAAAATAAATTTGAATTTAAAA
1 TAAACTTAAATTCAAAATAAATTT-AAATTAAAA
* *
16422870 TAAACTTAATTTCAAAGTAAATTTAAA
1 TAAACTTAAATTCAAAATAAATTTAAA
16422897 ATGGTTTGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.04
34 35 0.69
35 14 0.27
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
TAAACTTAAATTCAAAATAAATTTAAATTAAAA
Found at i:16422839 original size:17 final size:17
Alignment explanation
Indices: 16422819--16422896 Score: 104
Period size: 17 Copynumber: 4.6 Consensus size: 17
16422809 AATTCAAACT
*
16422819 TAAATTTAAATTAAAAA
1 TAAATTTAAATTTAAAA
16422836 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
16422853 TAAATTTGAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
16422870 TAAACTT-AATTTCAAAG
1 TAAATTTAAATTT-AAAA
16422887 TAAATTTAAA
1 TAAATTTAAA
16422897 ATGGTTTGAG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
16 5 0.09
17 47 0.87
18 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:16422853 original size:7 final size:6
Alignment explanation
Indices: 16422795--16422868 Score: 73
Period size: 6 Copynumber: 12.8 Consensus size: 6
16422785 TAAATGGAGA
* * * *
16422795 TTAAAT TTAAA- TTAAAT TCAAAC TTAAAT TTAAA- TTAAAA ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
16422841 TTAAAT TTAAA- ATAAAT TTGAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
16422869 ATAAACTTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
5 14 0.26
6 40 0.74
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:16422864 original size:23 final size:23
Alignment explanation
Indices: 16422795--16422868 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
16422785 TAAATGGAGA
* *
16422795 TTAAATTTAAATTAAATTCAAAC
1 TTAAATTTAAATTAAATTTAAAT
**
16422818 TTAAATTTAAATTAAAAATAAAT
1 TTAAATTTAAATTAAATTTAAAT
* *
16422841 TTAAATTTAAAATAAATTTGAAT
1 TTAAATTTAAATTAAATTTAAAT
16422864 TTAAA
1 TTAAA
16422869 ATAAACTTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (23 bp):
TTAAATTTAAATTAAATTTAAAT
Found at i:16428730 original size:21 final size:23
Alignment explanation
Indices: 16428706--16428757 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
16428696 AGTGAAAAAT
*
16428706 AAAAGAAATT-AAGAGAAGAA-A
1 AAAAGAAATTAAAGAGAAAAAGA
16428727 AAAAGAAATTGAAAGAGAAAAAGA
1 AAAAGAAATT-AAAGAGAAAAAGA
16428751 AAAAGAA
1 AAAAGAA
16428758 CTTGAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.37
23 9 0.33
24 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (23 bp):
AAAAGAAATTAAAGAGAAAAAGA
Found at i:16428742 original size:18 final size:20
Alignment explanation
Indices: 16428706--16428752 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
16428696 AGTGAAAAAT
16428706 AAAAGAAATTAAGAGAAGAAA
1 AAAAGAAATT-AGAGAAGAAA
*
16428727 AAAAGAAATT-GA-AAGAGA
1 AAAAGAAATTAGAGAAGAAA
16428745 AAAAGAAA
1 AAAAGAAA
16428753 AAGAACTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 13 0.52
19 2 0.08
21 10 0.40
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (20 bp):
AAAAGAAATTAGAGAAGAAA
Found at i:16428771 original size:24 final size:24
Alignment explanation
Indices: 16428706--16428771 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 24
16428696 AGTGAAAAAT
* *
16428706 AAAAGAAATT--AAGAGAAGAA-A
1 AAAAGAAATTGAAAGAAAAAAAGA
*
16428727 AAAAGAAATTGAAAGAGAAAAAGA
1 AAAAGAAATTGAAAGAAAAAAAGA
* * *
16428751 AAAAGAACTTGAGATAAAAAA
1 AAAAGAAATTGAAAGAAAAAA
16428772 GAGAGAAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.27
23 9 0.24
24 18 0.49
