Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 34 of 214
Found at i:9399765 original size:19 final size:19
Alignment explanation
Indices: 9399741--9399796 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
9399731 AATCTTCAAG
9399741 GATATATAATCTTAGATAT
1 GATATATAATCTTAGATAT
9399760 GATATATGCAATCTTAGATAT
1 GATATAT--AATCTTAGATAT
**
9399781 GATATGCAATCTTAGA
1 GATATATAATCTTAGA
9399797 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATATAATCTTAGATAT
Found at i:9399772 original size:21 final size:21
Alignment explanation
Indices: 9399741--9399796 Score: 84
Period size: 19 Copynumber: 2.9 Consensus size: 21
9399731 AATCTTCAAG
9399741 GATATAT--AATCTTAGATAT
1 GATATATGCAATCTTAGATAT
9399760 GATATATGCAATCTTAGATAT
1 GATATATGCAATCTTAGATAT
9399781 G--ATATGCAATCTTAGA
1 GATATATGCAATCTTAGA
9399797 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 22 0.63
21 13 0.37
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
GATATATGCAATCTTAGATAT
Found at i:9399818 original size:23 final size:22
Alignment explanation
Indices: 9399754--9399819 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
9399744 ATATAATCTT
9399754 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
9399775 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
9399797 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
9399820 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:9402556 original size:18 final size:18
Alignment explanation
Indices: 9402525--9402572 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
9402515 CATAATATCA
9402525 ATTTTTAATGAAATAATAAT
1 ATTTTTAA--AAATAATAAT
*
9402545 ATTTTTAAAAATAATTAT
1 ATTTTTAAAAATAATAAT
*
9402563 A-CTTTAAAAA
1 ATTTTTAAAAA
9402573 AACTAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
20 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTTTAAAAATAATAAT
Found at i:9405520 original size:37 final size:37
Alignment explanation
Indices: 9405470--9405542 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
9405460 AAAAACAAAT
9405470 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
*
9405507 GTTGAAGGGTAAAATACTCTCAAAATAATATAATTT
1 GTTGAAGGGTAAAATACTCTAAAAATAATATAATTT
9405543 ACTTTATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (37 bp):
GTTGAAGGGTAAAATACTCTAAAAATAATATAATTTG
Found at i:9412011 original size:41 final size:41
Alignment explanation
Indices: 9411931--9412060 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 41
9411921 GCACATATCT
* * * *
9411931 TGAAATGATACACTGGCATAAAAGCCTGCTAGGCTTAAAGCC
1 TGAAATAATACACCGGCAT-AAAGCCTGCTAGACATAAAGCC
** *
9411973 TGATTTAATACACCGGCATAAAGCCTGCTAGACATAAAGTC
1 TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
* * * *
9412014 TGAAATATTTCACCGGCATCAAGCCTGCTAGGCACATAGAGCC
1 TGAAATAATACACCGGCATAAAGCCTGCTA-G-ACATAAAGCC
9412057 TGAA
1 TGAA
9412061 TATCTTGGAT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
41 44 0.61
42 16 0.22
43 12 0.17
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
TGAAATAATACACCGGCATAAAGCCTGCTAGACATAAAGCC
Found at i:9414369 original size:37 final size:37
Alignment explanation
Indices: 9414318--9414417 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 37
9414308 TCGGTTGGAC
**
9414318 TAGCTCTTCGGAGCAATTGGCGTGTTATCAGGTAGAT
1 TAGCTCTTATGAGCAATTGGCGTGTTATCAGGTAGAT
* * ** *
9414355 TGGCTCTTATGAGC-ATCTAGCGTGTTATTGGGTGGAT
1 TAGCTCTTATGAGCAAT-TGGCGTGTTATCAGGTAGAT
* *
9414392 TAGCTCTTATGAGCATTTGACGTGTT
1 TAGCTCTTATGAGCAATTGGCGTGTT
9414418 TTCGGTTGGA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
36 2 0.04
37 47 0.94
38 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (37 bp):
TAGCTCTTATGAGCAATTGGCGTGTTATCAGGTAGAT
Found at i:9419725 original size:21 final size:21
Alignment explanation
Indices: 9419659--9419741 Score: 103
Period size: 22 Copynumber: 3.9 Consensus size: 21
9419649 CAAGTAAATG
* *
9419659 GAGAACACCAAGGTGCTATACA
1 GAGAACACAAACGTGCTA-ACA
9419681 GAGAACACAAACGTGCTAAACA
1 GAGAACACAAACGTGCT-AACA
*
9419703 GAGAACAAAAACGTGCTAACA
1 GAGAACACAAACGTGCTAACA
* *
9419724 GAGAGCACAAACATGCTA
1 GAGAACACAAACGTGCTA
9419742 GAAAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
21 19 0.35
22 34 0.63
23 1 0.02
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (21 bp):
GAGAACACAAACGTGCTAACA
Found at i:9423003 original size:43 final size:42
Alignment explanation
Indices: 9422955--9423051 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
9422945 TAAGATTTGT
* *
9422955 ATGTTAAGTATGTCAACTGTAT-TTAATTATAAATCTGATTCGC
1 ATGTTAAGCATGTCAAC--TATGCTAATTATAAATCTGATTCGC
* *
9422998 ATGTTAAGCATGTCAACTATGCTGATTATAAATTTGATTCGC
1 ATGTTAAGCATGTCAACTATGCTAATTATAAATCTGATTCGC
*
9423040 ATGTTCAGCATG
1 ATGTTAAGCATG
9423052 CCACTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.06
42 29 0.60
43 16 0.33
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (42 bp):
ATGTTAAGCATGTCAACTATGCTAATTATAAATCTGATTCGC
Found at i:9423175 original size:24 final size:24
Alignment explanation
Indices: 9423139--9423232 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
9423129 TTTTATTACA
* *
9423139 TTATTGAATGGCTTGGCCACAACT
1 TTATTGAGTGGCTTGACCACAACT
*
9423163 TTATTGAGCGGCTTGACCACAA-T
1 TTATTGAGTGGCTTGACCACAACT
* * * *
9423186 GCTATTGAGTGGCTTGTCTACAACA
1 -TTATTGAGTGGCTTGACCACAACT
9423211 TTATTGAGTGGCTTGACCACAA
1 TTATTGAGTGGCTTGACCACAA
9423233 TGATGCAGCT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 1 0.02
24 56 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (24 bp):
TTATTGAGTGGCTTGACCACAACT
Found at i:9423215 original size:48 final size:48
Alignment explanation
Indices: 9423140--9423234 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
9423130 TTTATTACAT
*
9423140 TATTGAATGGCTTGGCCACAACTTTATTGAGCGGCTTGACCACAATGC
1 TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATGC
* * * *
9423188 TATTGAGTGGCTTGTCTACAACATTATTGAGTGGCTTGACCACAATG
1 TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATG
9423235 ATGCAGCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (48 bp):
TATTGAATGGCTTGGCCACAACATTATTGAGCGGCTTGACCACAATGC
Found at i:9423279 original size:64 final size:64
Alignment explanation
Indices: 9423188--9423339 Score: 205
Period size: 64 Copynumber: 2.4 Consensus size: 64
9423178 ACCACAATGC
* * ** *
9423188 TATTGAGTGGCTTGTCTACAACATTATTGAGTGGCTTGACCACAATGATGCAGCTTGACTACGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
* * **
9423252 TATTGAGTGGCTTGGCCACAACGTTATTGAGTAACTTGACCACAACGATGTAGCTTGACTGTGA
1 TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
* *
9423316 TATTAAGTGGCTTGGCCATAACAT
1 TATTGAGTGGCTTGGCCACAACAT
9423340 GGTGTGTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
TATTGAGTGGCTTGGCCACAACATTATTGAGTAACTTGACCACAACGATGCAGCTTGACTACGA
Found at i:9423280 original size:24 final size:24
Alignment explanation
Indices: 9423252--9423298 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
9423242 TTGACTACGA
** *
9423252 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTAACTTGACCACAACGT
9423276 TATTGAGTAACTTGACCACAACG
1 TATTGAGTAACTTGACCACAACG
9423299 ATGTAGCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
TATTGAGTAACTTGACCACAACGT
Found at i:9425119 original size:28 final size:27
Alignment explanation
Indices: 9425070--9425131 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
9425060 ACGCATACTG
9425070 TATAAAAGAATGCCTATATATATATAT
1 TATAAAAGAATGCCTATATATATATAT
* * * *
9425097 TATAAAAGCCATGCGTATGTATATGTAT
1 TATAAAAG-AATGCCTATATATATATAT
*
9425125 CATAAAA
1 TATAAAA
9425132 AAACAATGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TATAAAAGAATGCCTATATATATATAT
Found at i:9425404 original size:4 final size:4
Alignment explanation
Indices: 9425395--9425421 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9425385 GCGGATTTCA
9425395 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
9425422 AAGGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9427157 original size:44 final size:44
Alignment explanation
Indices: 9427048--9427354 Score: 226
Period size: 44 Copynumber: 6.9 Consensus size: 44
9427038 GGACCTACTA
* * *** *
9427048 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCT-ATTT
1 TCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGA-TT
* * *
9427092 TCTTCGA-CTTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATC-TACTTC-CCACCAGTATGGGAAGACAAGATCTGATT
* * * *
9427136 TCTTTAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGATA
1 TCTTTGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGATT
* * * *** * *
9427181 TCTTTGATCTACATCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGATT
* * *
9427225 TCTTTGACCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTGATT
