Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
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: 5800122
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 26
Found at i:3359609 original size:24 final size:25
Alignment explanation
Indices: 3359573--3359649 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 25
3359563 AAATATTTTA
*
3359573 TCTGATTTC-TGACTTGAATTCTGT
1 TCTGATTACATGACTTGAATTCTGT
*
3359597 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTACATGACTTGAATTCTGT
*
3359621 TCTGATTTCAT-A-TCTGAATTCTGT
1 TCTGATTACATGACT-TGAATTCTGT
3359645 TCTGA
1 TCTGA
3359650 ATTCTGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 2 0.04
24 40 0.87
25 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (25 bp):
TCTGATTACATGACTTGAATTCTGT
Found at i:3359625 original size:12 final size:12
Alignment explanation
Indices: 3359587--3359667 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
3359577 ATTTCTGACT
3359587 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
3359599 TG-ATACATGACC
1 TGAATTC-TGTTC
3359611 TGAATTCTGTTC
1 TGAATTCTGTTC
* *
3359623 TGATTTCAT-ATC
1 TGAATTC-TGTTC
3359635 TGAATTCTGTTC
1 TGAATTCTGTTC
*
3359647 TGAATTCTGTTT
1 TGAATTCTGTTC
*
3359659 TGATTTCTG
1 TGAATTCTG
3359668 ATATCTCCGT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
11 4 0.08
12 45 0.85
13 4 0.08
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:3359637 original size:36 final size:36
Alignment explanation
Indices: 3359597--3359665 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
3359587 TGAATTCTGT
3359597 TCTG-ATACATGACCTGAATTCTGTTCTGATTTCATA
1 TCTGAATAC-TGACCTGAATTCTGTTCTGATTTCATA
* ** *
3359633 TCTGAATTCTGTTCTGAATTCTGTTTTGATTTC
1 TCTGAATACTGACCTGAATTCTGTTCTGATTTC
3359666 TGATATCTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 25 0.89
37 3 0.11
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (36 bp):
TCTGAATACTGACCTGAATTCTGTTCTGATTTCATA
Found at i:3363651 original size:3 final size:3
Alignment explanation
Indices: 3363643--3363667 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3363633 TGGAGATGCT
3363643 CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA C
3363668 GTGGTCGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:3365075 original size:23 final size:23
Alignment explanation
Indices: 3365040--3365087 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
3365030 ATTAAGTACA
*
3365040 ATAATATATTAGGTAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
* *
3365063 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
3365086 AT
1 AT
3365088 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:3366010 original size:182 final size:182
Alignment explanation
Indices: 3365689--3366322 Score: 1054
Period size: 182 Copynumber: 3.5 Consensus size: 182
3365679 TTTTACTACT
* * *
3365689 GGTTTAGTCATTTTGAGACCGATTTTTTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
1 GGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
* *
3365754 TTTTTATAAAGTATCGACACTTTATTGACGCTGTAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
* * *
3365819 GATACTTATAATAAAGTATCGACACTTTCAACATATTTAGTAGCTCTTTACC
131 GATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACC
* *
3365871 GGTTTTGTTATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACA
1 GGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
*
3365936 TTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
*
3366001 GATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACC
131 GATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACC
* * * *
3366053 GATTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATAATGTTATGGATCGATACA
1 GGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
*
3366118 TTTTTATAAAGTATCGACACTTTATTTGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
66 TTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
*
3366183 GATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACC
131 GATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACC
* ** *
3366235 TGTTTTGTCATTTATAGACCGATTTTGTCAT-TTGTTTACATGTTATATTGTTATGGATCGATAC
1 GGTTTTGTCATTTCGAGACCGATTTTGTCATATT-TTTACCTGTTATATTGTTATGGATCGATAC
3366299 ATTTTTATAAAGTATCGACACTTT
65 ATTTTTATAAAGTATCGACACTTT
3366323 CAATATATCC
Statistics
Matches: 421, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
181 2 0.00
182 419 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
GGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA
TTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTC
GATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACC
Found at i:3366391 original size:112 final size:112
Alignment explanation
Indices: 3366193--3366471 Score: 486
Period size: 112 Copynumber: 2.5 Consensus size: 112
3366183 GATACTTATA
* * *
3366193 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
3366258 TTTGTCATTTGTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTGTTTACATGTTATATTGTTATGGATCGATACATTTTT
* *
3366305 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* *
3366370 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTGTTTACATGTTATATTGTTATGGATCGATACATTTTT
*
3366417 ATAAAGTATCGACATTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTT
3366472 TTTTTACTTG
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 158 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTGTTTACATGTTATATTGTTATGGATCGATACATTTTT
Found at i:3366485 original size:93 final size:93
Alignment explanation
Indices: 3366368--3366564 Score: 351
Period size: 93 Copynumber: 2.1 Consensus size: 93
3366358 TTATAGACCG
* *
3366368 GTTTTGTCA-TTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACAT
1 GTTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
3366432 TTTCAATATATCCGGTAGCGCTTTACCT
66 TTTCAATATATCCGGTAGCGCTTTACCT
*
3366460 GTTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACAC
1 GTTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
*
3366525 TTTCAATATATTCGGTAGCGCTTTACCT
66 TTTCAATATATCCGGTAGCGCTTTACCT
3366553 GTTTTGTCATTT
1 GTTTTGTCATTT
3366565 ATAGACCGGT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 9 0.09
93 91 0.91
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.50
Consensus pattern (93 bp):
GTTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACAC
TTTCAATATATCCGGTAGCGCTTTACCT
Found at i:3366627 original size:205 final size:204
Alignment explanation
Indices: 3366257--3366635 Score: 659
Period size: 205 Copynumber: 1.9 Consensus size: 204
3366247 TATAGACCGA
*
3366257 TTTTGTCATTTGTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
1 TTTTGTCATTTGTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTT
* *
3366322 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGACCGGTTTTGTCATTTTTTTACT
66 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGACCGGTTTTGTAATTTTTTTACC
*
3366387 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATTTTCAATATATCCGGTAGCG
131 TGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACATTTTCAATATATCCGGTAGCG
3366452 CTTTACCTG
196 CTTTACCTG
* * *
3366461 TTTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACACT
1 TTTTGTCA-TTTGTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACT
* *
3366526 TTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTAATTTTTTTAC
65 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGACCGGTTTTGTAATTTTTTTAC
*
3366591 CTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACA
130 CTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACA
3366636 CAAACCGATA
Statistics
Matches: 164, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
204 8 0.05
205 156 0.95
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.48
Consensus pattern (204 bp):
TTTTGTCATTTGTTTACATGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACACTT
TCAATATATCCGGTAGCGCTTTACCTGTTTTGTAATTTATAGACCGGTTTTGTAATTTTTTTACC
TGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCGACATTTTCAATATATCCGGTAGCG
CTTTACCTG
Found at i:3368403 original size:19 final size:18
Alignment explanation
Indices: 3368376--3368428 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
3368366 TATAATCTAA
*
3368376 AAATAAAATATAAAAACTT
1 AAATTAAATATAAAAA-TT
*
3368395 AAATTAAAT-TATAGAATT
1 AAATTAAATATA-AAAATT
3368413 ACAATTAAATATAAAA
1 A-AATTAAATATAAAA
3368429 TAATTTGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.18
19 21 0.75
20 2 0.07
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATTAAATATAAAAATT
Found at i:3373650 original size:19 final size:21
Alignment explanation
Indices: 3373626--3373665 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3373616 GTTTACGATA
3373626 ATAATTATA-A-ATTTTTATT
1 ATAATTATAGATATTTTTATT
*
3373645 ATAATTTTAGATATTTTTATT
1 ATAATTATAGATATTTTTATT
3373666 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATAATTATAGATATTTTTATT
Found at i:3374584 original size:149 final size:149
Alignment explanation
Indices: 3374314--3374619 Score: 603
Period size: 149 Copynumber: 2.1 Consensus size: 149
3374304 CTCTGAAAGG
3374314 TCTCTAGAAATCTACTTTGATGCACTGAAATATCTGATGACGATAGCTCCCCACAATCTGCCTCT
1 TCTCTAGAAATCTACTTTGATGCACTGAAATATCTGATGACGATAGCTCCCCACAATCTGCCTCT
3374379 AAGAACCTAAGCATGGAAACACATTCTGAACATTGAGCTTACAAGCTCAGTGCCTTACTAAAAAC
66 AAGAACCTAAGCATGGAAACACATTCTGAACATTGAGCTTACAAGCTCAGTGCCTTACTAAAAAC
3374444 TATATTATACTATATGCAT
131 TATATTATACTATATGCAT
3374463 TCTCTAGAAATCTACTTTGATGCACTGAAATATCTGATGACGATAGCTCCCCACAATCTGCCTCT
1 TCTCTAGAAATCTACTTTGATGCACTGAAATATCTGATGACGATAGCTCCCCACAATCTGCCTCT
3374528 AAGAACCTAAGCATGGAAACACATTCTGAACATTGAGCTTACAAGCTCAGTGCCTTACTAAAAAC
66 AAGAACCTAAGCATGGAAACACATTCTGAACATTGAGCTTACAAGCTCAGTGCCTTACTAAAAAC
3374593 TATATTATACTATATGCAT
131 TATATTATACTATATGCAT
*
3374612 TCACTAGA
1 TCTCTAGA
3374620 TGAAGTGACA
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 156 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (149 bp):
TCTCTAGAAATCTACTTTGATGCACTGAAATATCTGATGACGATAGCTCCCCACAATCTGCCTCT
AAGAACCTAAGCATGGAAACACATTCTGAACATTGAGCTTACAAGCTCAGTGCCTTACTAAAAAC
TATATTATACTATATGCAT
Found at i:3375568 original size:328 final size:328
Alignment explanation
Indices: 3374971--3375609 Score: 1134
Period size: 328 Copynumber: 1.9 Consensus size: 328
3374961 TGAAGGTAAT
3374971 TGATTCTTCTGTTATTAAGTTACGAGAAATTGTTCGGTTTATTGATTTTTCTAATTCTTGACTTT
1 TGATTCTTCTGTTATTAAGTTACGAGAAATTGTTCGGTTTATTGATTTTTCTAATTCTTGACTTT
3375036 GTGCCTTTGAATTATTTGTTAAAGAATGTGGTTCATCTTTTCATGATAAATTATTACTAGATGTT
66 GTGCCTTTGAATTATTTGTTAAAGAATGTGGTTCATCTTTTCATGATAAATTATTACTAGATGTT
* *
3375101 CATAATCGTTAGAATTCTACTTACTTAATGATTCACAGGGCACTTGATGCTAAATTAGCCATTAA
131 CATAATCGTTAGAATTCTACTTACTCAATGATTCACAGGGAACTTGATGCTAAATTAGCCATTAA
* *
3375166 CTTGTTTGTGAATAGGGAAAATGACTTGGATATGATTACTAAATATGAGTGAGAAACTGTTCAAA
196 ATTGTTTGTGAATAGAGAAAATGACTTGGATATGATTACTAAATATGAGTGAGAAACTGTTCAAA
3375231 TAATTTGTGATTTTCTTGAGCTATTTTATGAAATTACTACTTTGTTCACTGTTTAAATAATTTGG
261 TAATTTGTGATTTTCTTGAGCTATTTTATGAAATTACTACTTTGTTCACTGTTTAAATAATTTGG
3375296 ATA
326 ATA
* *
3375299 TGATTCTTCTGTTATTAAGTTACGAGAAATTGTTCGGTTTATTGATTTTTCTGATTCTTGATTTT
1 TGATTCTTCTGTTATTAAGTTACGAGAAATTGTTCGGTTTATTGATTTTTCTAATTCTTGACTTT
* *