ACGTcount: A:0.70, C:0.02, G:0.18, T:0.11
Consensus pattern (24 bp):
AAAAGAAATTGAAAGAAAAAAAGA
Found at i:16438336 original size:60 final size:59
Alignment explanation
Indices: 16438228--16438394 Score: 156
Period size: 60 Copynumber: 2.8 Consensus size: 59
16438218 TTTTTTTCAT
* * * * * * *
16438228 TTTTTTACGCCTTAACTTTTTTCTTAAGTCACCCAAAGAAAGACTTTCAACTTAACAAGGT-
1 TTTTTT-CGCATTAAC-TTTTTCTTAAGCCATCCAATGAAGGATTTTCAACTGAACAA-GTA
* *
16438289 TTCTTTTCGCTTTAACTTTTTCTTAAGCCATCCAATGAAGGATTTTCAACTGAACGAGTA
1 TT-TTTTCGCATTAACTTTTTCTTAAGCCATCCAATGAAGGATTTTCAACTGAACAAGTA
* * * * *
16438349 TTTTCTCTCACTAACTTTTTCTTAAACCTTCCAATGAAGGAATTTT
1 TTTTTTCGCATTAACTTTTTCTTAAGCCATCCAATGAAGG-ATTTT
16438395 AGCTTAATGA
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 34 0.38
60 41 0.46
61 10 0.11
62 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (59 bp):
TTTTTTCGCATTAACTTTTTCTTAAGCCATCCAATGAAGGATTTTCAACTGAACAAGTA
Found at i:16438382 original size:59 final size:56
Alignment explanation
Indices: 16438301--16438430 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 56
16438291 CTTTTCGCTT
*
16438301 TAACTTTTTCTTAAGCCATCCAATGAAGG-ATTTTCAACTGAACGAG-TATTTTCTCTCAC
1 TAACTTTTTCTTAAACCATCCAATGAAGGAATTTT-AACTGAACGAGCT-TTTT-TC-C-C
* * * *
16438360 TAACTTTTTCTTAAACCTTCCAATGAAGGAATTTTAGCTTAATGAGCTTTTTTCCC
1 TAACTTTTTCTTAAACCATCCAATGAAGGAATTTTAACTGAACGAGCTTTTTTCCC
16438416 TAACTTTTTCTTAAA
1 TAACTTTTTCTTAAA
16438431 TCGTCTAACG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
56 16 0.25
57 1 0.02
58 2 0.03
59 39 0.61
60 6 0.09
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (56 bp):
TAACTTTTTCTTAAACCATCCAATGAAGGAATTTTAACTGAACGAGCTTTTTTCCC
Found at i:16441127 original size:22 final size:23
Alignment explanation
Indices: 16441079--16441132 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
16441069 ATGGAGAGAG
* * *
16441079 AGCTTGAAATGTGGAAGAAGCTT
1 AGCTTGAATTATGGAAGAAGATT
16441102 -GCTTGAATTATGGAAGAA-ATT
1 AGCTTGAATTATGGAAGAAGATT
*
16441123 AGCTTTAATT
1 AGCTTGAATT
16441133 GTGAAGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.33
Consensus pattern (23 bp):
AGCTTGAATTATGGAAGAAGATT
Found at i:16473792 original size:21 final size:21
Alignment explanation
Indices: 16473766--16473820 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
16473756 TGTAGACTTT
*
16473766 TACCGATACAAGTGACAGGTC
1 TACCGATACAAGTGACACGTC
* *
16473787 TACCGATACAAGTGACTCTTC
1 TACCGATACAAGTGACACGTC
*
16473808 TACCGAAACAAGT
1 TACCGATACAAGT
16473821 ATTACTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (21 bp):
TACCGATACAAGTGACACGTC
Found at i:16474782 original size:52 final size:52
Alignment explanation
Indices: 16474539--16474781 Score: 290
Period size: 52 Copynumber: 4.7 Consensus size: 52
16474529 ATTCATTTCC
* * ** *
16474539 TTTA-ATACTCACAATGACACATAGTCATCGGACCTCTTGTTCCTTAAAGGA
1 TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGA
* * ** * * * *
16474590 ATCATGCACTCATGATGAGACATAGTCATTGGACCTCATAATCCATAAAGGA
1 TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGA
* *
16474642 TTTATATACTCACGATGACACATAGTCATCGAACCTCATAATCTGTAAAGGA
1 TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGA
* * *
16474694 TTTATATACTCATGATGACACATAGTCATCGGACCTTATAATCCGTAAAGTA
1 TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGA
* * *
16474746 TTTATATACTCACGATGATACAGAGTTATCGGACCT
1 TTTATATACTCACGATGACACATAGTCATCGGACCT
16474782 TTTTCATTTA
Statistics