* * * *** *
9427269 TCTTTGATCTACTTCACGCCGGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGATT
* * *
9427313 TCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAATATCTG
1 TCTTTGATCTACTTC-CCACCAGTATGGGAAGACAAGATCTG
9427355 CTTTTTCCGA
Statistics
Matches: 198, Mismatches: 57, Indels: 15
0.73 0.21 0.06
Matches are distributed among these distances:
43 20 0.10
44 109 0.55
45 69 0.35
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTTTGATCTACTTCCCACCAGTATGGGAAGACAAGATCTGATT
Found at i:9427214 original size:88 final size:88
Alignment explanation
Indices: 9427122--9427422 Score: 336
Period size: 88 Copynumber: 3.3 Consensus size: 88
9427112 CAGTATGGGG
*
9427122 AGACAAGATCTG-TTTCTTTAATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGATATCTTT
1 AGACAAGATCTGCTTTCTTTAACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG-TATCTTT
*
9427186 GATCTACATCACGCCAGTACATGA
65 GATCTACTTCACGCCAGTACATGA
* * * * * * * * *
9427210 AGACACGATCTGTTTTCTTTGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTG
1 AGACAAGATCTGCTTTCTTTAACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATCTTTG
*
9427275 ATCTACTTCACGCCGGTACATGA
66 ATCTACTTCACGCCAGTACATGA
* * *
9427298 AGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAATATCTGCTTTTTCC
1 AGACAAGATCTGCTTTCTTTAACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG-----T--
*
9427363 GATCTCTGATCTACTTCACGCCAGTACATGA
59 -ATCTTTGATCTACTTCACGCCAGTACATGA
*
9427394 AGACAAAATCTG-TTATCTTTCAACCTGCT
1 AGACAAGATCTGCTT-TCTTT-AACCTGCT
9427423 CCACCGCTGC
Statistics
Matches: 176, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
88 87 0.49
89 37 0.21
93 1 0.01
95 2 0.01
96 43 0.24
97 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (88 bp):
AGACAAGATCTGCTTTCTTTAACCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATCTTTG
ATCTACTTCACGCCAGTACATGA
Found at i:9427337 original size:133 final size:133
Alignment explanation
Indices: 9427029--9427327 Score: 413
Period size: 133 Copynumber: 2.3 Consensus size: 133
9427019 CTACCAATAT
* *
9427029 AGGAAGACAGGACCT-ACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTT
1 AGGAAGACAAGATCTGA-TATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTT
* * *
9427093 CTTCGACTTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTAATCTGCTTCGCCACCA
65 CTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTAATCTACTTCGACACCA
*
9427158 GTAT
130 GTAC
* * * *
9427162 GGGAAGGCAAGATCTGATATCTTTGATCTACATCACGCCAGTACATGAAGACACGATCTGTTTTC
1 AGGAAGACAAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTTC
* * * *
9427227 TTTGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTC-ACGCCGG
66 TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTAATCTACTTCGACACCAG
9427291 TAC
131 TAC
* * * *
9427294 ATGAAGACAAGATCTGCTTTCTTTGATCTGCTTC
1 AGGAAGACAAGATCTGATATCTTTGATCTACTTC
9427328 GCCACCAGTA
Statistics
Matches: 144, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
132 33 0.23
133 110 0.76
134 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (133 bp):
AGGAAGACAAGATCTGATATCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTATTTTC
TTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTAATCTACTTCGACACCAG
TAC
Found at i:9437614 original size:16 final size:16
Alignment explanation
Indices: 9437589--9437619 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9437579 TTTAGGATGA
*
9437589 AATGTTATGCAATCAT
1 AATGTCATGCAATCAT
9437605 AATGTCATGCAATCA
1 AATGTCATGCAATCA
9437620 AAACAAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (16 bp):
AATGTCATGCAATCAT
Found at i:9439250 original size:28 final size:27
Alignment explanation
Indices: 9439201--9439262 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
9439191 ACGCATACTG
9439201 TATAAAAGAATGCCTATATATATATAT
1 TATAAAAGAATGCCTATATATATATAT
* * * *
9439228 TATAAAAGCCATGCGTATGTATATGTAT
1 TATAAAAG-AATGCCTATATATATATAT
*
9439256 CATAAAA
1 TATAAAA
9439263 AAACAATGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (27 bp):
TATAAAAGAATGCCTATATATATATAT
Found at i:9439532 original size:4 final size:4
Alignment explanation
Indices: 9439523--9439549 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9439513 GCGGATTTCA
9439523 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
9439550 AAGGAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9441545 original size:56 final size:56
Alignment explanation
Indices: 9441483--9441590 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
9441473 AACTAACTCT
* *
9441483 TATATATCAGGAGTACATCAAAATAGAAAACAAGAGCAAAGAAATTTGAAATCTCC
1 TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAATCTCC
* * *
9441539 TATATATTAGGAGTATACCAAAATAGAAAACAAAAGTAAAGAAATTTGAAAT
1 TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAAT
9441591 ACAAACAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.23
Consensus pattern (56 bp):
TATATATCAGGAGTACACCAAAATAGAAAACAAAAGCAAAGAAATTTGAAATCTCC
Found at i:9441895 original size:25 final size:25
Alignment explanation
Indices: 9441861--9441917 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 25
9441851 AAACGTAAAT
9441861 TATTAATTAGAGTTCTTTATATAGA
1 TATTAATTAGAGTTCTTTATATAGA
9441886 TATTAATTAGAGTTCTTTATATAGA
1 TATTAATTAGAGTTCTTTATATAGA
9441911 TAATTAA
1 T-ATTAA
9441918 ACTGCTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.47
Consensus pattern (25 bp):
TATTAATTAGAGTTCTTTATATAGA
Found at i:9442148 original size:7 final size:7
Alignment explanation
Indices: 9442136--9442170 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
9442126 TTATCATAAT
9442136 TATTATA
1 TATTATA
9442143 TATTATA
1 TATTATA
9442150 TATTATA
1 TATTATA
9442157 TATTAT-
1 TATTATA
9442163 TATTATA
1 TATTATA
9442170 T
1 T
9442171 TAGTTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:9446433 original size:16 final size:16
Alignment explanation
Indices: 9446412--9446444 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9446402 ACAAAGTGGT
9446412 AAAGCAAAAGAGGCAG
1 AAAGCAAAAGAGGCAG
9446428 AAAGCAAAAGAGGCAG
1 AAAGCAAAAGAGGCAG
9446444 A
1 A
9446445 GCAAAGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAGAGGCAG
Found at i:9454210 original size:12 final size:12
Alignment explanation
Indices: 9454193--9454223 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9454183 ATATCACATA
9454193 CAAATTCAGATT
1 CAAATTCAGATT
*
9454205 CAAATTTAGATT
1 CAAATTCAGATT
9454217 CAAATTC
1 CAAATTC
9454224 GAACTTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (12 bp):
CAAATTCAGATT
Found at i:9457919 original size:31 final size:31
Alignment explanation
Indices: 9457881--9457962 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
9457871 CATGTTTACA
* *
9457881 CTTTCATTTTGGTCACCCAACTTCTAGATCT
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
*
9457912 CTTTCATTTTGGTCACCCAACTTCAAGGTCG
1 CTTTCATTTTGGTCACCCAACTTCAAGATCG
* *
9457943 CTTTCATTTTAGCCACCCAA
1 CTTTCATTTTGGTCACCCAA
9457963 AAAACTATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.38
Consensus pattern (31 bp):
CTTTCATTTTGGTCACCCAACTTCAAGATCG
Found at i:9460105 original size:28 final size:28
Alignment explanation
Indices: 9460073--9460158 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
9460063 CAAACTCTGA
*
9460073 ACTTTGGGCCTTGAACACTAAACCTTAG
1 ACTTTGGACCTTGAACACTAAACCTTAG
** *
9460101 ACTTTGGACCTTGAACTTTAAAACTTAG
1 ACTTTGGACCTTGAACACTAAACCTTAG
*
9460129 ACTTTGAACCTTGAA-ATCTAAACCTTAG
1 ACTTTGGACCTTGAACA-CTAAACCTTAG
9460157 AC
1 AC
9460159 CTTAAACCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (28 bp):
ACTTTGGACCTTGAACACTAAACCTTAG
Found at i:9460111 original size:14 final size:14
Alignment explanation
Indices: 9460093--9460140 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
9460083 TTGAACACTA
9460093 AACCTTAGACTTTG
1 AACCTTAGACTTTG
* *
9460107 GACCTT-GAACTTTA
1 AACCTTAG-ACTTTG
*
9460121 AAACTTAGACTTTG
1 AACCTTAGACTTTG
9460135 AACCTT
1 AACCTT
9460141 GAAATCTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.35
Consensus pattern (14 bp):
AACCTTAGACTTTG
Found at i:9460192 original size:21 final size:21
Alignment explanation
Indices: 9460149--9460194 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9460139 TTGAAATCTA
*
9460149 AACCTTAGACCTTAAACCCTG
1 AACCTTAGACCTTAAACCATG
**
9460170 AACCTTAGACCTTGGACCATG
1 AACCTTAGACCTTAAACCATG
9460191 AACC
1 AACC
9460195 CAAGGTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.22
Consensus pattern (21 bp):
AACCTTAGACCTTAAACCATG
Found at i:9464070 original size:15 final size:15
Alignment explanation
Indices: 9464046--9464082 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9464036 ATTTAATACT