3375364 GTGCCTTTGAATTATTTGTTAAAGAATGTGGTTCATCTTTTCATGATAAATTATTATTATATGTT
66 GTGCCTTTGAATTATTTGTTAAAGAATGTGGTTCATCTTTTCATGATAAATTATTACTAGATGTT
* * *
3375429 CATACTCGTTGGAATTCTACTTACTCAATGATTCATAGGGAACTTGATGCTAAATTAGCCATTAA
131 CATAATCGTTAGAATTCTACTTACTCAATGATTCACAGGGAACTTGATGCTAAATTAGCCATTAA
* *
3375494 ATTGTTTGTGAATAGAGAAAATGACTTGGTTATGATTACTAAATATGAGTGGGAAACTGTTCAAA
196 ATTGTTTGTGAATAGAGAAAATGACTTGGATATGATTACTAAATATGAGTGAGAAACTGTTCAAA
* * *
3375559 TAATTTGTGATTTTCTTGAGTTGTTTTGTGAAATTACTACTTTGTTCACTG
261 TAATTTGTGATTTTCTTGAGCTATTTTATGAAATTACTACTTTGTTCACTG
3375610 GATCTAAGTA
Statistics
Matches: 295, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
328 295 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (328 bp):
TGATTCTTCTGTTATTAAGTTACGAGAAATTGTTCGGTTTATTGATTTTTCTAATTCTTGACTTT
GTGCCTTTGAATTATTTGTTAAAGAATGTGGTTCATCTTTTCATGATAAATTATTACTAGATGTT
CATAATCGTTAGAATTCTACTTACTCAATGATTCACAGGGAACTTGATGCTAAATTAGCCATTAA
ATTGTTTGTGAATAGAGAAAATGACTTGGATATGATTACTAAATATGAGTGAGAAACTGTTCAAA
TAATTTGTGATTTTCTTGAGCTATTTTATGAAATTACTACTTTGTTCACTGTTTAAATAATTTGG
ATA
Found at i:3375914 original size:2 final size:2
Alignment explanation
Indices: 3375909--3375970 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
3375899 GAGTTTGTTA
3375909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3375951 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
3375971 TACTCAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3376158 original size:5 final size:5
Alignment explanation
Indices: 3376148--3376174 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3376138 ACAATTCTAA
3376148 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
3376175 TCTTTTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:3379083 original size:64 final size:63
Alignment explanation
Indices: 3379015--3379195 Score: 186
Period size: 64 Copynumber: 2.8 Consensus size: 63
3379005 TTGAAGGTGT
* ** *
3379015 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATTGAATGCAATTCATG
1 ATCGATGCAAAGG-AGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCATG
3379078 C
63 C
* * * **
3379079 ATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAATGAAACATCGAATGCAATTGGTGC
1 ATCGATGCA-AAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
** **
3379143 ATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACTACATCGAAT
1 ATCGATGCA-AAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT
3379196 ACCTTTTAGG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
64 90 0.92
65 8 0.08
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (63 bp):
ATCGATGCAAAGGAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCATGC
Found at i:3379213 original size:64 final size:64
Alignment explanation
Indices: 3379059--3379232 Score: 174
Period size: 64 Copynumber: 2.7 Consensus size: 64
3379049 TAAAATAAAT
* * * * **
3379059 ACATTGAATGCAATTCA-TGCATCGATGCATAAGTAGTGCATCGATACATCCCATTAATAATGAA
1 ACATCGAATCCAATT-AGTGCACCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
* * * * *
3379123 ACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAAT-ACT
1 ACATCGAATCCAATTAGTGCACCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGA-A
** *
3379187 ACATCGAATACCTTTTAG-GCACCGATGCATCAGTAGTGCATCGATG
1 ACATCGAAT-CCAATTAGTGCACCGATGCATAAGTAGTGCATCGATG
3379233 TATACCTTTA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
63 1 0.01
64 88 0.95
65 4 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
ACATCGAATCCAATTAGTGCACCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:3379659 original size:16 final size:16
Alignment explanation
Indices: 3379638--3379722 Score: 54
Period size: 16 Copynumber: 5.4 Consensus size: 16
3379628 TCGAGGGTTT
3379638 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
* **
3379654 ACATATG--AAAAGTTT
1 ACATATGTTTAAAG-GC
3379669 ACATATGTTTAAAGG-
1 ACATATGTTTAAAGGC
* * *
3379684 -CATA-GGTGAACAGTC
1 ACATATGTTTAA-AGGC
3379699 TACATATGTTTAAAGGC
1 -ACATATGTTTAAAGGC
3379716 ACATATG
1 ACATATG
3379723 AACAGTTTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
13 4 0.08
14 10 0.20
15 7 0.14
16 14 0.28
17 11 0.22
18 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:3379672 original size:31 final size:31
Alignment explanation
Indices: 3379634--3379855 Score: 327
Period size: 31 Copynumber: 7.2 Consensus size: 31
3379624 AGAGTCGAGG
*
3379634 GTTTACATATGTTTAAAGGCACATATGAAAA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* **
3379665 GTTTACATATGTTTAAAGGCATAGGTGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
3379696 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
3379727 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* * *
3379758 ATCTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
3379789 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
3379820 GTTTACATATGTTTAAAGGTACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
3379851 GTTTA
1 GTTTA
3379856 TATTGTGACC
Statistics
Matches: 167, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 167 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:3382776 original size:46 final size:46
Alignment explanation
Indices: 3382682--3382801 Score: 113
Period size: 46 Copynumber: 2.6 Consensus size: 46
3382672 TTGAAGGTGT
* * **
3382682 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAAAATAAATAC
1 ATCGATGCA-AAGTAGTGCATCGATGCATCTCCATTAAAATAAATAC
*
3382728 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATGAA-AC
1 ATCGATGCA-AAGTAGTGCATCGATGCATCTCCATTAA-AATAAATAC
* *
3382774 ATCGAATGC-AATTGGTGCATCGATGCAT
1 ATCG-ATGCAAAGTAGTGCATCGATGCAT
3382802 AAGGGGTGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 17 0.27
46 36 0.57
47 10 0.16
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (46 bp):
ATCGATGCAAAGTAGTGCATCGATGCATCTCCATTAAAATAAATAC
Found at i:3382802 original size:64 final size:64
Alignment explanation
Indices: 3382727--3382884 Score: 192
Period size: 64 Copynumber: 2.5 Consensus size: 64
3382717 AAAATAAATA
** * *
3382727 CATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGA-AACATCGAATGCAATTGGTG
1 CATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT-ACAACATCGAATACAATTGATG
** * ** *
3382791 CATCGATGCATAAGGGGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTATG
1 CATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACAACATCGAATACAATTGATG
* *
3382855 CACCGATGCATCAGTAGTGCATCGATGCAT
1 CATCGATGCATAAGTAGTGCATCGATGCAT
3382885 ACCTTCATTA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
63 1 0.01
64 78 0.99
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (64 bp):
CATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATACAACATCGAATACAATTGATG
Found at i:3383321 original size:31 final size:31
Alignment explanation
Indices: 3383283--3383504 Score: 381
Period size: 31 Copynumber: 7.2 Consensus size: 31
3383273 AGAGTCGAGG
3383283 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
3383314 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
3383345 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
3383376 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
3383407 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
**
3383438 GTTTGTATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
3383469 GTTTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
3383500 GTTTA
1 GTTTA
3383505 TATTGTGACC
Statistics
Matches: 178, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 178 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:3386169 original size:32 final size:32
Alignment explanation
Indices: 3386095--3386248 Score: 192
Period size: 32 Copynumber: 4.8 Consensus size: 32
3386085 GAGTCGAGGG
* *
3386095 TTACCGATGTCCTTT-GGGACATATGGACAGATT
1 TTACCTATGT-CTTTCGGGACATATGGACAG-TA
3386128 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
*
3386160 TTACCTATGTCTTTCGGGACATATGGA-AATAA
1 TTACCTATGTCTTTCGGGACATATGGACAGT-A
3386192 TTACCTATGTCTTTCGGGACATATGGACAG--
1 TTACCTATGTCTTTCGGGACATATGGACAGTA
* *
3386222 TTACCTATGT-TCTTAGGAACATATGGA
1 TTACCTATGTCT-TTCGGGACATATGGA
3386249 TAGGTCCTTC
Statistics
Matches: 111, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
29 1 0.01
30 23 0.21
31 2 0.02
32 60 0.54
33 25 0.23
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGTA
Found at i:3386939 original size:12 final size:12
Alignment explanation
Indices: 3386922--3386965 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
3386912 TAGAATTCGA
3386922 TACTGTTCATGG
1 TACTGTTCATGG
3386934 TACTGTTCATGG
1 TACTGTTCATGG
*
3386946 TACTGTTTAT--
1 TACTGTTCATGG
3386956 TACTGTTCAT
1 TACTGTTCAT
3386966 ATAGTACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.30
12 21 0.70
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (12 bp):
TACTGTTCATGG
Found at i:3400088 original size:32 final size:29
Alignment explanation
Indices: 3400026--3400103 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 29
3400016 GCTCTAGTTA
* * * *
3400026 TTTTTAATACTTGTCATTAAGAATTTAAT
1 TTTTTAATATTTATTATTAAGAATTCAAT
*
3400055 TTTTCCTCAATATTTATTATTATGAATTCAAT
1 TTTT--T-AATATTTATTATTAAGAATTCAAT
3400087 TTTTTAATATTTATTAT
1 TTTTTAATATTTATTAT
3400104 GAGGAGTCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 16 0.39
30 1 0.02
31 1 0.02
32 23 0.56
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (29 bp):
TTTTTAATATTTATTATTAAGAATTCAAT
Found at i:3401738 original size:19 final size:20
Alignment explanation
Indices: 3401707--3401744 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
3401697 CTTCAGTTAA
3401707 TACAATATGAATATAATAAT
1 TACAATATGAATATAATAAT
3401727 TACAATAT-AATATAATAA
1 TACAATATGAATATAATAA
3401745 AAAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAATATGAATATAATAAT
Found at i:3409233 original size:14 final size:14
Alignment explanation
Indices: 3409216--3409243 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3409206 ATCATAACAA
3409216 AATTATATAACTAT
1 AATTATATAACTAT
3409230 AATTATATAACTAT
1 AATTATATAACTAT
3409244 TCTTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:3409887 original size:48 final size:48
Alignment explanation
Indices: 3409831--3409923 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
3409821 TTTATTATTT
*
3409831 TCGATAAAA-TTTCCAACAATAACAAAATCAATAGAAAAAATAATAAAA
1 TCGATAAAACGTT-CAACAATAACAAAATCAATAGAAAAAATAATAAAA
* * * *
3409879 TCGATAAAACGTTCAATAATAATAAAATCAATATAAATAATAATA
1 TCGATAAAACGTTCAACAATAACAAAATCAATAGAAAAAATAATA
3409924 TTTTTAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 37 0.95
49 2 0.05
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.25
Consensus pattern (48 bp):
TCGATAAAACGTTCAACAATAACAAAATCAATAGAAAAAATAATAAAA
Found at i:3414140 original size:28 final size:28
Alignment explanation
Indices: 3414100--3414156 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
3414090 CAAGCCAAGG
3414100 AGTGGTAATTTTATCTTGTTCTGCTTAA
1 AGTGGTAATTTTATCTTGTTCTGCTTAA
3414128 AGTGGTAATTTTATCTTGTTCTGCTTAA
1 AGTGGTAATTTTATCTTGTTCTGCTTAA
3414156 A
1 A
3414157 AATTATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.49
Consensus pattern (28 bp):
AGTGGTAATTTTATCTTGTTCTGCTTAA
Found at i:3415033 original size:33 final size:34