Matches: 160, Mismatches: 31, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 2 0.01
52 158 0.99
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (52 bp):
TTTATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGA
Found at i:16478652 original size:43 final size:43
Alignment explanation
Indices: 16478602--16478826 Score: 378
Period size: 43 Copynumber: 5.2 Consensus size: 43
16478592 TTATGCGAAA
*
16478602 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
* * * *
16478645 AAGCGCCGCTGAATGCCATGTTCTTCAGCAGCGCTTTCTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
*
16478688 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
16478731 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
* *
16478774 AAGTGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAA
1 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
16478817 AAGCGCCGCT
1 AAGCGCCGCT
16478827 AATATAACAG
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTATCCAC
Found at i:16479152 original size:21 final size:21
Alignment explanation
Indices: 16479139--16479183 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
16479129 GCTTCCTTCG
16479139 CTTGCCTCGCTGCTACCTCGA
1 CTTGCCTCGCTGCTACCTCGA
* *
16479160 CTTGCCTCGCTGCTGCCTCCA
1 CTTGCCTCGCTGCTACCTCGA
16479181 CTT
1 CTT
16479184 TAAGTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.44, G:0.18, T:0.31
Consensus pattern (21 bp):
CTTGCCTCGCTGCTACCTCGA
Found at i:16479304 original size:65 final size:66
Alignment explanation
Indices: 16479175--16479321 Score: 208
Period size: 65 Copynumber: 2.2 Consensus size: 66
16479165 CTCGCTGCTG
* *
16479175 CCTCCACTTTAAGTTGTATGTGGAATTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCATTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAATTCATCATATTTTTTTTGAGACTCTGCTTCTCTCATTGCA
16479240 A
66 A
* * * *
16479241 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATA-TTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAATTCATCATATTTTTTTTGAGACTCTGCTTCTCTCATTGC
*
16479304 AG
65 AA
16479306 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
16479322 AGCAATTTGC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
65 44 0.61
66 28 0.39
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAATTCATCATATTTTTTTTGAGACTCTGCTTCTCTCATTGCA
A
Found at i:16481142 original size:8 final size:8
Alignment explanation
Indices: 16481131--16481232 Score: 59
Period size: 8 Copynumber: 12.2 Consensus size: 8
16481121 TTAATTAAAT
16481131 ATAATTAA
1 ATAATTAA
16481139 ATAATTTAA
1 ATAA-TTAA
*
16481148 TATAATTAT
1 -ATAATTAA
* *
16481157 TTACCTTAA
1 ATA-ATTAA
16481166 TATAATTAA
1 -ATAATTAA
16481175 ATAATTAA
1 ATAATTAA
16481183 ATAATT-A
1 ATAATTAA
16481190 AT--TTAA
1 ATAATTAA
*
16481196 TATACTT-A
1 -ATAATTAA
*
16481204 TTAACTTTAA
1 ATAA--TTAA
16481214 TATAATTAA
1 -ATAATTAA
16481223 ATAATTAA
1 ATAATTAA
16481231 AT
1 AT
16481233 CTTTTAACTT
Statistics
Matches: 73, Mismatches: 9, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 7 0.10
8 31 0.42
9 22 0.30
10 7 0.10
11 3 0.04
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (8 bp):
ATAATTAA
Found at i:16481264 original size:49 final size:49
Alignment explanation
Indices: 16481144--16481863 Score: 732
Period size: 49 Copynumber: 14.2 Consensus size: 49
16481134 ATTAAATAAT
* ** *
16481144 TTAATATAATTATTTACCTTAATATAATTAAATAATTAAAT-AATTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* *