9464046 TTTATAAAAATTTTA
1 TTTATAAAAATTTTA
*
9464061 TTTATTAAAATTTTA
1 TTTATAAAAATTTTA
*
9464076 TATATAA
1 TTTATAA
9464083 CCATCTTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATAAAAATTTTA
Found at i:9465292 original size:19 final size:20
Alignment explanation
Indices: 9465268--9465306 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
9465258 TTTATTTATT
9465268 ATATAAATTC-ATTTATAAA
1 ATATAAATTCTATTTATAAA
9465287 ATATAAATTCTTATTTATAA
1 ATATAAATTC-TATTTATAA
9465307 GTATGATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATAAATTCTATTTATAAA
Found at i:9467495 original size:18 final size:16
Alignment explanation
Indices: 9467476--9467523 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
9467466 TCAAATAACA
9467476 AAACTCCTAAAAATAGC
1 AAACT-CTAAAAATAGC
9467493 AAACAT-TAAAAATAGC
1 AAAC-TCTAAAAATAGC
*
9467509 AAACACTAAAAATAG
1 AAACTCTAAAAATAG
9467524 TAGTCCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 23 0.82
17 4 0.14
18 1 0.04
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
AAACTCTAAAAATAGC
Found at i:9467504 original size:16 final size:16
Alignment explanation
Indices: 9467482--9467523 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
9467472 AACAAAACTC
9467482 CTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
*
9467498 TTAAAAATAGCAAACA
1 CTAAAAATAGCAAACA
9467514 CTAAAAATAG
1 CTAAAAATAG
9467524 TAGTCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.14, G:0.07, T:0.17
Consensus pattern (16 bp):
CTAAAAATAGCAAACA
Found at i:9471844 original size:17 final size:18
Alignment explanation
Indices: 9471819--9471868 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
9471809 ACTCAAACCT
*
9471819 AAAAGTGATTTGAACTC-
1 AAAATTGATTTGAACTCG
*
9471836 AAAATTGATATGAA-TCG
1 AAAATTGATTTGAACTCG
*
9471853 AAAATTGATTCGAACT
1 AAAATTGATTTGAACT
9471869 AAGAATGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.89
18 1 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (18 bp):
AAAATTGATTTGAACTCG
Found at i:9475164 original size:16 final size:18
Alignment explanation
Indices: 9475138--9475171 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9475128 TTAAATTAAC
9475138 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
9475155 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
9475172 CCAATTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:9483173 original size:25 final size:25
Alignment explanation
Indices: 9483122--9483174 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
9483112 GTTGGTTTCA
**
9483122 CTTTAAAAACAACATTTATTGCTAG
1 CTTTAAAAACAACATTTATTGAAAG
9483147 CTTTAAAAACAACATTTATTGAAAG
1 CTTTAAAAACAACATTTATTGAAAG
9483172 CTT
1 CTT
9483175 CTACTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.36
Consensus pattern (25 bp):
CTTTAAAAACAACATTTATTGAAAG
Found at i:9487964 original size:23 final size:23
Alignment explanation
Indices: 9487936--9487981 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9487926 TGGTTTACAA
9487936 TTTTGTGTCATGCTTCTTAACAT
1 TTTTGTGTCATGCTTCTTAACAT
*
9487959 TTTTGTGTCATGCTTCTTTACAT
1 TTTTGTGTCATGCTTCTTAACAT
9487982 GGGGAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.54
Consensus pattern (23 bp):
TTTTGTGTCATGCTTCTTAACAT
Found at i:9489896 original size:59 final size:59
Alignment explanation
Indices: 9489763--9489936 Score: 198
Period size: 59 Copynumber: 3.0 Consensus size: 59
9489753 AAGTAGGTTA
* * *
9489763 TATATTATGATTTTTATT-AATTCATATTTTAAAAATAATTATATTAAGAATGTTAATAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAGAATATTAATAAAT
* *
9489824 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTAATAAAT
* *
9489881 TATATCATTATTTTTATTAAATTATTTTTAGTAATAATCT-TATTAA-AAT-TTAATAA
1 TATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAGAATATTAATAA
9489937 CAATAACAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
57 16 0.16
58 28 0.28
59 43 0.43
60 9 0.09
61 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAGAATATTAATAAAT
Found at i:9490118 original size:16 final size:16
Alignment explanation
Indices: 9490097--9490147 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
9490087 TGAATTACTG
9490097 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
9490113 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
*
9490129 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
9490145 ATT
1 ATT
9490148 CACCCCAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:9492255 original size:21 final size:22
Alignment explanation
Indices: 9492226--9492266 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9492216 AAGCCAAACG
9492226 AAAACAGAAAG-GAAAGAAAAA
1 AAAACAGAAAGAGAAAGAAAAA
*
9492247 AAAAGAGAAAGAGAAAGAAA
1 AAAACAGAAAGAGAAAGAAA
9492267 GACGCAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAACAGAAAGAGAAAGAAAAA
Found at i:9493663 original size:17 final size:18
Alignment explanation
Indices: 9493631--9493664 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9493621 AAATGTGATT
9493631 TTAAATATTCAATTGTGC
1 TTAAATATTCAATTGTGC
*
9493649 TTAAA-ATTTAATTGTG
1 TTAAATATTCAATTGTG
9493665 TCTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (18 bp):
TTAAATATTCAATTGTGC
Found at i:9499039 original size:21 final size:22
Alignment explanation
Indices: 9499015--9499059 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9499005 AGTTAACTTA
9499015 AAAAT-TTATATATATCA-AATT
1 AAAATCTTAT-TATATCATAATT
*
9499036 AAAATCTTATTATATTATAATT
1 AAAATCTTATTATATCATAATT
9499058 AA
1 AA
9499060 TTACATGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATCTTATTATATCATAATT
Found at i:9500052 original size:48 final size:48
Alignment explanation
Indices: 9499997--9500120 Score: 176
Period size: 48 Copynumber: 2.6 Consensus size: 48
9499987 TGGCATCCCC
* * *
9499997 CACCTCCACCAGACCCCTTTGCACCCCCACCACCTGGACCTCCGGCAA
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
* * * *
9500045 CACCTCCACCAGACCCCTTTGCTCCACCACCGCCAGGGCATCCGGCAC
1 CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
*
9500093 CACCTCCACCAGACCCCTTCGCACCACC
1 CACCTCCACCAGACCCCTTTGCACCACC
9500121 TATGTTTGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.20, C:0.55, G:0.13, T:0.12
Consensus pattern (48 bp):
CACCTCCACCAGACCCCTTTGCACCACCACCACCAGGACATCCGGCAA
Found at i:9500072 original size:24 final size:24
Alignment explanation
Indices: 9499996--9500121 Score: 80
Period size: 24 Copynumber: 5.2 Consensus size: 24
9499986 CTGGCATCCC
9499996 CCACCTCCACCAGACCCCTTTGCA
1 CCACCTCCACCAGACCCCTTTGCA
* * * *
9500020 CCCCCACCACCTGGACCTCC--GGCA
1 CCACCTCCACC-AGACC-CCTTTGCA
* *
9500044 ACACCTCCACCAGACCCCTTTGCT
1 CCACCTCCACCAGACCCCTTTGCA
* * * * *
9500068 CCACCACCGCCAGGGCATCC--GGCA
1 CCACCTCCACCA-GAC-CCCTTTGCA
*
9500092 CCACCTCCACCAGACCCCTTCGCA
1 CCACCTCCACCAGACCCCTTTGCA
9500116 CCACCT
1 CCACCT
9500122 ATGTTTGGGC
Statistics
Matches: 72, Mismatches: 22, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
22 4 0.06
23 6 0.08
24 52 0.72
25 6 0.08
26 4 0.06
ACGTcount: A:0.20, C:0.55, G:0.13, T:0.13
Consensus pattern (24 bp):
CCACCTCCACCAGACCCCTTTGCA
Found at i:9508253 original size:31 final size:33
Alignment explanation
Indices: 9508171--9508253 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 33
9508161 GGATATTACA
* *
9508171 TTTACTATCCCAGCGGACTATCTCTATTTTGTG
1 TTTACTATCCCAACGGACTATCTCTATTCTGTG
* * *
9508204 TTTAGTGTCCCAACGGACTATCTC-A-TCTGTT
1 TTTACTATCCCAACGGACTATCTCTATTCTGTG
*
9508235 TTTACTATCCCAATGGACT
1 TTTACTATCCCAACGGACT
9508254 GTCTTTGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 20 0.48
32 1 0.02
33 21 0.50
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.40
Consensus pattern (33 bp):
TTTACTATCCCAACGGACTATCTCTATTCTGTG
Found at i:9512629 original size:29 final size:30
Alignment explanation
Indices: 9512585--9512642 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
9512575 TCCTTTTGCA
*
9512585 CCACCACCACCCCCTTA-TATGGTGCACCC
1 CCACCACCACCCCCTTACTATGCTGCACCC
* *
9512614 CCACCACCTCCGCCTTACTATGCTGCACC
1 CCACCACCACCCCCTTACTATGCTGCACC
9512643 TCCTCCTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.19, C:0.52, G:0.10, T:0.19
Consensus pattern (30 bp):
CCACCACCACCCCCTTACTATGCTGCACCC
Found at i:9517082 original size:16 final size:16
Alignment explanation
Indices: 9517061--9517095 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9517051 GGGAGTGGGC
9517061 ATTCTTTTGGCACTTG
1 ATTCTTTTGGCACTTG
9517077 ATTCTTTTGGCACTTG
1 ATTCTTTTGGCACTTG
9517093 ATT
1 ATT
9517096 GCTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.17, G:0.17, T:0.51
Consensus pattern (16 bp):
ATTCTTTTGGCACTTG
Found at i:9519443 original size:21 final size:21