Alignment explanation
Indices: 3414979--3415043 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
3414969 GTGGTGTACT
* *
3414979 TTATTGAAAAAGGGTATTATTTTAATCGATAATG
1 TTATTGAAAAAGGGTATTATTTCAACCGATAATG
*
3415013 TTATTGGAAAA-GGTATTATTTCAACCGATAA
1 TTATTGAAAAAGGGTATTATTTCAACCGATAA
3415044 GTTTTCTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (34 bp):
TTATTGAAAAAGGGTATTATTTCAACCGATAATG
Found at i:3416768 original size:22 final size:22
Alignment explanation
Indices: 3416743--3416789 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
3416733 TCTTTAACCA
3416743 ACGAAACTGTTACTTTCTACTG
1 ACGAAACTGTTACTTTCTACTG
3416765 ACGAAACTGTTACTTTCTACTG
1 ACGAAACTGTTACTTTCTACTG
3416787 ACG
1 ACG
3416790 TGTCACGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (22 bp):
ACGAAACTGTTACTTTCTACTG
Found at i:3420181 original size:2 final size:2
Alignment explanation
Indices: 3420174--3420219 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3420164 AGAAAAGGTA
3420174 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3420216 CT CT
1 CT CT
3420220 GTGTGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3424183 original size:39 final size:39
Alignment explanation
Indices: 3424086--3424163 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
3424076 GAATGACGAT
3424086 GACAATGCTGAT-ACTCCCTAGTCATTAGTAACTCTTCC
1 GACAATGCTGATCACTCCCTAGTCATTAGTAACTCTTCC
3424124 GACAATGCTGATCACTCCCTAGTCATTAGTAACTCTTCC
1 GACAATGCTGATCACTCCCTAGTCATTAGTAACTCTTCC
3424163 G
1 G
3424164 TTAAACAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (39 bp):
GACAATGCTGATCACTCCCTAGTCATTAGTAACTCTTCC
Found at i:3432647 original size:45 final size:45
Alignment explanation
Indices: 3432543--3432634 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
3432533 TTTTTTCTCT
* * *
3432543 TTCTCTCAGTTTTATGATCATTACTTTCTCTTTTTGAAAGTTTTC
1 TTCTCTCAATTTTATGATAATTACTTTATCTTTTTGAAAGTTTTC
3432588 TTCTCTCAATTTTATGATAATTACTTTATCTTTTTGAAAGTTTTC
1 TTCTCTCAATTTTATGATAATTACTTTATCTTTTTGAAAGTTTTC
3432633 TT
1 TT
3432635 ACTTGTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.57
Consensus pattern (45 bp):
TTCTCTCAATTTTATGATAATTACTTTATCTTTTTGAAAGTTTTC
Found at i:3434500 original size:14 final size:14
Alignment explanation
Indices: 3434481--3434510 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3434471 ATATATTTGA
3434481 AATAAAGTTATGAT
1 AATAAAGTTATGAT
*
3434495 AATAAATTTATGAT
1 AATAAAGTTATGAT
3434509 AA
1 AA
3434511 CACACTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (14 bp):
AATAAAGTTATGAT
Found at i:3436688 original size:146 final size:146
Alignment explanation
Indices: 3436297--3436688 Score: 572
Period size: 146 Copynumber: 2.7 Consensus size: 146
3436287 TCTGCCGTCA
* * * ** * * *
3436297 TCCACCGTCCGATTGTCTTGATTTTTCAATAGGTTGTTTTTGTTGG-CATCGCACAACTTTTGAC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTC-CGCAACTTTTGAC
* * **
3436361 CGTTCGGAATATTGATCGCAGATTCCGATCACCGGCAAGAGGCTAAAAATCGTCCGGATTTATTT
65 CGTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTT
*
3436426 TCTCCGATCCGTCACCT
130 TCTCCGATCCGTCACCG
3436443 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* * *
3436508 GTTCGGAATATTGATCAAATATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTGTTTT
66 GTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTTT
3436573 CTCCGATCCGTCACCG
131 CTCCGATCCGTCACCG
* *
3436589 TCCATCGTCTGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* *
3436654 GTTCGGAATATTGATCGGAGA-TCCTGATCTCCGGC
66 GTTCGGAATATTGATCGAAGATTCC-GATCACCGGC
3436689 GAGAATCCGG
Statistics
Matches: 222, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
145 3 0.01
146 216 0.97
147 3 0.01
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (146 bp):
TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
GTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTTT
CTCCGATCCGTCACCG
Found at i:3437375 original size:54 final size:54
Alignment explanation
Indices: 3437264--3439054 Score: 2201
Period size: 54 Copynumber: 33.7 Consensus size: 54
3437254 CTGCCTACGA
* * * * * *
3437264 GTTCGCTCCCTCTTGCT-TCAGAGAGTATGGAACTCGAACAATCTTCTGCCAATGG
1 GTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGGAC-ATCTTCTTCAAACGG
* * ** * ***
3437319 GTTCGCTCCCTCTTTCTTTAGGGAGTA-GAAACTCAAACAATCTTCTACCTTCGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGAC-ATCTTCTTCAAACGG
* * *
3437373 GTTCGCTCCCTATTTCTTTAGGGAGTATGGAACTCGGACATCTTCTTCAAATGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * *
3437427 GTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATC-CCTTCAAATGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
** *
3437480 GTTCGCTCCCTCTTTCTCTAGGGAGTATAAAACTC-GA-A-CATCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* **
3437531 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAAC-GG
* *
3437586 GTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATC-TCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * *
3437639 GTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATC-TCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
** * ** * *
3437692 GTTCGCTCATTCTTTCTTTAAAGAGTATGGAACTCGG--AT-ATCTTCACACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * *
3437743 GTTCGCTCCCTCTTTCTCTAGGAAGTATGAAACTCGAAAATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
** *
3437797 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATC-TCTTCAAATGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * * *
3437850 GTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGG--AT-ATCTTCACACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3437901 GTTCGCTCCCTCTTTCTCTTGGAAGTATGGAACTCGGAAATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
*
3437955 GTTCGATCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * ** *
3438009 GTTCGCTCCTTCTTTCT-TCAAGGAGTATGGAACTCATATATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* *
3438063 GTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC-GA-A-CATCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * *
3438114 GTTCACTCTCTCTTTCTCTAGGGAGTATAGAACTC-GA-A-CATCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* **
3438165 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAAC-GG
* *
3438220 GTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATC-TCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * * *
3438273 GTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATC-TCTTCAAATGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * * * *
3438326 GTTCGCTTCTTCTTTCTTTAAGGAGTATGGAACTCGG--AT-ATCTTCACACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * *
3438377 GTTTGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
**
3438431 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATC-TCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * * * * *
3438484 GTTCGCTTCTTCTTTCTTTAAGGAGTATGGAACTC--AGAT-ATCTTCACACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3438535 GTTCGCTCCCTCTTTCTCTAAGAAGTATGGAACTCGGAAATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
3438589 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
3438643 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3438697 GTTCGTTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3438751 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAAATCGTAAATCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* *
3438805 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATTTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3438859 GTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACTG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * * ** * *
3438913 GTTCGCTCCCTCTTTTTTTAAGGAGTATAAAACTCGTACCTCTTCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
* * *
3438967 GTTCGCTCCCTCTTTCT-TCAGGGAGTATGAAACTCGAACA--ATCTTCAAACGG
1 GTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
3439019 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
1 GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCG
3439055 AAAATATTCT
Statistics
Matches: 1529, Mismatches: 176, Indels: 65
0.86 0.10 0.04
Matches are distributed among these distances:
50 1 0.00
51 305 0.20
52 48 0.03
53 311 0.20
54 749 0.49
55 114 0.07
56 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (54 bp):
GTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGG
Found at i:3438513 original size:634 final size:634
Alignment explanation
Indices: 3437264--3439065 Score: 2824
Period size: 634 Copynumber: 2.8 Consensus size: 634
3437254 CTGCCTACGA
* * * * * *
3437264 GTTCGCTCCCTCTTGCT-TCAGAGAGTATGGAACTCGAACAATCTTCTGCCAATGGGTTCGCTCC
1 GTTCGCTCCCTCTTTCTCTAAGA-AGTATGGAACTCGGA-AATCTTCTTCAAACGGGTTCGCTCC
* * ** * *** * *
3437328 CTCTTTCTTTAGGGAGTA-GAAACTCAAACAATCTTCTACCTTCGGGTTCGCTCCCTATTTCTTT
64 CTCTTTCTCTAGGGAGTATGGAACTCGGAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC
*
3437392 AGGGAGTATGGAACTCGGACATCTTCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAG
128 AGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAG
* *
3437457 AACTCGAACATCCCTTCAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAAAACTCGAACATC
193 AACTCGAACAT--CTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATC
3437522 TTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGG
256 TTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGG
3437587 TTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCT
321 TTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCT
*
3437652 TTCTTTAAGGAGTATGGAACTCGGATATCTCTTCAAACGGGTTCGC-TCATTCTTTCTTTAAAGA
386 TTCTTTAAGGAGTATGGAACTCGGATATCTCTTCAAACGGGTTCGCTTC-TTCTTTCTTTAAGGA
*
3437716 GTATGGAACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGAAACTCGAA
450 GTATGGAACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAA
3437781 AATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTCAA
515 AATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTCAA
* *
3437846 ATGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGGATATCTTCACACGG
580 ACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCAGATATCTTCACACGG
** *
3437901 GTTCGCTCCCTCTTTCTCTTGGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGATCCCT
1 GTTCGCTCCCTCTTTCTCTAAGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCTCCCT
* *
3437966 CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCTTCTTTCTTCAAG
66 CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGG
** *
3438031 GAGTATGGAACTCATATATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
131 GAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
* *
3438096 TCGAACATCTTCAAACGGGTTCACTCTCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAA
196 TCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAA
3438161 ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGGTTCAC
261 ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGGTTCAC
3438226 TCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
326 TCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
*
3438291 TAAGGAGTATGGAACTCGGATATCTCTTCAAATGGGTTCGCTTCTTCTTTCTTTAAGGAGTATGG
391 TAAGGAGTATGGAACTCGGATATCTCTTCAAACGGGTTCGCTTCTTCTTTCTTTAAGGAGTATGG
*