16481192 TTAATATACTTATTAACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* ** *
16481241 TTAATATAA-AAGGATACTTTAATATAATTAAATAATTAAATCTTTCAAC
1 TTAATATAATTA-TTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* *
16481290 TTGATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
16481339 TTAAATATTTAATTAATCGGTAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * * *
16481402 TTAATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * *
16481451 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* *
16481499 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
16481548 TTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
16481597 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * * * *
16481646 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA-CATGATTAAATAAT
1 TT-AATA--TAATT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAATC-T--TT---TAAC
* * * *
16481709 TTAATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
* * * *
16481758 TTAATATACTTATTAACTTTAATATAATTAAATAATTAAAT-ATTTAAT
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
16481806 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
1 TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
16481855 TTAATATAA
1 TTAATATAA
16481864 AAGGATACTT
Statistics
Matches: 569, Mismatches: 66, Indels: 73
0.80 0.09 0.10
Matches are distributed among these distances:
48 130 0.23
49 284 0.50
50 8 0.01
52 14 0.02
53 3 0.01
54 26 0.05
55 10 0.02
56 16 0.03
57 12 0.02
58 30 0.05
59 4 0.01
60 14 0.02
62 8 0.01
63 10 0.02
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (49 bp):
TTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
Found at i:16481470 original size:161 final size:161
Alignment explanation
Indices: 16481258--16481798 Score: 754
Period size: 161 Copynumber: 3.5 Consensus size: 161
16481248 AAAAGGATAC
* * * * *
16481258 TTTAATATAATTAAATAATTAAATCTTTCAACTTGATATAATTAGTTACTTTAATATAATTAAAT
1 TTTAATACAATTAAATAATTAAATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
*
16481323 AATTAAATCTTTTAACTTAAATATTTAATTAATCGGTAGTGTTTATAATTAAATACATAATTAAA
66 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
16481388 CATGATTAAATAATTTAATATAATTATTTAG
131 CATGATTAAATAATTTAATATAATTATTTAG
* *
16481419 TTTAATACAATTAAATAATTATATCTTTTAAATTAATATACTTATTTACTTTAATATAATTAAAT
1 TTTAATACAATTAAATAATTAAATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
* * * * * * * *
16481484 AATTAAAT-ATTTAA-TTTAATA--TACTT-AT--TTACT-TTAAT-A-TAATTAAATAATTAAA
66 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
* *
16481539 TC-T--TT---TAATTTAATATAATTAGTTAC
131 -CATGATTAAATAATTTAATATAATTATTTAG
* *
16481565 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAAT
1 TTTAATACAATTAAATAATTAAATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
16481630 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
66 AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
16481695 CATGATTAAATAATTTAATATAATTATTTAG
131 CATGATTAAATAATTTAATATAATTATTTAG
* * *
16481726 TTTAATACAATTAAATAATTATATCTTTTAAATTAATATACTTATTAACTTTAATATAATTAAAT
1 TTTAATACAATTAAATAATTAAATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
16481791 AATTAAAT
66 AATTAAAT
16481799 ATTTAATTTA
Statistics
Matches: 327, Mismatches: 36, Indels: 34
0.82 0.09 0.09
Matches are distributed among these distances:
146 88 0.27
147 5 0.02
148 6 0.02
149 2 0.01
150 4 0.01
151 17 0.05
152 2 0.01
153 7 0.02
154 7 0.02
155 2 0.01
156 17 0.05
157 4 0.01