Alignment explanation
Indices: 9519406--9519512 Score: 112
Period size: 21 Copynumber: 5.2 Consensus size: 21
9519396 ATGAGCCAAT
*
9519406 AGAAGCTC-TAA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTAAAC
* *
9519425 AGAAGCTCGTAAGAGCTGAGC
1 AGAAGCTCGTAAGAGCTAAAC
* * * *
9519446 AAAAACTCAT-AGAAGTTAAAC
1 AGAAGCTCGTAAG-AGCTAAAC
9519467 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
*
9519488 AGAAGCTCGAAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTAAAC
9519509 AGAA
1 AGAA
9519513 AGTAAAACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.11
20 5 0.07
21 57 0.79
22 2 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTAAAC
Found at i:9525948 original size:15 final size:15
Alignment explanation
Indices: 9525908--9525950 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9525898 ACTAAACAAA
9525908 AAAAT-ATAATAAAT
1 AAAATCATAATAAAT
*
9525922 AAAATCAAAATAAAT
1 AAAATCATAATAAAT
9525937 AAAAGTC-TAATAAA
1 AAAA-TCATAATAAA
9525951 CAGTCCAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 18 0.72
16 2 0.08
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATCATAATAAAT
Found at i:9527168 original size:30 final size:30
Alignment explanation
Indices: 9527134--9527241 Score: 85
Period size: 32 Copynumber: 3.5 Consensus size: 30
9527124 TTAACTTTTG
9527134 ATTTAGTCCTTATTTATTTATTTTATTAAA
1 ATTTAGTCCTTATTTATTTATTTTATTAAA
* * **
9527164 ATTTAGCCCCTTTTATTATTTATTTTATTCCA
1 ATTTAG-TCCTTAT-TTATTTATTTTATTAAA
* * **
9527196 ATTTA-TCCTT-TTAATTTCATTTAAGTTATG
1 ATTTAGTCCTTATTTATTT-ATTTTA-TTAAA
9527226 ATTTAGTCCTTTATTT
1 ATTTAGTCC-TTATTT
9527242 TTCACCCTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
28 5 0.08
29 6 0.10
30 17 0.28
31 8 0.13
32 22 0.37
33 2 0.03
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.58
Consensus pattern (30 bp):
ATTTAGTCCTTATTTATTTATTTTATTAAA
Found at i:9527313 original size:41 final size:42
Alignment explanation
Indices: 9527266--9527357 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
9527256 AACTATTTCC
* * *
9527266 TTTTATTTTTTTATTTACATATTTATTTATTATTCCTTTA-A
1 TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
** * * *
9527307 TTTTATTCATTTACTTGCTTATTTATATATTATTCATTTATT
1 TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
9527349 TTTTATTTT
1 TTTTATTTT
9527358 AATTCCTTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
41 33 0.82
42 7 0.17
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (42 bp):
TTTTATTTTTTTACTTACATATTTATATATTATTCATTTATA
Found at i:9527580 original size:3 final size:3
Alignment explanation
Indices: 9527572--9527609 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
9527562 ATTTGCACAT
*
9527572 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9527610 TACCTTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9528692 original size:72 final size:72
Alignment explanation
Indices: 9528575--9528715 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
9528565 CAAACTCAGG
9528575 TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
1 TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
9528640 TCTTAGA
66 TCTTAGA
9528647 TATTAAATTATCAAAAT-TTTATTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATA
1 TATTAAATTATCAAAATATTT-TTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATA
9528711 ATCTT
65 ATCTT
9528716 CTTGATAATA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 3 0.04
72 65 0.96
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.45
Consensus pattern (72 bp):
TATTAAATTATCAAAATATTTTTATTTTAATAATGTAATAAATGTTAATTAAGGGTATGTCATAA
TCTTAGA
Found at i:9529108 original size:178 final size:180
Alignment explanation
Indices: 9528818--9529164 Score: 563
Period size: 178 Copynumber: 1.9 Consensus size: 180
9528808 TTTAGTCTAC
* * * *
9528818 TTAATATTATGTATTTACGTGTTTAAATTTCTTTTTACTAACAATTTAATCTAATTTTTTTCAAT
1 TTAATATGATGTATTTACGTGTTT-AATTTCTTTTTACTAACAATTAAATCTAAATTTTTTCAAC
* ** **
9528883 AAAATATTGTACATATTGTATGTGTTATTATTAATTAATTTCAAACATCATGTTTTAATTATTTA
65 AAAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATTTTAATTATTTA
*
9528948 TCATATGTTATATTCAAATGCAGACATGTATTCTAAATACATTTAGTATTT
130 TCATATGTTATATTCAAATGCACACATGTATTCTAAATACATTTAGTATTT
9528999 TTAATATGATGTATTTACGTGTTT-ATTT-TTTTTACTAACAATTAAATCTAAATTTTTTCAACA
1 TTAATATGATGTATTTACGTGTTTAATTTCTTTTTACTAACAATTAAATCTAAATTTTTTCAACA
*
9529062 AAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATTACATTTTAATTATTTAT
66 AAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATTTTAATTATTTAT
*
9529127 CATATGTTATATTCAAATGTACACATGTATTCTAAATA
131 CATATGTTATATTCAAATGCACACATGTATTCTAAATA
9529165 TATGATTTTC
Statistics
Matches: 154, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
178 127 0.82
179 4 0.03
181 23 0.15
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (180 bp):
TTAATATGATGTATTTACGTGTTTAATTTCTTTTTACTAACAATTAAATCTAAATTTTTTCAACA
AAATATTATACATATTACATGTGTTATTATTAATTAATTTCAAACATCACATTTTAATTATTTAT
CATATGTTATATTCAAATGCACACATGTATTCTAAATACATTTAGTATTT
Found at i:9531643 original size:17 final size:18
Alignment explanation
Indices: 9531623--9531656 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9531613 TTAATTTGAA
*
9531623 TTTAGTTTTAG-TTTTTT
1 TTTAATTTTAGATTTTTT
9531640 TTTAATTTTAGATTTTT
1 TTTAATTTTAGATTTTT
9531657 CCAAAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTAATTTTAGATTTTTT
Found at i:9532077 original size:20 final size:20
Alignment explanation
Indices: 9532039--9532077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9532029 AATAATAAAC
**
9532039 TATTTTAATTTTAGGATATG
1 TATTTTAATTTTAAAATATG
*
9532059 TATTTTATTTTTAAAATAT
1 TATTTTAATTTTAAAATAT
9532078 AATAATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATTTTAATTTTAAAATATG
Found at i:9563701 original size:30 final size:32
Alignment explanation
Indices: 9563641--9563704 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
9563631 CACTTATTTT
9563641 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
9563674 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
9563705 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:9563976 original size:41 final size:41
Alignment explanation
Indices: 9563919--9564064 Score: 224
Period size: 41 Copynumber: 3.6 Consensus size: 41
9563909 ACCGGCTCTT
* *
9563919 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACTGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9563960 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9564001 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* *
9564042 AGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACTTATAGTCTGA
9564065 TTTATGTCAC
Statistics
Matches: 99, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
40 1 0.01
41 93 0.94
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:9565631 original size:13 final size:13
Alignment explanation
Indices: 9565613--9565637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9565603 CCATCGAATG
9565613 CACACAAAATAAA
1 CACACAAAATAAA
9565626 CACACAAAATAA
1 CACACAAAATAA
9565638 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:9571321 original size:30 final size:32
Alignment explanation
Indices: 9571261--9571324 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
9571251 GCACTTATTT
9571261 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
9571294 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
9571325 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:9571583 original size:41 final size:41
Alignment explanation
Indices: 9571538--9571693 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
9571528 ACCGGCTCTT
*
9571538 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9571579 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
9571620 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
9571661 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
9571694 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:9584136 original size:19 final size:19
Alignment explanation
Indices: 9584112--9584148 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9584102 CATTTTAAAG
9584112 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
9584131 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
9584149 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:9584238 original size:41 final size:41
Alignment explanation
Indices: 9584190--9584271 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9584180 ATATTTTATT
* *
9584190 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
9584231 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
9584272 CTATTAGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTACTTTAGTAGAATAAGGGAATTATTTTCC