3438356 AACTCGGATATCTTCACACGGGTTTGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTT
456 AACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTT
3438421 CTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTCAAACGGGT
521 CTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTCAAACGGGT
*
3438486 TCGCTTCTTCTTTCTTTAAGGAGTATGGAACTCAGATATCTTCACACGG
586 TCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCAGATATCTTCACACGG
3438535 GTTCGCTCCCTCTTTCTCTAAGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCTCCCT
1 GTTCGCTCCCTCTTTCTCTAAGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCTCCCT
3438600 CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTC-TCTAG
66 CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AG
*
3438664 GGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGTTCCCTCTTTCTCTAGGGAGTATAGAA
130 GGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAA
* * *
3438729 CTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAAATCGTAAATCT
195 CTCGAACA---TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCG--AA-CA
* **
3438794 TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATTTTCTTCAAAC-
254 TCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACATCTTCTTCTTACG
* * * * *
3438857 GGGTTCGCTTCCTCTTTCTCTAGGGAGTATAGAACTCGGACATCTTCTTCAAACTGGTTCGCTCC
318 GGGTTCACTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATC-TCTTCAAACGGGTTCGCTCC
* * ** * ** * * *
3438922 CTCTTTTTTTAAGGAGTATAAAACTCGTACCTCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCA
382 TTCTTTCTTTAAGGAGTATGGAACTCGGATATC-TCTTCAAACGGGTTCGCTTCTTCTTTCTTTA
* * * * * *
3438987 GGGAGTATGAAACTCGAACAATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAAC
446 AGGAGTATGGAACTCGGA-TATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAAC
*
3439052 TCGAAAATATTCTT
510 TCGAAAATCTTCTT
3439066 TTGCTTCACT
Statistics
Matches: 1075, Mismatches: 76, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
633 2 0.00
634 607 0.56
635 2 0.00
636 136 0.13
637 81 0.08
638 3 0.00
639 43 0.04
640 104 0.10
641 42 0.04
642 55 0.05
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (634 bp):
GTTCGCTCCCTCTTTCTCTAAGAAGTATGGAACTCGGAAATCTTCTTCAAACGGGTTCGCTCCCT
CTTTCTCTAGGGAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGG
GAGTATGGAACTCGGACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
TCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACATCTTCAA
ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCTTACGGGGTTCAC
TCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
TAAGGAGTATGGAACTCGGATATCTCTTCAAACGGGTTCGCTTCTTCTTTCTTTAAGGAGTATGG
AACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGAAGTATGGAACTCGAAAATCTT
CTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAAACATCTCTTCAAACGGGT
TCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCAGATATCTTCACACGG
Found at i:3439526 original size:36 final size:36
Alignment explanation
Indices: 3439481--3439628 Score: 91
Period size: 36 Copynumber: 4.1 Consensus size: 36
3439471 ATGAAGACAC
* * * * * *
3439481 AAGATGGTTTACTTCATTATTCTTTGGTGCATGCTT
1 AAGACGGTTTACTTCACTACTCTTTAGTGAAGGCTT
*
3439517 AAGACGGTTTGCTTCACTACTCTTTAGTGAAGGCTT
1 AAGACGGTTTACTTCACTACTCTTTAGTGAAGGCTT
* ** * * * *
3439553 AAGATGG-TCGCTTCACTATTATTTGGTGAAGACTT
1 AAGACGGTTTACTTCACTACTCTTTAGTGAAGGCTT
* * * * * **
3439588 CAGATTGATCTACTTCACTCCTCTTCGGTGAAGGCTT
1 AAGA-CGGTTTACTTCACTACTCTTTAGTGAAGGCTT
3439625 AAGA
1 AAGA
3439629 TTGACTTTGC
Statistics
Matches: 86, Mismatches: 24, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
35 26 0.30
36 37 0.43
37 23 0.27
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (36 bp):
AAGACGGTTTACTTCACTACTCTTTAGTGAAGGCTT
Found at i:3440967 original size:125 final size:124
Alignment explanation
Indices: 3440739--3441107 Score: 474
Period size: 125 Copynumber: 3.0 Consensus size: 124
3440729 CACAATATTA
* * * *
3440739 TCTTACACTGGTACGGGCCTTTAAAATGCCCCAACATCTCAAATTGTAAGGCT--TGCTCTCAAT
1 TCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCT-TC-AT
* * * *
3440802 GCCTTCTTGGTCTGAATCTTGTCATCTTC-ACACGATGTGGGTGCAGTCATGCCCCATCAGTG
64 GCCTTATTGGTCTGAATCTTGTCATC-TCAACATGATGTGGGTTCAGTCGTGCCCCAT-AGTG
* * * **
3440864 TCTTATACCGGTATGGGCCTTCAAAAAACCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGC
1 TCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGC
* * * * * *
3440929 CTTTTTGGTTTAAATCTTGTTATCTCAACATGACGTGGGTTCAGTCGTGCCCCAATATTG
66 CTTATTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCC-ATAGTG
*
3440989 TCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCTCAAATTCTAAGGCTCATTCTTCATGC
1 TCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGC
* *
3441054 CTCATTGGTCTGAATCTTGTCATCTCAACCTGATGTGGGTTCAGTCGTGCCCCA
66 CTTATTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCA
3441108 ACATATCCTA
Statistics
Matches: 209, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
124 3 0.01
125 199 0.95
126 4 0.02
127 3 0.01
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (124 bp):
TCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGC
CTTATTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCATAGTG
Found at i:3442375 original size:14 final size:14
Alignment explanation
Indices: 3442356--3442406 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
3442346 TCATTCTCTT
3442356 TTTTTTTATTTTCA
1 TTTTTTTATTTTCA
* *
3442370 TTTTTTCATTTACAA
1 TTTTTTTATTTTC-A
* *
3442385 TTTTTCT-TTTTCT
1 TTTTTTTATTTTCA
3442398 TTTTTTTAT
1 TTTTTTTAT
3442407 CTTTTCTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 6 0.21
14 16 0.57
15 6 0.21
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTATTTTCA
Found at i:3447066 original size:21 final size:23
Alignment explanation
Indices: 3447024--3447066 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
3447014 GACATTTCCA
*
3447024 TAAAAATTATATACATTTTATAAC
1 TAAAAATTATATACA-TATATAAC
3447048 TAAAAA-TATATAC-TATATA
1 TAAAAATTATATACATATATA
3447067 CATAGTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
23 7 0.39
24 6 0.33
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAAATTATATACATATATAAC
Found at i:3448184 original size:146 final size:146
Alignment explanation
Indices: 3447793--3448171 Score: 571
Period size: 146 Copynumber: 2.6 Consensus size: 146
3447783 TCTGCCGTCT
* * ** * * *
3447793 TCCACCGTCCGATTGTCCTGATTTTTCAATAGGTTGTTTTTGTTGG-CATCGCACAACTTTTGAC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTC-CGCAACTTTTGAC
* * **
3447857 CGTTCGGAATATTGATCGCAGATTCCGATCACCGGCAAGAGGCTAAAAATCGTCCGGATTTATTT
65 CGTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTT
3447922 TCTCCAATCCGTCACCG
130 TCTCCAATCCGTCACCG
3447939 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
* * *
3448004 GTTCGGAATATTGATCAAATATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTGTTTT
66 GTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTTT
*
3448069 CTCCGATCCGTCACCG
131 CTCCAATCCGTCACCG
* * *
3448085 TCCATCGTCTGATCGTCCTGATTTTTCTATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
1 TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
*
3448150 GTTCGGAATATTGATCGGAGAT
66 GTTCGGAATATTGATCGAAGAT
3448172 CCTAATCTCC
Statistics
Matches: 211, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
146 208 0.99
147 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (146 bp):
TCCACCGTCCGATCGTCCTGATTTTTCAATATGTTGTTCGTGATGGCCTTCCGCAACTTTTGACC
GTTCGGAATATTGATCGAAGATTCCGATCACCGGCAAGAGGCTAAAAACCACCCGGATTTATTTT
CTCCAATCCGTCACCG
Found at i:3448871 original size:27 final size:26
Alignment explanation
Indices: 3448841--3448891 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
3448831 TCTCTCCCTC
3448841 CATCTTTTAAAACTTATAATTTAATCT
1 CATCTTTTAAAACTTA-AATTTAATCT
*
3448868 CATCTTTTAAAATTTAAATTTAAT
1 CATCTTTTAAAACTTAAATTTAAT
3448892 ATTTAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (26 bp):
CATCTTTTAAAACTTAAATTTAATCT
Found at i:3449063 original size:2 final size:2
Alignment explanation
Indices: 3449051--3449080 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3449041 TTGATTAAAC
3449051 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3449081 GTCTTTTTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3449124 original size:28 final size:28
Alignment explanation
Indices: 3449093--3449147 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
3449083 CTTTTTCGCT
3449093 TATAAAATATTCTAAAAATCATTAAAAA
1 TATAAAATATTCTAAAAATCATTAAAAA
3449121 TATAAAATATTCTAAAAATCATTAAAA
1 TATAAAATATTCTAAAAATCATTAAAA
3449148 TGACTCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (28 bp):
TATAAAATATTCTAAAAATCATTAAAAA
Found at i:3452405 original size:35 final size:37
Alignment explanation
Indices: 3452375--3452447 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
3452365 TTTTTACATT
*
3452375 TTTAA-TTTTATAAA-AAAATATATAAATTTTATGAA
1 TTTAATTTTTATAAAGAAAATATATAAATTTTATCAA
* *
3452410 TTTAATTTTTTTAAAGAAAATATATAAATATTTTTCAA
1 TTTAATTTTTATAAAGAAAATATATAAAT-TTTATCAA
3452448 CTTGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 5 0.16
36 8 0.25
37 13 0.41
38 6 0.19
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (37 bp):
TTTAATTTTTATAAAGAAAATATATAAATTTTATCAA
Found at i:3452624 original size:20 final size:20
Alignment explanation
Indices: 3452599--3452651 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
3452589 TATTCCCTTG
3452599 TAATCTTATATTCTCACTGA
1 TAATCTTATATTCTCACTGA
3452619 TAATCTTATATTCTCACTGA
1 TAATCTTATATTCTCACTGA
3452639 TAATCTTATATTC
1 TAATCTTATATTC
3452652 CGTGAACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (20 bp):
TAATCTTATATTCTCACTGA
Found at i:3457265 original size:215 final size:215
Alignment explanation
Indices: 3457009--3457703 Score: 1216
Period size: 215 Copynumber: 3.2 Consensus size: 215
3456999 ATTTAAGAAT
* *
3457009 TAAATTGAACAAATATGGAATTACAAATAAATATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
3457074 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACC
3457139 CATTTAAAAAGTTATGGGCCAATTATAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGAT
131 CATTTAAAAAGTTATGGGCCAATTATAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGAT
3457204 GCAAATAAAATTTGGAGGAC
196 GCAAATAAAATTTGGAGGAC
* *
3457224 TAAATTGAATAAATATGAAATTACAAATAAAAATTTAAATAAATTAAGCAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
3457289 GGATC-AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATA-AAAAAAGTACTAAATTATAC
* *
3457353 CCATTTAAAAAGTTATGGGCCAATT-TAAAAATAGAAATAAGTAATAAGTATGAGTCAATTTCAG
130 CCATTTAAAAAGTTATGGGCCAATTAT-AAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAG
3457417 ATGCAAATAAAATTTGGAGGAC
194 ATGCAAATAAAATTTGGAGGAC
*
3457439 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACATATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * * *
3457504 GGATCAAATCGAAATAACTTTAAATTGTGATGTTGAAATTAATACAAAAAGTACTAAATTATACA
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACC
*
3457569 CATTTAAAAAGTTATAGGCCAATTA-AAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGAT
131 CATTTAAAAAGTTATGGGCCAATTATAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGAT
*
3457633 GCAAATAAAATTTGAAGGAC
196 GCAAATAAAATTTGGAGGAC