158 2 0.01
159 6 0.02
160 5 0.02
161 153 0.47
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (161 bp):
TTTAATACAATTAAATAATTAAATCTTTTAAATTAATATAATTATTTACTTTAATATAATTAAAT
AATTAAATCTTTTAACTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAA
CATGATTAAATAATTTAATATAATTATTTAG
Found at i:16481570 original size:258 final size:252
Alignment explanation
Indices: 16481113--16481863 Score: 853
Period size: 258 Copynumber: 2.9 Consensus size: 252
16481103 ACATTTTAAG
** * **
16481113 TTAAATAGTTAATTAAATATAATTAAATAATTTAATATAATTATTTACCTTAATATAATTAAATA
1 TTAAATAAATAATTAAACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
* ** * *
16481178 ATTAAAT-AATTAATTTAATATACTTATTAACTTTAATATAATTAAATAATTAAATCTTTTAACT
66 ATTATATCTTTTAATTTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAAT
** ** * * *
16481242 TAATATA-AAAGGATACTTTAATATAATTAAATAATTAAATCTTTCAACTTGATATAATTAGTTA
131 TAATATACTTA-TTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATTAGTTA
* *
16481306 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATTTAATTAATCGGTAGTGTTTATAA
195 CTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATA--TAATT-AT--GTACT-TTAAT-A
* * *
16481371 TTAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATACAATTAAATA
1 TTAAATAAATAATTAAACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
* * *
16481436 ATTATATCTTTTAAATTAATATACTTATTTACTTTAATATAATTAAATAATTAAAT-ATTTAATT
66 ATTATATCTTTTAATTTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAAT
16481500 TAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATTAGTTAC
131 TAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATTAGTTAC
*
16481565 TTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAATTATTTACTTTAATA
196 TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATAATTATGTACTTTAATA
* * *
16481621 -TAATTAAATAATTAAATCTTTTAACTTAAAT-ATTTAAT-TAATCGA--TAGTGTT--TATAAT
1 TTAAATAAATAATTAAA-C--ATAA-TTAAATAATTTAATATAAT-TATTTAGT-TTAATATAAT
* * * * *
16481679 TAAATACATAATTAAACATGATTAAATAATTTAATATAATTATTTAGTTTAATACAATTAAATAA
60 TAAATA-ATTA-T-ATC-T--TT---TAATTTAATATACTTATTTACTTTAATATAATTAAATAA
* * *
16481744 TTATATCTTTTAAATTAATATACTTATTAACTTTAATATAATTAAATAATTAAAT-ATTTAATTT
116 TTAAATCTTTTAAATTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTT
* *
16481808 AATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAACTT-AATATAA
181 AATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATAA
16481864 AAGGATACTT
Statistics
Matches: 432, Mismatches: 43, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
249 25 0.06
250 9 0.02
251 11 0.03
252 15 0.03
253 7 0.02
254 2 0.00
255 7 0.02
257 4 0.01
258 262 0.61
259 90 0.21
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (252 bp):
TTAAATAAATAATTAAACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATA
ATTATATCTTTTAATTTAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAAAT
TAATATACTTATTTACTTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATTAGTTAC
TTTAATATAATTAAATAATTAAATCTTTTAACTTAAATATAATTATGTACTTTAATA
Found at i:16481698 original size:307 final size:307
Alignment explanation
Indices: 16481144--16481873 Score: 1336
Period size: 307 Copynumber: 2.4 Consensus size: 307
16481134 ATTAAATAAT
* * * *
16481144 TTAATATAATTATTTACCTTAATATAATTAAATAATTAAATAATTAATTTAATATACTTATTAAC
1 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
16481209 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAAAGGATACTTTAATATAATTAAAT