Found at i:9590121 original size:22 final size:25
Alignment explanation
Indices: 9590073--9590127 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
9590063 AGGACGAACG
9590073 AACGAAAAAAGAGAAATAGCAGCAAA
1 AACG-AAAAAGAGAAATAGCAGCAAA
9590099 AA-GAAAAAGA-AAATAAG-AG-AAA
1 AACGAAAAAGAGAAAT-AGCAGCAAA
9590121 AACGAAA
1 AACGAAA
9590128 TACATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 9 0.33
25 1 0.04
26 2 0.07
ACGTcount: A:0.71, C:0.07, G:0.18, T:0.04
Consensus pattern (25 bp):
AACGAAAAAGAGAAATAGCAGCAAA
Found at i:9590296 original size:18 final size:18
Alignment explanation
Indices: 9590255--9590289 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9590245 TTTTCTGCAT
*
9590255 CTTTCGCTTTTTTTTTTA
1 CTTTCGCTTTTTCTTTTA
*
9590273 CTTTCGGTTTTTCTTTT
1 CTTTCGCTTTTTCTTTT
9590290 CTGTTCGTTC
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:0.03, C:0.17, G:0.09, T:0.71
Consensus pattern (18 bp):
CTTTCGCTTTTTCTTTTA
Found at i:9590896 original size:9 final size:9
Alignment explanation
Indices: 9590880--9590941 Score: 88
Period size: 9 Copynumber: 6.9 Consensus size: 9
9590870 GGTATTTTTC
9590880 GGTAATTCG
1 GGTAATTCG
*
9590889 GTTAATTCG
1 GGTAATTCG
*
9590898 GTTAATTCG
1 GGTAATTCG
9590907 GGTAATTCG
1 GGTAATTCG
9590916 GGTAATTCG
1 GGTAATTCG
* *
9590925 GGAAATTCA
1 GGTAATTCG
9590934 GGTAATTC
1 GGTAATTC
9590942 TTAACCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9593480 original size:79 final size:79
Alignment explanation
Indices: 9593318--9593551 Score: 293
Period size: 79 Copynumber: 3.0 Consensus size: 79
9593308 CAATTCTCCA
* *
9593318 CATGGTATCAAATGTTTTTGGTTCTTTCCT---AAGTGTTTT-TTTT-CTTGTCGAATTCTTGCT
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
* *
9593378 TCTCGTGTTTATTC
66 TCTCCTGTTCATTC
* * *
9593392 CATGATATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTTGAAATCTTGCT
1 CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
*
9593457 TCTCTTGTTCATTC
66 TCTCCTGTTCATTC
* * *
9593471 CATGGTATCAGATGTTTTTGGTTCCTTT-CTAAGAAGAG-TTTCTTTTTCTTGGTCGAGTTCTTG
1 CATGGTATCAGATGTTTTTGGTT-CTTTCCTAAGAAGTGTTTTC-TTTTCCTGGTCGAATTCTTG
9593534 CTTCTCCTGTTCTATTC
64 CTTCTCCTGTTC-ATTC
9593551 C
1 C
9593552 CAAGTCCTTT
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
74 28 0.20
77 9 0.07
78 8 0.06
79 84 0.61
80 9 0.07
ACGTcount: A:0.15, C:0.18, G:0.17, T:0.50
Consensus pattern (79 bp):
CATGGTATCAGATGTTTTTGGTTCTTTCCTAAGAAGTGTTTTCTTTTCCTGGTCGAATTCTTGCT
TCTCCTGTTCATTC
Found at i:9604143 original size:13 final size:13
Alignment explanation
Indices: 9604125--9604150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9604115 CAAAATTTCT
9604125 TCAAAATTTAGCA
1 TCAAAATTTAGCA
9604138 TCAAAATTTAGCA
1 TCAAAATTTAGCA
9604151 AAAAAAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TCAAAATTTAGCA
Found at i:9604194 original size:30 final size:30
Alignment explanation
Indices: 9604158--9604222 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
9604148 GCAAAAAAAA
9604158 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
9604188 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
9604218 CTCTC
1 CTCTC
9604223 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:9605341 original size:18 final size:18
Alignment explanation
Indices: 9605318--9605360 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9605308 TGCCAGGTGC
*
9605318 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
9605336 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9605354 GTTTCCT
1 GTATCCT
9605361 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9605761 original size:24 final size:23
Alignment explanation
Indices: 9605734--9605790 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
9605724 TCATTTAATA
9605734 AATAAAAGTTATTTTTA-ATATTTT
1 AATAAAA-TTATTTTTATAT-TTTT
9605758 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
9605783 AATAAAAT
1 AATAAAAT
9605791 AGAAGTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 17 0.57
26 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATAAAATTATTTTTATATTTTT
Found at i:9609192 original size:127 final size:126
Alignment explanation
Indices: 9608852--9609245 Score: 587
Period size: 127 Copynumber: 3.1 Consensus size: 126
9608842 GGCCAAACAT
* * * *
9608852 GAACTACTGTAGAAAAAGAGTGTCCACATAGGAGCTTTTTTCAGT-AATTTTACTAACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAT
* **
9608916 CCTACTTGAAGCGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT-AG
65 CCTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
*
9608977 GAACTACTGTAGAAAAAAAGCGTCCACGTAGGAGCTTTTTT-ATCAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* * * *
9609041 CTGCTTGAAGCATTTCTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTTCAA
66 CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAATGTCTTCTCAAAATTA-TTTTTTCAG
* * *
9609103 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTACATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
* *
9609168 CTGTTTGAAGCGTTTTTTACACTATTTGTTCAGAACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
*
9609229 GAACTACTATAGAAAAA
1 GAACTACTGTAGAAAAA
9609246 CCCAAAATCC
Statistics
Matches: 242, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
123 1 0.00
124 65 0.27
125 44 0.18
126 63 0.26
127 69 0.29
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTTACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAG
Found at i:9609372 original size:34 final size:33
Alignment explanation
Indices: 9609301--9609415 Score: 119
Period size: 34 Copynumber: 3.5 Consensus size: 33
9609291 TAAACACAAT
*
9609301 ATTATTTTTTTAAAAA-A-TAAA-CTCAAATTTA
1 ATTAATTTTTTAAAAACACTAAATC-CAAATTTA
9609332 ATTAATTTTCTTAAAAACACTAAATCCAAATTTA
1 ATTAATTTT-TTAAAAACACTAAATCCAAATTTA
* * * * *
9609366 ACTAATTTATTTAAAACCCCTATATCCTAATTTA
1 ATTAATTT-TTTAAAAACACTAAATCCAAATTTA
*
9609400 ATTAATTTTTAAAAAA
1 ATTAATTTTTTAAAAA
9609416 TAACACTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
31 8 0.11
32 7 0.10
33 7 0.10
34 46 0.66
35 2 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (33 bp):
ATTAATTTTTTAAAAACACTAAATCCAAATTTA
Found at i:9609534 original size:35 final size:35
Alignment explanation
Indices: 9609433--9609538 Score: 117
Period size: 35 Copynumber: 3.0 Consensus size: 35
9609423 AAATCCTGAT
* ** *
9609433 TTATTTTTAAAAATTCCTAAAACCTAGAACCTTAAA
1 TTATTTTAAAAAAACCCTAAAACCTA-AACCCTAAA
*
9609469 TTATTTTAACAAAACCCTACAAACCT-AACCCTAAA
1 TTATTTTAAAAAAACCCTA-AAACCTAAACCCTAAA
*
9609504 TTATTTTAAAAAAACCCT-AACCCTAAAACCCTAAA
1 TTATTTTAAAAAAACCCTAAAACCT-AAACCCTAAA
9609539 CCAAAAAACC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
33 5 0.08
35 34 0.57
36 15 0.25
37 6 0.10
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (35 bp):
TTATTTTAAAAAAACCCTAAAACCTAAACCCTAAA
Found at i:9609540 original size:15 final size:15
Alignment explanation
Indices: 9609512--9609551 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9609502 AATTATTTTA
9609512 AAAAAACCCT-AACC
1 AAAAAACCCTAAACC
**
9609526 CTAAAACCCTAAACC
1 AAAAAACCCTAAACC
9609541 AAAAAACCCTA
1 AAAAAACCCTA
9609552 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.55, C:0.35, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAACCCTAAACC
Found at i:9611591 original size:31 final size:31
Alignment explanation
Indices: 9611556--9611617 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
9611546 GCCTATCTTC
9611556 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
1 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
9611587 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
1 CCCAATTGAAGTTACGGCAATGGTGGAAGAA
9611618 AAGGAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (31 bp):
CCCAATTGAAGTTACGGCAATGGTGGAAGAA
Found at i:9615997 original size:18 final size:18
Alignment explanation
Indices: 9615956--9615998 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
9615946 TTCTTTCTTA
9615956 TTATTTTAAATTTTTTAT
1 TTATTTTAAATTTTTTAT
9615974 TATATTTT-AATTGTTTTAT
1 T-TATTTTAAATT-TTTTAT
9615993 TTATTT
1 TTATTT
9615999 AGTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTTTAAATTTTTTAT
Found at i:9622062 original size:16 final size:18
Alignment explanation
Indices: 9622036--9622070 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9622026 TAGAATTGGG
9622036 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
9622053 TTGA-AAAATTAATTTAA
1 TTGAGAAAATTAATTTAA
9622070 T
1 T
9622071 AAATAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:9623107 original size:51 final size:50
Alignment explanation
Indices: 9623015--9623196 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 50
9623005 CATCAGAACT