* *
3457653 TAAATTGAATAAATATGAAATTACAAATAAAAATTTAAGTAAATTAAACAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA
3457704 TAAGAAGGGA
Statistics
Matches: 457, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
214 144 0.32
215 277 0.61
216 36 0.08
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (215 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAGTACTAAATTATACC
CATTTAAAAAGTTATGGGCCAATTATAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGAT
GCAAATAAAATTTGGAGGAC
Found at i:3457750 original size:2 final size:2
Alignment explanation
Indices: 3457745--3457932 Score: 110
Period size: 2 Copynumber: 96.5 Consensus size: 2
3457735 AAAACAACTA
* *
3457745 AT AT AT AT AT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * *
3457784 AT A- AG CT AT AT AT AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT
* * *
3457825 AT AA ACT AT AT AT GT AA ACT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* * *
3457869 AT AT AT AT AT AT AT AT A- AA AT -T AT AT AGT TT AT AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
3457909 A- AT TT AT AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3457933 AATTATAAAA
Statistics
Matches: 142, Mismatches: 27, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
1 11 0.08
2 125 0.88
3 6 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3458434 original size:2 final size:2
Alignment explanation
Indices: 3458427--3458493 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
3458417 TATGTTTAAT
3458427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3458469 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3458494 TCAAAGTGAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3458620 original size:19 final size:20
Alignment explanation
Indices: 3458598--3458642 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3458588 TTGAGAATAT
*
3458598 AGGGAAATTGTG-AATTTAG
1 AGGGAAATTGGGAAATTTAG
3458617 AGGGAAATTGGGAAATTTAG
1 AGGGAAATTGGGAAATTTAG
3458637 AGGGAA
1 AGGGAA
3458643 TAGAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (20 bp):
AGGGAAATTGGGAAATTTAG
Found at i:3458774 original size:4 final size:4
Alignment explanation
Indices: 3458765--3462234 Score: 6779
Period size: 4 Copynumber: 873.2 Consensus size: 4
3458755 ATTACTTTTA
3458765 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3458813 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3458861 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3458909 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3458957 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459003 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459051 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459097 ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459143 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459191 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459239 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459285 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459333 ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459379 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459427 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459475 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459523 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459571 ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459615 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459661 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459709 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459757 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459805 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459852 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459900 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459948 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3459996 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460044 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460092 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460140 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460188 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460236 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460284 ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460330 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460378 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460426 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460474 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460522 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460570 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460618 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460666 ATGT ATGT ATGT ATG- ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460713 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460761 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460809 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460857 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460905 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3460953 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461001 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461049 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461097 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461145 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461193 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461241 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461289 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461337 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461385 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461431 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461479 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461527 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461574 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461622 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461670 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461718 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461766 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461814 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461862 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461910 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3461958 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3462006 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3462054 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3462102 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3462150 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3462198 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
3462235 ATATATATAA
Statistics
Matches: 3443, Mismatches: 0, Indels: 46
0.99 0.00 0.01
Matches are distributed among these distances:
2 20 0.01
3 9 0.00
4 3414 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:3462549 original size:2 final size:2
Alignment explanation
Indices: 3462513--3462540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3462503 ACATATAAAC
3462513 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3462541 AACTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3462578 original size:18 final size:19
Alignment explanation
Indices: 3462557--3462592 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3462547 ATAAAGTAAA
3462557 TTAC-TTATATAGTTTATT
1 TTACTTTATATAGTTTATT
3462575 TTACTTTATATAGTTTAT
1 TTACTTTATATAGTTTAT
3462593 AGACACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (19 bp):
TTACTTTATATAGTTTATT
Found at i:3462666 original size:14 final size:14
Alignment explanation
Indices: 3462643--3462687 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
3462633 TAGTTTATAG
* *
3462643 AAACCCTAAATTAT
1 AAACCTTAAATCAT
*
3462657 AAACCTTAAATCCT
1 AAACCTTAAATCAT
*
3462671 AAACTTTAAATCAT
1 AAACCTTAAATCAT
3462685 AAA
1 AAA
3462688 TACTAAACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (14 bp):
AAACCTTAAATCAT
Found at i:3462680 original size:21 final size:22
Alignment explanation
Indices: 3462647--3462695 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
3462637 TTATAGAAAC
*
3462647 CCTAAA-TTATAAACCTTAAAT
1 CCTAAACTTATAAACCATAAAT
*
3462668 CCTAAACTT-TAAATCATAAAT
1 CCTAAACTTATAAACCATAAAT
*
3462689 ACTAAAC
1 CCTAAAC
3462696 CCTAAACCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTAAACTTATAAACCATAAAT
Found at i:3463092 original size:13 final size:13
Alignment explanation
Indices: 3463074--3463128 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
3463064 CCATGTATAG
3463074 TATATATAAACTCTA
1 TATATATAAA--CTA
*
3463089 TATATATAACCTA
1 TATATATAAACTA
3463102 TATATAT--A-TA
1 TATATATAAACTA
3463112 TATATATAAACTA
1 TATATATAAACTA
3463125 TATA
1 TATA
3463129 AAGTAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.26
12 1 0.03
13 16 0.46
15 9 0.26
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:3463589 original size:13 final size:13
Alignment explanation
Indices: 3463557--3463583 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3463547 TAATTTACAT
3463557 TTAAATAATTTTA
1 TTAAATAATTTTA
3463570 TTAAATAATTTTA
1 TTAAATAATTTTA
3463583 T
1 T
3463584 ATAATAGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:3463750 original size:16 final size:16
Alignment explanation
Indices: 3463721--3463763 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
3463711 TTTCGACCAT
3463721 AGTAATATAT-AAGT-C
1 AGTAA-ATATCAAGTCC
3463736 AGGTAAATATCAAGTCC
1 A-GTAAATATCAAGTCC
3463753 AGTAAATATCA
1 AGTAAATATCA
3463764 TATCAGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.20
16 18 0.72
17 2 0.08
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (16 bp):
AGTAAATATCAAGTCC
Found at i:3472364 original size:2 final size:2
Alignment explanation
Indices: 3472357--3472409 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
3472347 AACATGTTTA
3472357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
3472399 AT AT GT AT AT A
1 AT AT AT AT AT A
3472410 AAAGTAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3478193 original size:25 final size:26
Alignment explanation
Indices: 3478154--3478223 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
3478144 GAAAATAGAT
*
3478154 AAAT-AAAAATAAATAAAATTTAGTAA
1 AAATGAAAAATAAATAAAATTT-GAAA
3478180 AAA-GAAAAAT-AATAAAA-TTGAAA
1 AAATGAAAAATAAATAAAATTTGAAA
3478203 AAATTGAAAAATAAATAAAAT
1 AAA-TGAAAAATAAATAAAAT
3478224 AATAAAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 6 0.16
24 2 0.05
25 14 0.37
26 16 0.42
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (26 bp):
AAATGAAAAATAAATAAAATTTGAAA
Found at i:3478222 original size:9 final size:8
Alignment explanation
Indices: 3478210--3478263 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 8
3478200 AAAAAATTGA
3478210 AAAATAAAT
1 AAAAT-AAT
3478219 AAAATAAT
1 AAAATAAT
*
3478227 AAAACAA-
1 AAAATAAT
3478234 AATAATAAT
1 AA-AATAAT
3478243 AATAATAAT
1 AA-AATAAT
3478252 AATAATAAT
1 AA-AATAAT
3478261 AAA
1 AAA