66 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAAAGGATACTTTAATATAATTAAAT
*
16481274 AATTAAATCTTTCAACTTGATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
131 AATTAAATCTTTCAACTTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
*
16481339 TTAAATATTTAATTAATCGGTAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTT
196 TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTT
16481404 AATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
261 AATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
16481451 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
1 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
* * *
16481516 TTTAATATAATTAAATAATTAAATCTTTTAATTTAATATAATTA-GTTACTTTAATATAATTAAA
66 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAA-AAGGATACTTTAATATAATTAAA
* *
16481580 TAATTAAATCTTTTAACTTAATATAATTATTTACTTTAATATAATTAAATAATTAAATCTTTTAA
130 TAATTAAATCTTTCAACTTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAA
16481645 CTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATT
195 CTTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATT
16481710 TAATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
260 TAATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
*
16481758 TTAATATACTTATTAACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
1 TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
16481823 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAAAGGATACTT
66 TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAAAGGATACTT
16481874 ATTTAAGTTT
Statistics
Matches: 406, Mismatches: 15, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
306 1 0.00
307 404 1.00
308 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (307 bp):
TTAATATACTTATTTACTTTAATATAATTAAATAATTAAATATTTAATTTAATATACTTATTTAC
TTTAATATAATTAAATAATTAAATCTTTTAACTTAATATAAAAGGATACTTTAATATAATTAAAT
AATTAAATCTTTCAACTTAATATAATTAGTTACTTTAATATAATTAAATAATTAAATCTTTTAAC
TTAAATATTTAATTAATCGATAGTGTTTATAATTAAATACATAATTAAACATGATTAAATAATTT
AATATAATTATTTAGTTTAATACAATTAAATAATTATATCTTTTAAA
Found at i:16484322 original size:41 final size:41
Alignment explanation
Indices: 16484211--16484576 Score: 343
Period size: 41 Copynumber: 8.9 Consensus size: 41
16484201 GCTTATTATA
**
16484211 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTATAT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTAGGT
* *
16484252 ATAAGCGTCGCTAAATGATCCT-ACCTTTAGCGGCGCTTTAGGG
1 A-AAGCGCCGCT-AATGA-CCTGACCTTTAGCGGCGCTTTAGGT
* * * *
16484295 AAAGCGCCACTAATGACCTAACCTTTAGCGGCGCTTGAGGG
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTAGGT
*
16484336 AAAGCGCCGCTAATTACCTGACCTTTAGCGGCGCATTT-GAG-
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGC-TTTAG-GT
* * *
16484377 AAAGCGCCACTAATTACCTGACCTTTAGCGGCGCTTGT-GAT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTT-TAGGT
*
16484418 AAAGCGCCGCTAATTACCTGACCTTTAGCGGCGCTTGT-GGTT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTT-TAGG-T
* * *
16484460 ATAGCGCCGCTAATGACCAGACCTTTAGCGGCGCTTT-TGT
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTAGGT
* * * * * * * *
16484500 TAAGCGCCGCTAATG-CTTTACATTTTGCGGCGCATTAAGA
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTAGGT
* * * * *
16484540 AAAACGCCACTAATG-CTTTACCTTTTGCGGCGCTTTA
1 AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTA
16484577 TTTCCAAACG
Statistics
Matches: 281, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.05