* * * *
9623015 CATGTGTAGTACTATGTGTAGGCTATTATGAGTATA-AGATAGTTATGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTAT--GTATACCGATAGTTATGGTCA
*
9623066 CATGTGTAGTACTAAGTGCAGGTTACTATGTATACCGGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTATACC-GATAG-TTATGGTCA
* * * * * *
9623117 CGTGTATAGTACTATA-TACAGGCTACTACGTGTACCGA-ACGATATTGGTCA
1 CATGTGTAGTACTA-AGTGCAGGCTACTATGTATACCGATA-GTTA-TGGTCA
*
9623168 CATGTGTAGTACTAAGTGTAGGCTACTAT
1 CATGTGTAGTACTAAGTGCAGGCTACTAT
9623197 TTGTATCGAA
Statistics
Matches: 106, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
49 7 0.07
50 4 0.04
51 92 0.87
52 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTATACCGATAGTTATGGTCA
Found at i:9626954 original size:23 final size:24
Alignment explanation
Indices: 9626907--9626952 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
9626897 GAAAAATATT
9626907 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
9626931 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
9626953 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:9627063 original size:9 final size:9
Alignment explanation
Indices: 9627049--9627076 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9627039 TTTTGTTACA
9627049 ACAATTAAT
1 ACAATTAAT
9627058 ACAATTAAT
1 ACAATTAAT
9627067 ACAATTAAT
1 ACAATTAAT
9627076 A
1 A
9627077 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:9627098 original size:68 final size:68
Alignment explanation
Indices: 9627019--9627219 Score: 307
Period size: 59 Copynumber: 3.1 Consensus size: 68
9627009 TTAAGTTTGT
*
9627019 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
9627084 AAA
66 AAA
9627087 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
9627143 AAA
66 AAA
9627146 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
9627209 AAT
66 AAA
9627212 TTTACTAA
1 TTTACTAA
9627220 CAATTAATTT
Statistics
Matches: 122, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
59 56 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.26
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:9627229 original size:16 final size:16
Alignment explanation
Indices: 9627208--9627249 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
9627198 AATAATTTGA
*
9627208 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
9627224 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
9627240 TAGTTTTAAT
1 TAATTTTAAT
9627250 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:9627233 original size:22 final size:22
Alignment explanation
Indices: 9627223--9627277 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
9627213 TTACTAACAA
* * *
9627223 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
9627245 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
9627267 TTAATTTTAAT
1 TTAATTTTAAT
9627278 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:9631538 original size:35 final size:35
Alignment explanation
Indices: 9631492--9631606 Score: 117
Period size: 35 Copynumber: 3.3 Consensus size: 35
9631482 TCACTTGCCA
9631492 ATACTTCATTCATTTAACATTCTGCCATAACACTG
1 ATACTTCATTCATTTAACATTCTGCCATAACACTG
* * * * *
9631527 ATACTTCATTCATTTAACATCCCGCCACAAC-GTCA
1 ATACTTCATTCATTTAACATTCTGCCATAACACT-G
* * *
9631562 ATATTTCATTCATTTGACA-TCTCGCCATAACACCG
1 ATACTTCATTCATTTAACATTCT-GCCATAACACTG
*
9631597 GTACTTCATT
1 ATACTTCATT
9631607 TATAATATAC
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
34 2 0.03
35 60 0.97
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (35 bp):
ATACTTCATTCATTTAACATTCTGCCATAACACTG
Found at i:9635878 original size:19 final size:19
Alignment explanation
Indices: 9635832--9635871 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9635822 TAACGCAATG
* *
9635832 TCAATTTTTTTAATAAATA
1 TCAATATTTTTAACAAATA
*
9635851 TCAATATTTTTAACACATA
1 TCAATATTTTTAACAAATA
9635870 TC
1 TC
9635872 GAAATTTGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (19 bp):
TCAATATTTTTAACAAATA
Found at i:9636394 original size:56 final size:56
Alignment explanation
Indices: 9636308--9636413 Score: 185
Period size: 56 Copynumber: 1.9 Consensus size: 56
9636298 CGAAACTTAA
*
9636308 TCCTATATATCAGGAGTACATCAAAACAGAAAACAAGAGCAAAGAAATTTGAAATC
1 TCCTATATATCAGGAGTACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATC
* *
9636364 TCCTATATATTAGGAGTACATCAAAACAGAAAACAAAAGTAAAGAAATTT
1 TCCTATATATCAGGAGTACATCAAAACAGAAAACAAAAGCAAAGAAATTT
9636414 CAAAATATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.22
Consensus pattern (56 bp):
TCCTATATATCAGGAGTACATCAAAACAGAAAACAAAAGCAAAGAAATTTGAAATC
Found at i:9639478 original size:27 final size:27
Alignment explanation
Indices: 9639448--9639507 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
9639438 TTGGTGTTCA
*
9639448 CCAGTAGGTTTGGCGAAGCAAGGATCG
1 CCAGTAGGCTTGGCGAAGCAAGGATCG
* * *
9639475 CCAGTAGGCTTGTCGAAGTAAGGATTG
1 CCAGTAGGCTTGGCGAAGCAAGGATCG
9639502 CCAGTA
1 CCAGTA
9639508 AGCCTGGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (27 bp):
CCAGTAGGCTTGGCGAAGCAAGGATCG
Found at i:9640137 original size:6 final size:6
Alignment explanation
Indices: 9640128--9640152 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9640118 CAATTTCAAG
9640128 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
9640153 AGAGAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:9641612 original size:16 final size:16
Alignment explanation
Indices: 9641590--9641621 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9641580 GATACTTGCA
9641590 ATTTTTTTA-TTACAT
1 ATTTTTTTATTTACAT
9641605 ATTTTTTTATTTACAT
1 ATTTTTTTATTTACAT
9641621 A
1 A
9641622 CGAATAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTTTTATTTACAT
Found at i:9643298 original size:98 final size:98
Alignment explanation
Indices: 9643174--9643368 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
9643164 AAAAAAATAA
* ** *
9643174 TAAAGGAAATATTTTGAGTTTAGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGAAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
9643239 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
9643272 TAAAGAAAATATTCCGAGTTTGGGATTCTAGAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGAAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
9643337 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
9643369 AGTTTTATTG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGAAAATATTCCGAGTTTAGGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9645077 original size:36 final size:36
Alignment explanation
Indices: 9645030--9645102 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
9645020 GACCGACTCA
9645030 ATAAGAAAGTTACACCGATTCCAGCAATTTTGGCAG
1 ATAAGAAAGTTACACCGATTCCAGCAATTTTGGCAG
9645066 ATAAGAAAGTTACACCGATTCCAGCAATTTTGGCAG
1 ATAAGAAAGTTACACCGATTCCAGCAATTTTGGCAG
9645102 A
1 A
9645103 GACTTTCAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (36 bp):
ATAAGAAAGTTACACCGATTCCAGCAATTTTGGCAG
Found at i:9652690 original size:44 final size:43
Alignment explanation
Indices: 9652637--9653581 Score: 436
Period size: 44 Copynumber: 21.7 Consensus size: 43
9652627 GATCGCGTCT
9652637 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
** * *
9652681 AGTCTTATCTTTCTGAAGTTGCAGT-GAGGTAGACTGAAGATGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* * * *
9652726 AATCTTATCTCCCTGAAGTTACAGTGAAGCAGATTAA-AATCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA--G-CA
* * * * * * *
9652771 A-TCCTATCTCCCTGAAGTTGCGGTAGAGCGGATTAA-AATCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * *
9652813 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
* *
9652854 AGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* *
9652898 AGTCTTATCTTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGAAG-CA
* * * *
9652943 AATCTTATCTCCCTGAAATTACAGTGGAGCAGATTAA-AACCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA--G-CA
* * * * * *
9652988 A-TCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTAA-AATCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
* * * * * * *
9653030 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
9653071 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * *
9653115 AGACTTATCCTCCC-GAAGTTGCAAT-GAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
** * **
9653160 AAACTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CA
* * * * *
9653205 ATTC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AATCTC
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-A
** ** * * * *
9653247 AGATCTTATCTCTTTGAAGTTGCAG-AAAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
*
9653288 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCA
* * * * * * *