3478264 TAAAAAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
7 2 0.05
8 14 0.34
9 25 0.61
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATAAT
Found at i:3478230 original size:25 final size:25
Alignment explanation
Indices: 3478158--3478268 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
3478148 ATAGATAAAT
*
3478158 AAAAATAAATAAAATTTAGTAAAAAG
1 AAAAATAAATAAAA-TTAATAAAAAG
*
3478184 AAAAAT-AATAAAATTGAA-AAAATTG
1 AAAAATAAATAAAATT-AATAAAA-AG
3478209 AAAAATAAATAAAA-TAAT-AAAA-
1 AAAAATAAATAAAATTAATAAAAAG
* * *
3478231 CAAAAT-AATAATAA-TAATAATAAT
1 AAAAATAAATAA-AATTAATAAAAAG
*
3478255 AATAATAAATAAAA
1 AAAAATAAATAAAA
3478269 AAACAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
21 5 0.07
22 11 0.16
23 3 0.04
24 17 0.24
25 21 0.30
26 13 0.19
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAATAAATAAAATTAATAAAAAG
Found at i:3478240 original size:3 final size:3
Alignment explanation
Indices: 3478216--3478262 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
3478206 TTGAAAAATA
*
3478216 AAT AA- AAT AAT AA- AAC AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3478261 AA
1 AA
3478263 ATAAAAAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:3479378 original size:22 final size:21
Alignment explanation
Indices: 3479353--3479393 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3479343 GACCCTGAAA
*
3479353 AAATAAGTAAATAAATAAAATT
1 AAATAAAT-AATAAATAAAATT
*
3479375 AAATAAATAATAATTAAAA
1 AAATAAATAATAAATAAAA
3479394 ATATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAAATAATAAATAAAATT
Found at i:3479379 original size:14 final size:15
Alignment explanation
Indices: 3479354--3479426 Score: 66
Period size: 14 Copynumber: 5.0 Consensus size: 15
3479344 ACCCTGAAAA
*
3479354 AATAAGTAAATAAAT
1 AATAATTAAATAAAT
3479369 AA-AATTAAATAAAT
1 AATAATTAAATAAAT
3479383 AATAATT-AA-AAAT
1 AATAATTAAATAAAT
*
3479396 ATTAATATAATATATAAT
1 AATAAT-TAA-ATA-AAT
3479414 AATAA--AAATAAAT
1 AATAATTAAATAAAT
3479427 TTTTAAAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
13 12 0.24
14 19 0.39
15 9 0.18
16 1 0.02
17 1 0.02
18 7 0.14
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (15 bp):
AATAATTAAATAAAT
Found at i:3479401 original size:13 final size:13
Alignment explanation
Indices: 3479365--3479424 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
3479355 ATAAGTAAAT
3479365 AAATAA-AATTAAA
1 AAATAATAATT-AA
3479378 TAAATAATAATTAA
1 -AAATAATAATTAA
*
3479392 AAATATTAATATAA
1 AAATAATAAT-TAA
*
3479406 TATATAATAA-TAA
1 -AAATAATAATTAA
3479419 AAATAA
1 AAATAA
3479425 ATTTTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 5 0.13
13 12 0.31
14 11 0.28
15 11 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATAATAATTAA
Found at i:3479570 original size:38 final size:36
Alignment explanation
Indices: 3479468--3479862 Score: 555
Period size: 38 Copynumber: 10.7 Consensus size: 36
3479458 AAAATAATTA
* * * *
3479468 TTTTCAAAACCATATAATATAATATGTTTTCAAAATG
1 TTTTAAAAACTATATATTAT-ATATATTTTCAAAATG
*
3479505 TTTTAAAAACTATATATTATATATATTTTTAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAATG
3479541 TTTTAAAAACTATATATTATATATTTATTTTCAAAATG
1 TTTTAAAAACTATATATTATATA--TATTTTCAAAATG
3479579 TTTTAAAAACTATATATTATATATATTTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATA--TTTTCAAAATG
**
3479617 TTTTAAAAACTATATATTATATA-AGTTTTTGAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
*
3479653 TTTTAAAAACTATATATTATATAAGTATTTTCAAAATA
1 TTTTAAAAACTATATATTATAT-A-TATTTTCAAAATG
*
3479691 TTTTAAAAACTATATATTATATA-AGTTTTCAAAAGG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
3479727 TTTTAAAAACTATATATTATATAAGTATTTTCAAAATG
1 TTTTAAAAACTATATATTATAT-A-TATTTTCAAAATG
*
3479765 TTTTAAAAACTATATATTATATA-AGTTTCAAAATG
1 TTTTAAAAACTATATATTATATATATTTTCAAAATG
3479800 TTTTAAAAACTATATATTATATA-AGTTTTCAAAATG
1 TTTTAAAAACTATATATTATATATA-TTTTCAAAATG
3479836 TTTTAAAAACTATATATATATATATAT
1 TTTTAAAAACTATATAT-TATATATAT
3479863 ATATATATAT
Statistics
Matches: 327, Mismatches: 17, Indels: 28
0.88 0.05 0.08
Matches are distributed among these distances:
35 36 0.11
36 128 0.39
37 29 0.09
38 132 0.40
39 2 0.01
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATATATTTTCAAAATG
Found at i:3479853 original size:2 final size:2
Alignment explanation
Indices: 3479846--3479904 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
3479836 TTTTAAAAAC
3479846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3479888 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
3479905 TTCAAAAACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3479861 original size:74 final size:72
Alignment explanation
Indices: 3479468--3479859 Score: 565
Period size: 74 Copynumber: 5.3 Consensus size: 72
3479458 AAAATAATTA
* * * *
3479468 TTTTCAAAACCATATAATATAATATGTTTTCAAAATGTTTTAAAAACTATATATTATATATA-TT
1 TTTTAAAAACTATATATTAT-ATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATA-AGTT
*
3479532 TTTAAAATG
64 TTCAAAATG
3479541 TTTTAAAAACTATATATTATATATTTA-TTTTCAAAATGTTTTAAAAACTATATATTATATATAT
1 TTTTAAAAACTATATATTATATA---AGTTTTCAAAATGTTTTAAAAACTATATATTATATA-A-
*
3479605 TTTTTCAAAATG
61 GTTTTCAAAATG
**
3479617 TTTTAAAAACTATATATTATATAAGTTTTTGAAATGTTTTAAAAACTATATATTATATAAGTATT
1 TTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAG--TT
*
3479682 TTCAAAATA
64 TTCAAAATG
*
3479691 TTTTAAAAACTATATATTATATAAGTTTTCAAAAGGTTTTAAAAACTATATATTATATAAGTATT
1 TTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAG--TT
3479756 TTCAAAATG
64 TTCAAAATG
3479765 TTTTAAAAACTATATATTATATAAG-TTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTT
1 TTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTT
3479829 CAAAATG
66 CAAAATG
3479836 TTTTAAAAACTATATATATATATA
1 TTTTAAAAACTATATAT-TATATA
3479860 TATATATATA
Statistics
Matches: 296, Mismatches: 14, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
71 28 0.09
72 9 0.03
73 53 0.18
74 173 0.58
76 33 0.11
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (72 bp):
TTTTAAAAACTATATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAGTTTT
CAAAATG
Found at i:3480988 original size:2 final size:2
Alignment explanation
Indices: 3480981--3481011 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3480971 TTTATTTTAT
3480981 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3481012 GTTTGCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3481078 original size:38 final size:36
Alignment explanation
Indices: 3480997--3481334 Score: 172
Period size: 38 Copynumber: 8.8 Consensus size: 36
3480987 TATATATATA
**
3480997 TATATATATATTATAG-TTTGCAAATGATTTTTGAAAAT
1 TATATA-ATA-TATAGTTTTG-AAAACATTTTTGAAAAT
3481035 ATATATAATATATAGTTTTGAAAACAATTTTTGAAAAT
1 -TATATAATATATAGTTTTGAAAAC-ATTTTTGAAAAT
* *
3481073 GTATATATATTATAGAGTTTTTTAAAACA-TTTTGAAAAT
1 -TATATA-A-TATATAG-TTTTGAAAACATTTTTGAAAAT
* * * * *
3481112 TATATAACATATGGTTTTTTAAAAAATATTTTAAAAAT
1 TATATAATATATAG-TTTTGAAAACAT-TTTTGAAAAT
* ** * *
3481150 ATATTAAAAATATATATAATATATAGTTTTTGAAA-ACCTTTTAAAAACT
1 -TA-T----ATA-ATAT-ATA-GT--TTTGA-AAACA-TTTTTGAAAA-T
* *
3481199 TATATAATATGTAGTTTTGAAATCA-TTTTGAAAACT
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAA-T
*
3481235 TATATAATATATAGTTTTAAAAAAACA-TTTTGAAAAT
1 TATATAATATATAGTTTT--GAAAACATTTTTGAAAAT
* *
3481272 ATATATAATATAT-GATTTTTAAAACA-TTTTGAAAAC
1 -TATATAATATATAG-TTTTGAAAACATTTTTGAAAAT
3481308 TATATAATATATAG-TTTGAAAAC-TTTT
1 TATATAATATATAGTTTTGAAAACATTTT
3481335 AAAAAAAGTA
Statistics
Matches: 244, Mismatches: 27, Indels: 61
0.73 0.08 0.18
Matches are distributed among these distances:
34 11 0.05
35 12 0.05
36 58 0.24
37 13 0.05
38 74 0.30
39 19 0.08
40 9 0.04
41 11 0.05
42 4 0.02
43 3 0.01
44 3 0.01
45 3 0.01
46 3 0.01
47 1 0.00
48 16 0.07
49 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAAAT
Found at i:3481129 original size:36 final size:37
Alignment explanation
Indices: 3481025--3481324 Score: 209
Period size: 36 Copynumber: 7.8 Consensus size: 37
3481015 TGCAAATGAT
*
3481025 TTTTGAAAATATATATAATATATAG-TTTTGAAAACAA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAAC-A
* *
3481062 TTTTTGAAAATGTATATATATTATAGAGTTTTTTAAAACA
1 -TTTTGAAAA--TATATATAATATATAGTTTTTTAAAACA
* * *
3481102 TTTTGAAAAT-TATATAACATATGGTTTTTTAAAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTT--AAAACA
* * * *
3481140 TTTTAAAAATATATTAAAAATATATATAATATATAGTTTTTGAAAACC
1 TTTTGAAAATATA-T----ATA-ATAT-ATA-GT--TTTTTAAA-ACA
* * * *
3481188 TTTTAAAAACT-TATATAATATGTAG-TTTTGAAATCA
1 TTTTGAAAA-TATATATAATATATAGTTTTTTAAAACA
**
3481224 TTTTGAAAACT-TATATAATATATAGTTTTAAAAAAACA
1 TTTTGAAAA-TATATATAATATATAGTTTT-TTAAAACA
*
3481262 TTTTGAAAATATATATAATATAT-GATTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
*
3481298 TTTTGAAAA-CTATATAATATATAGTTT
1 TTTTGAAAATATATATAATATATAGTTT
3481325 GAAAACTTTT
Statistics
Matches: 209, Mismatches: 31, Indels: 46
0.73 0.11 0.16
Matches are distributed among these distances:
35 12 0.06
36 58 0.28
37 15 0.07
38 49 0.23
39 11 0.05
40 16 0.08
41 11 0.05
42 4 0.02
43 3 0.01
44 3 0.01
45 3 0.01
46 2 0.01
47 4 0.02
48 12 0.06
49 6 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
Found at i:3481149 original size:11 final size:11
Alignment explanation
Indices: 3481128--3481162 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
3481118 ACATATGGTT
3481128 TTTTAAAAAATA
1 TTTT-AAAAATA
3481140 TTTTAAAAATA
1 TTTTAAAAATA
*
3481151 TATTAAAAATA
1 TTTTAAAAATA
3481162 T
1 T
3481163 ATATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:3481163 original size:11 final size:11
Alignment explanation
Indices: 3481133--3481164 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
3481123 TGGTTTTTTA
*
3481133 AAAAATATTTT
1 AAAAATATATT
3481144 AAAAATATATT
1 AAAAATATATT
3481155 AAAAATATAT
1 AAAAATATAT
3481165 ATAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATATT
Found at i:3481314 original size:73 final size:74
Alignment explanation
Indices: 3481162--3481329 Score: 218
Period size: 74 Copynumber: 2.3 Consensus size: 74
3481152 ATTAAAAATA
** * * *
3481162 TATATAATATATAGTTTT-TGAAAACCTTTTAAAAACTTATATAATATGTAGTTTTGAAATCATT
1 TATATAATATATAGTTTTAAAAAAACATTTTAAAAACTTATATAATATATAGTTTTGAAAACATT
3481226 TTGAAAACT
66 TTGAAAACT
* *
3481235 TATATAATATATAGTTTTAAAAAAACATTTTGAAAA-TATATATAATATAT-GATTTTTAAAACA
1 TATATAATATATAGTTTTAAAAAAACATTTTAAAAACT-TATATAATATATAG-TTTTGAAAACA
3481298 TTTTGAAAAC-
64 TTTTGAAAACT
*
3481308 TATATAATATATAGTTTGAAAA
1 TATATAATATATAGTTTTAAAA
3481330 CTTTTAAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
73 41 0.49
74 43 0.51
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (74 bp):
TATATAATATATAGTTTTAAAAAAACATTTTAAAAACTTATATAATATATAGTTTTGAAAACATT
TTGAAAACT
Found at i:3481357 original size:41 final size:41
Alignment explanation
Indices: 3481308--3481449 Score: 214
Period size: 41 Copynumber: 3.4 Consensus size: 41
3481298 TTTTGAAAAC
3481308 TATATAATATATAGTTTGAAAACTTTTAAAAAAAGTATATA
1 TATATAATATATAGTTTGAAAACTTTTAAAAAAAGTATATA
3481349 TATATAATATATAGTTTGAAAACTTTTAAAAAAAGTATATATA
1 TATATAATATATAGTTTGAAAACTTTTAAAAAAAG--TATATA
* ** *
3481392 TATATAATATATAGTTTGAACACTTTTTTTAAAAA-TTTATA
1 TATATAATATATAGTTTGAAAAC-TTTTAAAAAAAGTATATA