40 52 0.19
41 133 0.47
42 54 0.19
43 24 0.09
44 3 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (41 bp):
AAAGCGCCGCTAATGACCTGACCTTTAGCGGCGCTTTAGGT
Found at i:16484387 original size:82 final size:81
Alignment explanation
Indices: 16484154--16484495 Score: 320
Period size: 82 Copynumber: 4.1 Consensus size: 81
16484144 TTTAAATACA
* * * * * *
16484154 TTAGCGGCGCTT-ATGGGAAAGCACCGCTAATT-CAC-ACCTTTAGTGACGCTTATTATAAAAGC
1 TTAGCGGCGCTTGA-GAGAAAGCGCCGCTAATTAC-CTACCTTTAGCGGCGCTTATGA-GAAAGC
* *
16484216 GCCGCTAATGACCTGACCT
63 GCCACTAATGACCTAACCT
* * * * * *
16484235 TTAGCGGCGCTTTATATATAAGCGTCGCTAAATGATCCTACCTTTAGCGGCGCTT-TAGGGAAAG
1 TTAGCGGCGCTTGAGAGA-AAGCGCCGCT-AATTA-CCTACCTTTAGCGGCGCTTAT-GAGAAAG
16484299 CGCCACTAATGACCTAACCT
62 CGCCACTAATGACCTAACCT
*
16484319 TTAGCGGCGCTTGAGGGAAAGCGCCGCTAATTACCTGACCTTTAGCGGCGCATT-TGAGAAAGCG
1 TTAGCGGCGCTTGAGAGAAAGCGCCGCTAATTACCT-ACCTTTAGCGGCGC-TTATGAGAAAGCG
* *
16484383 CCACTAATTACCTGACCT
64 CCACTAATGACCTAACCT
* * * *
16484401 TTAGCGGCGCTTGTGATAAAGCGCCGCTAATTACCTGACCTTTAGCGGCGCTTGTG-GTTATAGC
1 TTAGCGGCGCTTGAGAGAAAGCGCCGCTAATTACCT-ACCTTTAGCGGCGCTTATGAG--AAAGC
*
16484465 GCCGCTAATGACC-AGACCT
63 GCCACTAATGACCTA-ACCT
16484484 TTAGCGGCGCTT
1 TTAGCGGCGCTT
16484496 TTGTTAAGCG
Statistics
Matches: 219, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
81 19 0.09
82 101 0.46
83 46 0.21
84 38 0.17
85 15 0.07
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
TTAGCGGCGCTTGAGAGAAAGCGCCGCTAATTACCTACCTTTAGCGGCGCTTATGAGAAAGCGCC
ACTAATGACCTAACCT
Found at i:16484475 original size:165 final size:164
Alignment explanation
Indices: 16484154--16484495 Score: 407
Period size: 165 Copynumber: 2.1 Consensus size: 164
16484144 TTTAAATACA
*
16484154 TTAGCGGCGCTTATGGGAAAGCACCGCTAATTCACACCTTTAGTGACGCTTATTATAAAAGCGCC
1 TTAGCGGCGCTTATGGGAAAGCACCGCTAATTCACACCTTTAGCGACGC-TATTATAAAAGCGCC
* * *
16484219 GCTAATGACCTGACCTTTAGCGGCGCTTTATATATAAGCGTCGCTAAATGATCCTACCTTTAGCG
65 ACTAATGACCTGACCTTTAGCGGCGCTTTAGATATAAGCGCCGCTAAATGATCCTACCTTTAGCG
16484284 GCGCTTTAGGGAAAGCGCCACTAATGACCTA-ACCT
130 GCGCTTTAGGGAAAGCGCCACTAATGACC-AGACCT
* *
16484319 TTAGCGGCGCTTGA-GGGAAAGCGCCGCTAATT-ACCTGACCTTTAGCGGCGC-ATT-TGAGAAA
1 TTAGCGGCGCTT-ATGGGAAAGCACCGCTAATTCA-C--ACCTTTAGCGACGCTATTAT-A-AAA
* *
16484380 GCGCCACTAATTACCTGACCTTTAGCGGCGCTTGT-GATA-AAGCGCCGCT-AATTA-CCTGACC
60 GCGCCACTAATGACCTGACCTTTAGCGGCGCTT-TAGATATAAGCGCCGCTAAATGATCCT-ACC
* * *
16484441 TTTAGCGGCGCTTGT-GGTTATAGCGCCGCTAATGACCAGACCT
123 TTTAGCGGCGCTT-TAGG-GAAAGCGCCACTAATGACCAGACCT
16484484 TTAGCGGCGCTT
1 TTAGCGGCGCTT
16484496 TTGTTAAGCG
Statistics
Matches: 155, Mismatches: 11, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
163 3 0.02
164 25 0.16
165 76 0.49
166 38 0.25
167 13 0.08
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (164 bp):
TTAGCGGCGCTTATGGGAAAGCACCGCTAATTCACACCTTTAGCGACGCTATTATAAAAGCGCCA
CTAATGACCTGACCTTTAGCGGCGCTTTAGATATAAGCGCCGCTAAATGATCCTACCTTTAGCGG
CGCTTTAGGGAAAGCGCCACTAATGACCAGACCT
Found at i:16487957 original size:29 final size:31
Alignment explanation
Indices: 16487916--16487977 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
16487906 AGACTATATC
*
16487916 TTTATAATTTTTAA-AAGATTAAATCAAATT
1 TTTATAATTTTTAAGAAGATAAAATCAAATT
* *
16487946 TTTAT-ATTTTTAAGAATATAAAATTAAATT
1 TTTATAATTTTTAAGAAGATAAAATCAAATT
16487976 TT
1 TT
16487978 ACTTTTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTATAATTTTTAAGAAGATAAAATCAAATT
Done.