9653332 GGTCTTATTTCCCT-AAGTAGTAGTGGAACAGATCAAAGATGGC-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGA-AGCA
* * ** ** * * *
9653375 GGATTTTATCTCCCTGTGGTTATAGTGGAGTACA-T-TGAAGCCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-CA
* * * * * ** ** ** * *
9653418 A-TAATTCTACTTCCT-TAGTCAGTTGTGGAATAGGTTACAGATTGTA
1 AGT-CTTAT-CTCCCTGAAGT-TGCAGTGGAGCAGACTA-AGA-AGCA
*
9653464 AGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAACGAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA-GAAGCA
* *
9653508 AGTCTTATCTTCCTGGAA-TTGCAGT-GAGGCAGACTGAAGAGGGCA
1 AGTCTTATCTCCCT-GAAGTTGCAGTGGA-GCAGACT-AAGA-AGCA
*
9653553 AATCTTATCTCCCTGAAGTTGCAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
9653582 TAGATTGAAG
Statistics
Matches: 689, Mismatches: 147, Indels: 129
0.71 0.15 0.13
Matches are distributed among these distances:
40 58 0.08
41 31 0.04
42 27 0.04
43 67 0.10
44 316 0.46
45 171 0.25
46 17 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA
Found at i:9652954 original size:173 final size:173
Alignment explanation
Indices: 9652681--9653008 Score: 407
Period size: 173 Copynumber: 1.9 Consensus size: 173
9652671 TAAGTAAGCA
* *
9652681 AGTCTTATCTTTCTGAAGTTGCAGTGAGGTAGACTGAAGATGACAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCTTTCTGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTT
* * * * * *
9652746 ACAGTGAAGCAGATTAAAATCGACAATCCTATCTCCCTGAAGTTGCGGTAGAGCGGATTAAAATC
66 ACAGTGAAGCAGACTAAAATCGACAATCCTATCTCCCTGAAATTACAGTAGAGCAGATTAAAACC
* * *
9652811 -TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 GACA-ATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
9652854 AGTCTTATC-TTCTTGAAGTTGCAGTG-GAGCAGACT-AAGTAAG-CAAGTCTTATCTTCCTGAA
1 AGTCTTATCTTTC-TGAAGTTGCAGTGAG-GCAGACTGAAG-AAGACAAATCTTATCTCCCTGAA
* * * *
9652915 GTTGCAGTGAGGCAGACTAAAGAT-GACAAATCTTATCTCCCTGAAATTACAGTGGAGCAGATTA
63 GTTACAGTGAAGCAGACTAAA-ATCGAC-AATCCTATCTCCCTGAAATTACAGTAGAGCAGATTA
9652979 AAACCGACAATCCTATCTCCCTGAAGTTGC
126 AAACCGACAATCCTATCTCCCTGAAGTTGC
9653009 GGTGGAGCGG
Statistics
Matches: 132, Mismatches: 17, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
172 45 0.34
173 85 0.64
174 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (173 bp):
AGTCTTATCTTTCTGAAGTTGCAGTGAGGCAGACTGAAGAAGACAAATCTTATCTCCCTGAAGTT
ACAGTGAAGCAGACTAAAATCGACAATCCTATCTCCCTGAAATTACAGTAGAGCAGATTAAAACC
GACAATCCTATCTCCCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:9652989 original size:217 final size:217
Alignment explanation
Indices: 9652611--9653343 Score: 1234
Period size: 217 Copynumber: 3.4 Consensus size: 217
9652601 AATTTTAGAA
*
9652611 GAAGTTGCAGAGAGCAGATCGCGTCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
1 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* *
9652676 AAGCAAGTCTTATCTTTCTGAAGTTGCAGTGAGGTAGACTGAAGATGACAAATCTTATCTCCCTG
66 AAGCAAGTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
* * *
9652741 AAGTTACAGTGAAGCAGATTAAAATCGACAATCCTATCTCCCTGAAGTTGCGGTAGAGCGGATTA
131 AAGTTACAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTA
9652806 AAATCTCAGATCTTATCTCTCT
196 AAATCTCAGATCTTATCTCTCT
* *
9652828 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTTCTTGAAGTTGCAGTGGAGCAGACTAAGT
1 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
*
9652893 AAGCAAGTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTG
66 AAGCAAGTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
*
9652958 AAATTACAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTA
131 AAGTTACAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTA
9653023 AAATCTCAGATCTTATCTCTCT
196 AAATCTCAGATCTTATCTCTCT
*
9653045 AAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
1 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
* * * * * *
9653110 AAGCAAGACTTATCCTCCCGAAGTTGCAATGAGGCAGACTGAAGATGGCAAAACTTATCTCCCTG
66 AAGCAAGTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
* * * *
9653175 AAGTTGCAGTGGAGCAGATTAAAGCCGACAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
131 AAGTTACAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTA
*
9653240 AAATCTCAGATCTTATCTCTTT
196 AAATCTCAGATCTTATCTCTCT
* *
9653262 GAAGTTGCAGAAAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGT
1 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
*
9653327 AAGCAGGTCTTAT-TTCC
66 AAGCAAGTCTTATCTTCC
9653344 CTAAGTAGTA
Statistics
Matches: 484, Mismatches: 32, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
216 3 0.01
217 481 0.99
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
AAGCAAGTCTTATCTTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
AAGTTACAGTGGAGCAGATTAAAACCGACAATCCTATCTCCCTGAAGTTGCGGTGGAGCGGATTA
AAATCTCAGATCTTATCTCTCT
Found at i:9653591 original size:45 final size:44
Alignment explanation
Indices: 9653466--9653591 Score: 150
Period size: 45 Copynumber: 2.8 Consensus size: 44
9653456 AGATTGTAAG
*
9653466 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACT-AACGAAGCAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAA-GAAGCAAA
*
9653510 TCTTATCTTCCTGGAA-TTGCAGT-GAGGCAGACTGAAGAGGGCAAA
1 TCTTATCTTCCT-GAAGTTGCAGTGGA-GCAGACTGAAGA-AGCAAA
* * *
9653555 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAG
9653592 CACTAGTTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 11
0.82 0.06 0.13
Matches are distributed among these distances:
43 2 0.03
44 31 0.44
45 36 0.51
46 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (44 bp):
TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGAAGCAAA
Found at i:9654125 original size:16 final size:17
Alignment explanation
Indices: 9654104--9654135 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9654094 ATACTTGCAA
9654104 TTTTTTTA-TTACATAT
1 TTTTTTTATTTACATAT
9654120 TTTTTTTATTTACATA
1 TTTTTTTATTTACATA
9654136 CGAATAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTATTTACATAT
Found at i:9654387 original size:21 final size:22
Alignment explanation
Indices: 9654361--9654403 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
9654351 AAGGCTGAAA
*
9654361 GGTTTTTTTTTTGAA-AGATTT
1 GGTTTTTTTTTTAAATAGATTT
9654382 GGTTTTTTTTTTAAATAGATTT
1 GGTTTTTTTTTTAAATAGATTT
9654404 TGAAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (22 bp):
GGTTTTTTTTTTAAATAGATTT
Found at i:9655297 original size:9 final size:9
Alignment explanation
Indices: 9655285--9655309 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9655275 GATGATGTAT
9655285 TTATTATTG
1 TTATTATTG
9655294 TTATTATTG
1 TTATTATTG
9655303 TTATTAT
1 TTATTAT
9655310 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:9655702 original size:98 final size:98
Alignment explanation
Indices: 9655587--9655781 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
9655577 AAAAAAATAA
* * *
9655587 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTT
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9655652 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
9655685 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9655750 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
9655782 AGTTTTATTG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9661399 original size:6 final size:6
Alignment explanation
Indices: 9661388--9661414 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9661378 TAAATAATAC
9661388 ATTTAT ATTTAT ATTTAT ATTTAT ATT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATT
9661415 AAATCACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:9662913 original size:26 final size:26
Alignment explanation
Indices: 9662884--9662958 Score: 132
Period size: 26 Copynumber: 2.9 Consensus size: 26
9662874 AGCGGTGTAA
* *
9662884 TAGGTTTGGTTGCTGGTTTGTTTGGT
1 TAGGTTTGGTTGTTGGTTCGTTTGGT
9662910 TAGGTTTGGTTGTTGGTTCGTTTGGT
1 TAGGTTTGGTTGTTGGTTCGTTTGGT
9662936 TAGGTTTGGTTGTTGGTTCGTTT
1 TAGGTTTGGTTGTTGGTTCGTTT
9662959 TATTTGATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.04, C:0.04, G:0.37, T:0.55
Consensus pattern (26 bp):
TAGGTTTGGTTGTTGGTTCGTTTGGT
Found at i:9662918 original size:10 final size:9
Alignment explanation
Indices: 9662897--9662947 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 9
9662887 GTTTGGTTGC
*
9662897 TGGTTTGTT
1 TGGTTGGTT
9662906 TGGTTAGGTT
1 TGGTT-GGTT
9662916 TGGTT-G-T
1 TGGTTGGTT
*
9662923 TGGTTCGTT
1 TGGTTGGTT
9662932 TGGTTAGGTT
1 TGGTT-GGTT
9662942 TGGTTG
1 TGGTTG
9662948 TTGGTTCGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 6 0.17
8 2 0.06
9 12 0.33
10 16 0.44
ACGTcount: A:0.04, C:0.02, G:0.39, T:0.55
Consensus pattern (9 bp):
TGGTTGGTT
Found at i:9662927 original size:7 final size:9
Alignment explanation
Indices: 9662897--9662958 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 9