3481433 TATATAATATATAGTTT
1 TATATAATATATAGTTT
3481450 TATTTTTTTG
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
41 57 0.61
43 28 0.30
44 9 0.10
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (41 bp):
TATATAATATATAGTTTGAAAACTTTTAAAAAAAGTATATA
Found at i:3481456 original size:37 final size:39
Alignment explanation
Indices: 3481308--3481470 Score: 134
Period size: 41 Copynumber: 4.0 Consensus size: 39
3481298 TTTTGAAAAC
* **
3481308 TATATAATATATAGTTTGAAAAC-TTTTAAAAAAAGTATATA
1 TATATAATATATAGTTT--ACACTTTTTTTAAAAA-TATATA
* ***
3481349 TATATAATATATAGTTTGAAAACTTTTAAAAAAAGTATATATA
1 TATATAATATATAGTTT--ACACTTTTTTTAAAA--ATATATA
*
3481392 TATATAATATATAGTTTGAACACTTTTTTTAAAAATTTATA
1 TATATAATATATAGTTT--ACACTTTTTTTAAAAATATATA
* *
3481433 TATATAATATATAGTTT-TA-TTTTTTTGAAAATATATA
1 TATATAATATATAGTTTACACTTTTTTTAAAAATATATA
3481470 T
1 T
3481471 TATTATTATT
Statistics
Matches: 110, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
37 17 0.15
38 1 0.01
41 46 0.42
42 9 0.08
43 36 0.33
44 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (39 bp):
TATATAATATATAGTTTACACTTTTTTTAAAAATATATA
Found at i:3481474 original size:3 final size:3
Alignment explanation
Indices: 3481468--3481511 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
3481458 TGAAAATATA
* *
3481468 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TATT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
3481512 TAATTTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:3481510 original size:10 final size:10
Alignment explanation
Indices: 3481497--3481532 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
3481487 ATTATTATTA
*
3481497 TTATTTATTT
1 TTATTTAATT
3481507 TTATTTAATT
1 TTATTTAATT
*
3481517 TAATTTAATT
1 TTATTTAATT
3481527 TTATTT
1 TTATTT
3481533 TTGTCCAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTAATT
Found at i:3482355 original size:30 final size:29
Alignment explanation
Indices: 3482322--3482420 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 29
3482312 TAATTTAACA
3482322 TTTTTTATTTTTTCTTTGATTTATTTAAT
1 TTTTTTATTTTTTCTTTGATTTATTTAAT
* * ** *
3482351 ATTTTTT-CTATTT-TTAAATTTATTTTAT
1 -TTTTTTATTTTTTCTTTGATTTATTTAAT
3482379 TTATTTTATTTTTTCTCTTGATTTATTT-AT
1 TT-TTTTATTTTTTCT-TTGATTTATTTAAT
*
3482409 TTATTTATTTTT
1 TTTTTTATTTTT
3482421 ATGTTTTTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
27 2 0.04
28 16 0.29
29 17 0.31
30 11 0.20
31 9 0.16
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTTTTATTTTTTCTTTGATTTATTTAAT
Found at i:3482364 original size:9 final size:8
Alignment explanation
Indices: 3482350--3482433 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 8
3482340 ATTTATTTAA
3482350 TATTTTTT
1 TATTTTTT
*
3482358 CTATTTTTA
1 -TATTTTTT
*
3482367 AATTTATTT
1 TATTT-TTT
3482376 TATTTATTT
1 TATTT-TTT
3482385 TATTTTTT
1 TATTTTTT
* **
3482393 CTCTTGATT
1 -TATTTTTT
*
3482402 TATTTATT
1 TATTTTTT
3482410 TATTTATTTT
1 TA-TT-TTTT
*
3482420 TATGTTTT
1 TATTTTTT
3482428 TATTTT
1 TATTTT
3482434 CAACTTTTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
8 24 0.41
9 30 0.51
10 5 0.08
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (8 bp):
TATTTTTT
Found at i:3482372 original size:28 final size:26
Alignment explanation
Indices: 3482340--3482391 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
3482330 TTTTTCTTTG
3482340 ATTTATTTAATATTT-TTTCTATTTTTAA
1 ATTTATTT--TATTTATTT-TATTTTTAA
3482368 ATTTATTTTATTTATTTTATTTTT
1 ATTTATTTTATTTATTTTATTTTT
3482392 TCTCTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.52
27 3 0.13
28 8 0.35
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTATTTTATTTATTTTATTTTTAA
Found at i:3482381 original size:4 final size:4
Alignment explanation
Indices: 3482368--3482418 Score: 50
Period size: 4 Copynumber: 12.0 Consensus size: 4
3482358 CTATTTTTAA
*
3482368 ATTT ATTTT ATTT ATTTT ATTT -TTT CTCTT GATTT ATTT ATTT ATTT
1 ATTT A-TTT ATTT A-TTT ATTT ATTT AT-TT -ATTT ATTT ATTT ATTT
3482415 ATTT
1 ATTT
3482419 TTATGTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
3 3 0.07
4 25 0.61
5 12 0.29
6 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:3482392 original size:35 final size:32
Alignment explanation
Indices: 3482340--3482433 Score: 91
Period size: 35 Copynumber: 2.7 Consensus size: 32
3482330 TTTTTCTTTG
3482340 ATTTATTTAATATTTTTTCTATTTTTAAATTTATTTT
1 ATTTATTT--TATTTTTTCTATTTTT--ATTTA-TTT
*
3482377 ATTTATTTTATTTTTTCTCTTGATTTATTTATTT
1 ATTTATTTTATTTTTTCTATT--TTTATTTATTT
*
3482411 ATTTATTTTTATGTTTT-TATTTT
1 ATTTA-TTTTATTTTTTCTATTTT
3482434 CAACTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 2 0.04
34 11 0.22
35 27 0.53
37 11 0.22
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (32 bp):
ATTTATTTTATTTTTTCTATTTTTATTTATTT
Found at i:3483317 original size:5 final size:5
Alignment explanation
Indices: 3483307--3483375 Score: 104
Period size: 5 Copynumber: 13.4 Consensus size: 5
3483297 GACCCGGGAA
3483307 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
3483356 AATAAT AATAAT AACAAT AA
1 AA-AAT AA-AAT AA-AAT AA
3483376 TATATATTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
4 4 0.07
5 41 0.67
6 16 0.26
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:3483367 original size:9 final size:9
Alignment explanation
Indices: 3483309--3483377 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
3483299 CCCGGGAAAA
3483309 AATAA-AAT
1 AATAATAAT
3483317 AA-AATAAAT
1 AATAAT-AAT
3483326 AA-AATAA-
1 AATAATAAT
3483333 AATAA-AAT
1 AATAATAAT
3483341 AA-AATAA-
1 AATAATAAT
3483348 AATAA-AAT
1 AATAATAAT
3483356 AATAATAAT
1 AATAATAAT
*
3483365 AATAACAAT
1 AATAATAAT
3483374 AATA
1 AATA
3483378 TATATTTTCC
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
7 12 0.23
8 17 0.33
9 23 0.44
ACGTcount: A:0.75, C:0.01, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAT
Found at i:3483563 original size:36 final size:35
Alignment explanation
Indices: 3483431--3483731 Score: 282
Period size: 37 Copynumber: 8.1 Consensus size: 35
3483421 CTTTTTTTAA
* *
3483431 AAAAAGTTTTC-AAACTATATATTATATAGTTTTC
1 AAAATGTTTTCAAAACTATATATTATATAATTTTC
*
3483465 AAAATGTTTT-AAAAATCATATATTATATATATTTTC
1 AAAATGTTTTCAAAACT-ATATATTATATA-ATTTTC
* * *
3483501 AAAATACTTCTTTAAAAACTATATATTCTATAAGTTTTC
1 AAAAT--GT-TTTCAAAACTATATATTATATAA-TTTTC
* * *
3483540 AAAATGATTTCAAAACTACATATTATATAAATTTTT
1 AAAATGTTTTCAAAACTATATATTATAT-AATTTTC
*
3483576 AAAAGGTTTTCAAAAGCTATATATTATATATATTTTC
1 AAAATGTTTTCAAAA-CTATATATTATATA-ATTTTC
* * *
3483613 AAAATGTTTTAAAAAAACCATATATTATATCATTTTC
1 AAAATGTTTT--CAAAACTATATATTATATAATTTTC
3483650 AAAATGTTTTCAAAAAACTATATAATATATATACATTTTC
1 AAAATGTTTTC--AAAACTATAT-AT-TATATA-ATTTTC
* *
3483690 AAAAATCATTTTCAAAACTATATATTATATATATATTC
1 -AAAAT-GTTTTCAAAACTATATATTATATA-ATTTTC
3483728 AAAA
1 AAAA
3483732 ATCATTTGCA
Statistics
Matches: 221, Mismatches: 26, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
34 13 0.06
35 12 0.05
36 46 0.21
37 57 0.26
38 27 0.12
39 35 0.16
40 21 0.10
41 5 0.02
42 5 0.02
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (35 bp):
AAAATGTTTTCAAAACTATATATTATATAATTTTC
Found at i:3483563 original size:75 final size:72
Alignment explanation
Indices: 3483442--3483731 Score: 262
Period size: 75 Copynumber: 3.9 Consensus size: 72
3483432 AAAAGTTTTC
* * *
3483442 AAACTATATATTATATA-GTTTTCAAAATGTTTTAAAAATCATATATTATATATATTTTCAAAAT
1 AAACTATATATTATATACATTTTCAAAATGTTTCAAAAAT-ACATATTATATATATTTTCAAAAT
* *
3483506 ACTTCTTTAA
65 -GTT-TTAAA
* * * *
3483516 AAACTATATATTCTATA-AGTTTTCAAAATGATTTCAAAACTACATATTATATAAATTTTTAAAA
1 AAACTATATATTATATACA-TTTTCAAAATG-TTTCAAAAATACATATTATATATATTTTCAAAA
* *
3483580 GGTTTTCAA
64 TGTTTTAAA
* * * *
3483589 AAGCTATATATTATATATATTTTCAAAATGTTTTAAAAAAACCATA-TATTATATCATTTTCAAA
1 AAACTATATATTATATACATTTTCAAAATGTTTCAAAAATA-CATATTA-TATAT-ATTTTCAAA
3483653 ATGTTTTCAAA
63 ATGTTTT-AAA
* * * *
3483664 AAACTATATAATATATATACATTTTCAAAAATCATTTTCAAAACTATATATTATATATATATTCA
1 AAACTATAT-AT-TATATACATTTTC-AAAAT--GTTTCAAAAATACATATTATATATATTTTCA
3483729 AAA
61 AAA
3483732 ATCATTTGCA
Statistics
Matches: 176, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
72 10 0.06
73 38 0.22
74 33 0.19
75 41 0.23
76 10 0.06
77 12 0.07
78 14 0.08
79 8 0.05
80 10 0.06
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (72 bp):
AAACTATATATTATATACATTTTCAAAATGTTTCAAAAATACATATTATATATATTTTCAAAATG
TTTTAAA
Found at i:3488388 original size:26 final size:26
Alignment explanation
Indices: 3488353--3488409 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
3488343 GATAGGAGGA
*
3488353 AAAACCCCATTGGAGGTATGGTCTGG
1 AAAACACCATTGGAGGTATGGTCTGG
3488379 AAAACACCATTGGAGGTATGGTCTGG
1 AAAACACCATTGGAGGTATGGTCTGG
3488405 AAAAC
1 AAAAC
3488410 CTGCTACTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (26 bp):
AAAACACCATTGGAGGTATGGTCTGG
Found at i:3509664 original size:24 final size:24
Alignment explanation
Indices: 3509628--3509674 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
3509618 TCAGAGGAGG
3509628 TACATTAGGATCAGAAGTAATAGC
1 TACATTAGGATCAGAAGTAATAGC
* *
3509652 TACATTAGTATCAGTAGTAATAG
1 TACATTAGGATCAGAAGTAATAG
3509675 TGTTTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (24 bp):
TACATTAGGATCAGAAGTAATAGC
Found at i:3515235 original size:2 final size:2
Alignment explanation
Indices: 3515228--3515264 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3515218 TCTTTGTACC
3515228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3515265 CAGGGTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3516385 original size:20 final size:20
Alignment explanation
Indices: 3516360--3516397 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3516350 TTTGGTTCAC
*
3516360 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
3516380 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
3516398 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:3516400 original size:18 final size:19
Alignment explanation
Indices: 3516360--3516403 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
3516350 TTTGGTTCAC
*
3516360 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
3516380 GGAATAAAAGATTACCA-G
1 GGAATAAAAGATTACCAGG
3516398 GGAATA
1 GGAATA
3516404 GGATTACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:3519979 original size:2 final size:2
Alignment explanation
Indices: 3519972--3520000 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3519962 AACCTTAATA
3519972 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3520001 CTAAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3522183 original size:2 final size:2
Alignment explanation
Indices: 3522178--3522205 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3522168 TAAAAAAAAG
3522178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3522206 TAAGATGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3535367 original size:26 final size:26
Alignment explanation
Indices: 3535331--3535383 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3535321 TGTTCGATTC
* * *
3535331 ATTTGTGTTCACGAATAAGCTCGTTT
1 ATTTATGTTCACAAACAAGCTCGTTT
*
3535357 ATTTATGTTCATAAACAAGCTCGTTT