9662887 GTTTGGTTGC
*
9662897 TGGTTTGTT
1 TGGTTAGTT
9662906 TGGTTAGGTT
1 TGGTTA-GTT
9662916 TGGTT-G-T
1 TGGTTAGTT
*
9662923 TGGTTCGTT
1 TGGTTAGTT
9662932 TGGTTAGGTT
1 TGGTTA-GTT
9662942 TGGTT-G-T
1 TGGTTAGTT
*
9662949 TGGTTCGTT
1 TGGTTAGTT
9662958 T
1 T
9662959 TATTTGATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 12 0.27
8 4 0.09
9 13 0.29
10 16 0.36
ACGTcount: A:0.03, C:0.03, G:0.37, T:0.56
Consensus pattern (9 bp):
TGGTTAGTT
Found at i:9664206 original size:11 final size:11
Alignment explanation
Indices: 9664190--9664215 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9664180 TCATTCGTAC
9664190 AATTTTGATGT
1 AATTTTGATGT
9664201 AATTTTGATGT
1 AATTTTGATGT
9664212 AATT
1 AATT
9664216 ATTTTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (11 bp):
AATTTTGATGT
Found at i:9672185 original size:16 final size:16
Alignment explanation
Indices: 9672148--9672183 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9672138 GTGCATAGAT
9672148 GTAAATAACATGAAAA
1 GTAAATAACATGAAAA
*
9672164 GTAAATAACTTG-AAA
1 GTAAATAACATGAAAA
9672179 GTAAA
1 GTAAA
9672184 ATGAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (16 bp):
GTAAATAACATGAAAA
Found at i:9674132 original size:50 final size:50
Alignment explanation
Indices: 9674076--9674175 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
9674066 AAAATGAATG
9674076 AAAAAACTAATGTTTGTTAACTTTGCTGACGTGATATACACGTGAATTGC
1 AAAAAACTAATGTTTGTTAACTTTGCTGACGTGATATACACGTGAATTGC
* *
9674126 AAAAAACTAATGTTTGTTAATTTTGCTGACGTGATATACACGTGGATTGC
1 AAAAAACTAATGTTTGTTAACTTTGCTGACGTGATATACACGTGAATTGC
9674176 TATGTGGATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (50 bp):
AAAAAACTAATGTTTGTTAACTTTGCTGACGTGATATACACGTGAATTGC
Found at i:9674253 original size:20 final size:20
Alignment explanation
Indices: 9674228--9674266 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9674218 TAAAAAAATT
*
9674228 TAATTTTTATACTTTTTTAA
1 TAATTTTAATACTTTTTTAA
*
9674248 TAATTTTAATAGTTTTTTA
1 TAATTTTAATACTTTTTTA
9674267 TTTTTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TAATTTTAATACTTTTTTAA
Found at i:9676116 original size:16 final size:16
Alignment explanation
Indices: 9676095--9676130 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9676085 TTTGGTTCGT
9676095 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9676111 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9676127 TGTA
1 TGTA
9676131 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9676536 original size:153 final size:155
Alignment explanation
Indices: 9676254--9676566 Score: 513
Period size: 153 Copynumber: 2.0 Consensus size: 155
9676244 TAGAATACCC
*
9676254 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGT-AA-GATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
9676319 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATTAAAA
64 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAA
*
9676384 TATATAATTTCATAAAATTCTTAATAA
129 TATATAATTTAATAAAATTCTTAATAA
*
9676411 TTAGCAGAAATTTGTTTTGGT-A-ATTATTGTTATTTTTATTTAAATTTTAATAAGATTATTAAT
1 TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
* *
9676474 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
66 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
9676539 TATAATTTAATAAAATTCTTAATAA
131 TATAATTTAATAAAATTCTTAATAA
9676564 TTA
1 TTA
9676567 ATATTCTTAT
Statistics
Matches: 147, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
153 126 0.86
155 1 0.01
157 20 0.14
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAATTAAAATA
TATAATTTAATAAAATTCTTAATAA
Found at i:9676537 original size:16 final size:16
Alignment explanation
Indices: 9676500--9676541 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9676490 TTAATCATAT
*
9676500 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9676516 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9676531 TTAAAATATAT
1 TTAAAATATAT
9676542 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9676548 original size:14 final size:15
Alignment explanation
Indices: 9676509--9676550 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9676499 TTTAAACATA
*
9676509 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9676524 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9676538 A-TATAATTTAATA
1 ATTATAATTAAATA
9676551 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:9676600 original size:61 final size:61
Alignment explanation
Indices: 9676535--9676722 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
9676525 TTATAATTAA
9676535 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
9676596 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
9676654 A
61 T
*
9676655 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTGACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
9676716 AATATAT
1 AATATAT
9676723 GATACTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 16 0.17
61 34 0.35
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:9676639 original size:120 final size:121
Alignment explanation
Indices: 9676498--9676795 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
9676488 ATTTAATCAT
*
9676498 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
9676563 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAA
66 ATTAATATTCTTATATGAATTGACTCAAATCATAATATATGATACTAT-AAATGA-AA
9676620 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
9676683 ATTAATATTCTTATATGAATTGACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTGACTCAAATCATAATATATGATACTATAAATGAAA
* * * *
9676739 ATTTGAA-ATAATTAATATTAAATATATTTTATTTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
9676796 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 156 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTGACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:9676668 original size:14 final size:15
Alignment explanation
Indices: 9676619--9676670 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9676609 ATAAAATATA
9676619 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9676634 TATTAAATATATTAT
1 AATTAAATATATTAT
9676649 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9676662 AATTTAATA
1 AATTAAATA
9676671 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9676721 original size:59 final size:58
Alignment explanation
Indices: 9676538--9676721 Score: 162
Period size: 59 Copynumber: 3.1 Consensus size: 58
9676528 TAATTAAAAT
9676538 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAA-TTACTCAAATCATA
* * * * * * * * *
9676597 ATAT-ATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTA-T-AATTAAAA
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATTACTCAAATCATA
9676657 TATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTGACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT-ACTCAAATCATA
9676717 ATATA
1 ATATA
9676722 TGATACTATA
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 12 0.13
58 7 0.08
59 21 0.23
60 18 0.19
61 16 0.17
62 9 0.10
63 10 0.11
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (58 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTACTCAAATCATA
Found at i:9676882 original size:24 final size:25
Alignment explanation
Indices: 9676836--9676883 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
9676826 TATGAATTTT
9676836 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
9676862 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
9676884 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:9676907 original size:92 final size:91
Alignment explanation
Indices: 9676811--9677019 Score: 253
Period size: 92 Copynumber: 2.3 Consensus size: 91
9676801 TAATTATAAC
* * * *
9676811 TAATAAATTATATTTTATGAATTTTTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAA-AA
* *
9676875 TTAATAT-TAAATTTCATAAAATTCTTGA
64 GTAATATAT-AATTTCATAAAATTCTTAA
* * *
9676903 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAACAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAAAAGT
*
9676968 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
9676994 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
9677020 CTAAAATCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
91 28 0.27
92 71 0.69
93 4 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAAAAGT
AATATATAATTTCATAAAATTCTTAA
Found at i:9680064 original size:11 final size:11
Alignment explanation
Indices: 9680048--9680074 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9680038 GATTTTATCA
9680048 ATTGTTGAGAT
1 ATTGTTGAGAT
9680059 ATTGTTGAGAT
1 ATTGTTGAGAT
9680070 ATTGT
1 ATTGT
9680075 CACTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (11 bp):
ATTGTTGAGAT
Done.