1 ATTTATGTTCACAAACAAGCTCGTTT
3535383 A
1 A
3535384 ATGGATCGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTTATGTTCACAAACAAGCTCGTTT
Found at i:3536572 original size:2 final size:2
Alignment explanation
Indices: 3536565--3536593 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3536555 AAAGGAATGA
3536565 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3536594 AAATGGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3547256 original size:518 final size:517
Alignment explanation
Indices: 3546274--3547838 Score: 2923
Period size: 518 Copynumber: 3.0 Consensus size: 517
3546264 AATGCTAAAA
*
3546274 ATCCTCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
1 ATCCCCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
3546339 ATCAGCGAACTGTAGATGAGACAACCTAGTAGAATTTTCAGAATTCCCAATAACAAAACCATGAA
66 ATCAGCGAACTGTAGATGAGACAACCTAGTAGAATTTTCAGAATTCCCAATAACAAAACCATGAA
*
3546404 ATAAACCCCTTTCAACTGCTTTAGACAACATCAAGTGTAGCATCTCGCATACAATGTTAAACAGT
131 ATAAACCCCTTTCAACTGCTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAGT
*
3546469 AAAGGAGATAGACTGCAGCCTTGTCTTAGACCTTTGTCCATAGGAAACTCCTCAGAAGGAGACCC
196 AAAGGAGA-AGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCC
*
3546534 ATTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACAAGGACCATCTATATC
260 ATTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATC
3546599 CAAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGA
325 CAAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGA
*
3546664 AAGTCAACTTTTAGAACAACCCCTTGCAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGC
390 AAGTCAACTTTTAGAACAACCCCTTACAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGC
* *
3546729 AATGAAGGAGCAATCCAATAACTGTCTCCCCGAAATAAAAGCAAATTGGGATTGACTAATGAT
455 AATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
* *
3546792 ATCCCCAACACCCTTTTAGCATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAAGTC
1 ATCCCCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
3546857 ATCAGCGAACTGTAGATGAGACAACCTAGTAGAATTTTTCAGAATTCCCAATAACAAAACCATGA
66 ATCAGCGAACTGTAGATGAGACAACCTAGTAGAA-TTTTCAGAATTCCCAATAACAAAACCATGA
*
3546922 AATAAACCCCTTTCAACTACTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAG
130 AATAAACCCCTTTCAACTGCTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAG
3546987 TAAAGGAGAAGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCC
195 TAAAGGAGAAGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCC
3547052 ATTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATC
260 ATTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATC
** *
3547117 CAAAAATCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAAAGTCGTATGCTCTACGA
325 CAAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGA
3547182 AAGTCAACTTTTAGAACAACCCCTTACAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGC
390 AAGTCAACTTTTAGAACAACCCCTTACAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGC
3547247 AATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
455 AATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
3547310 ATCCCCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
1 ATCCCCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
*
3547375 ATCAGCGAACTGTAGACGAGACAACCTAGTAGAATTTTCAGAATTCCCAATAACAAAACCATGAA
66 ATCAGCGAACTGTAGATGAGACAACCTAGTAGAATTTTCAGAATTCCCAATAACAAAACCATGAA
*
3547440 ATAAACCCCTTTCAAATGCTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAGT
131 ATAAACCCCTTTCAACTGCTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAGT
*
3547505 AAAGGAGTTAGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCC
196 AAAGGAG-AAGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCC
*
3547570 ATTAACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATC
260 ATTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATC
*
3547635 CCAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGA
325 CAAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGA
* *
3547700 AAGTCAACTTTTAGAACAACCCCTTACAACCCATGTTTTCTCAAATAATCAATTCCTTCGTTCGC
390 AAGTCAACTTTTAGAACAACCCCTTACAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGC
3547765 AATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
455 AATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
3547828 ATCCCCAACAC
1 ATCCCCAACAC
3547839 AACAACTCAA
Statistics
Matches: 1019, Mismatches: 26, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
517 101 0.10
518 816 0.80
519 102 0.10
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (517 bp):
ATCCCCAACACCCTTTTAACATTCTTGATCTGATTAATAGAGGCTTGGCAAAAGATGATTAGGTC
ATCAGCGAACTGTAGATGAGACAACCTAGTAGAATTTTCAGAATTCCCAATAACAAAACCATGAA
ATAAACCCCTTTCAACTGCTTTAGACAACATCAAGTGTAGCATCTCGCCTACAATGTTAAACAGT
AAAGGAGAAGACTGCAGCCTTGTCTTAGACCTTTGTGCATAGGAAACTCCTCAGAAGGAGACCCA
TTGACAAGTATCGAAATTGAGGCTGTAAACAGACATTGAGTAATCCACGAGGACCATCTATATCC
AAAACCCATCTCTGACATTGCTCTAAATAAAATAGGCCATTCCACAGAGTCGTATGCTCTACGAA
AGTCAACTTTTAGAACAACCCCTTACAACCCCTGTTTTCTCCAATAATCAATTCCTTCGTTCGCA
ATGAAGGAGCAATCCAATAACTGTCTCCCCGGAATAAAAGCAAATTGGGATTGACTGATGAT
Found at i:3572823 original size:161 final size:161
Alignment explanation
Indices: 3572499--3572972 Score: 745
Period size: 161 Copynumber: 3.0 Consensus size: 161
3572489 TCTCTCGTCC
* * *
3572499 TCACATCTAGAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATGAGTTTATTAAGTTGCTC
1 TCACATCTATAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATTAGTTTATTAAGTTGTTC
* * * *
3572564 TATTCTGGTCA-TTAACACTAAAGATCATTTTGGTCTTCTTTGTCTCTAAGGTTTCTAGGCGTTT
66 TATTCTGGTCATTTAACACTAAAGAGCATTTTGGTCATCTTTGTCTATAAGGTCTCTAGGCGTTT
3572628 CATGATTTTATGACAATAATGTTTCTATAGT
131 CATGATTTTATGACAATAATGTTTCTATAGT
3572659 TCACATCTATAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATTAGTTTATTAAGTTGTTC
1 TCACATCTATAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATTAGTTTATTAAGTTGTTC
* *
3572724 TATTTTGGTCATTTAACACTAAAGAGCATTTTGGTCATCATTGTCTATAAGGTCTCTAGGCGTTT
66 TATTCTGGTCATTTAACACTAAAGAGCATTTTGGTCATCTTTGTCTATAAGGTCTCTAGGCGTTT
*
3572789 CATGATTTTATGACAATAATGTTTCTGTAGT
131 CATGATTTTATGACAATAATGTTTCTATAGT
* * * * *
3572820 TCACATTTAGT-ATGTTATGCAAGGGTTTATTAGTCTGTTACATCTGTTAGTTTATTAAATTGTT
1 TCACATCTA-TAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATTAGTTTATTAAGTTGTT
* * * * *
3572884 CTATTCTGGTCATTTAACAATAAATAGCATTTTGGTCATCTTTGTCTTTAAGATCTCTAGACGTT
65 CTATTCTGGTCATTTAACACTAAAGAGCATTTTGGTCATCTTTGTCTATAAGGTCTCTAGGCGTT
3572949 TCATGATTTTATGACAATAATGTT
130 TCATGATTTTATGACAATAATGTT
3572973 AATTGCTTGC
Statistics
Matches: 290, Mismatches: 22, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
160 72 0.25
161 217 0.75
162 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (161 bp):
TCACATCTATAACGTTATGCAAGAGTTTATTAGTCTGTTACATCTATTAGTTTATTAAGTTGTTC
TATTCTGGTCATTTAACACTAAAGAGCATTTTGGTCATCTTTGTCTATAAGGTCTCTAGGCGTTT
CATGATTTTATGACAATAATGTTTCTATAGT
Found at i:3575899 original size:56 final size:55
Alignment explanation
Indices: 3575766--3575898 Score: 169
Period size: 56 Copynumber: 2.4 Consensus size: 55
3575756 GTATACAACC
* * * *
3575766 CTTCTTATTCACCAAAAAAAAATAGCTATAGTAAACACGGTGTGATTACAAACCAT
1 CTTCCTATTCA-CAAAAAAAAATAACTACAGTAAACACGGTGGGATTACAAACCAT
* * *
3575822 CTTCACTATTCACAAAAAAAAATAACTACAGTGAAGACGTTGGGATTAC-AACCAGT
1 CTTC-CTATTCACAAAAAAAAATAACTACAGTAAACACGGTGGGATTACAAACCA-T
3575878 CTTCCTATTCACAAAAAAAAA
1 CTTCCTATTCACAAAAAAAAA
3575899 AATTAATCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 22 0.32
56 40 0.59
57 6 0.09
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (55 bp):
CTTCCTATTCACAAAAAAAAATAACTACAGTAAACACGGTGGGATTACAAACCAT
Found at i:3576549 original size:129 final size:129
Alignment explanation
Indices: 3576289--3576530 Score: 389
Period size: 129 Copynumber: 1.9 Consensus size: 129
3576279 TTTTGTTTTT
* *
3576289 AATTTTTAAATTATATATTATAGTTAATTTGATTGTTGATGATGAATGTTACTAAAATTTTAATA
1 AATTTTTAAATGATATATTATAGTTAATTTGATTGTTGATGA-GAATGTTAATAAAATTTTAATA
3576354 TTATGCATGTAATTTGAGAAGAAGGAAAAAATTGTAAAAGAAGAAGAAGAAGAAAGAGAAGAAAG
65 TTATGCATGTAATTTGAGAAGAAGGAAAAAATTGTAAAAGAAGAAGAAGAAGAAAGAGAAGAAAG
* * *
3576419 AATTTTTAAATGATATATTATATAGTTAGTTTGATTGTTGA-GA-AATTTTAATATAATTTTAAT
1 AATTTTTAAATGATATA-T-TATAGTTAATTTGATTGTTGATGAGAATGTTAATAAAATTTTAAT
*
3576482 ATTATGCATGTAATTTGAGAAGAATGAAAAAATTGTAAAAGAAGAAGAA
64 ATTATGCATGTAATTTGAGAAGAAGGAAAAAATTGTAAAAGAAGAAGAA
3576531 AGAGAATAAG
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
129 65 0.62
130 16 0.15
131 3 0.03
132 20 0.19
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (129 bp):
AATTTTTAAATGATATATTATAGTTAATTTGATTGTTGATGAGAATGTTAATAAAATTTTAATAT
TATGCATGTAATTTGAGAAGAAGGAAAAAATTGTAAAAGAAGAAGAAGAAGAAAGAGAAGAAAG
Found at i:3577685 original size:27 final size:27
Alignment explanation
Indices: 3577653--3577709 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
3577643 AAAAAGTAAT
3577653 TATATTTAAAACAAAACAATATAATAC
1 TATATTTAAAACAAAACAATATAATAC
*
3577680 TATATTTAAAACAAAACAATATACTAC
1 TATATTTAAAACAAAACAATATAATAC
3577707 TAT
1 TAT
3577710 CGTAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (27 bp):
TATATTTAAAACAAAACAATATAATAC
Found at i:3580211 original size:12 final size:12
Alignment explanation
Indices: 3580190--3580258 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 12
3580180 TTATCAATTT
3580190 AATA-TTAATAA
1 AATATTTAATAA
3580201 AATATTTAATAA
1 AATATTTAATAA
*
3580213 CAT-TTTAATTAA
1 AATATTTAA-TAA
*
3580225 AATATTAATTATTAA
1 AATA-T--TTAATAA
3580240 AATATTTAA-AA
1 AATATTTAATAA
*
3580251 TATATTTA
1 AATATTTA
3580259 TTAATATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 18 0.38
12 17 0.36
14 2 0.04
15 7 0.15
16 3 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (12 bp):
AATATTTAATAA
Found at i:3580283 original size:39 final size:40
Alignment explanation
Indices: 3580189--3580285 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
3580179 TTTATCAATT
*
3580189 TAATATTAATAAAATATTTAATAACATTTTAATTAAAATAT
1 TAATA-TAATAAAATATTTAATAACATTTTAATTAAAATAA
* * *
3580230 TAAT-TATTAAAATATTTAA-AATATATTT-ATTAATATAA
1 TAATATAATAAAATATTTAATAACAT-TTTAATTAAAATAA
*
3580268 TAATATAATATAATATTT
1 TAATATAATAAAATATTT
3580286 TTAATAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 16 0.33
39 28 0.58
41 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
TAATATAATAAAATATTTAATAACATTTTAATTAAAATAA
Found at i:3580292 original size:22 final size:21
Alignment explanation
Indices: 3580265--3580305 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
3580255 TTTATTAATA
3580265 TAATAATATAATATAATATTTT
1 TAATAATATAATA-AATATTTT
3580287 TAATAATATAATAAATATT
1 TAATAATATAATAAATATT
3580306 CAATTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATAATATAATAAATATTTT
Found at i:3587752 original size:3 final size:3
Alignment explanation
Indices: 3587744--3587785 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
3587734 TAATTTAATT
3587744 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
3587786 ATTACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3587770 original size:22 final size:21
Alignment explanation
Indices: 3587743--3587785 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
3587733 TTAATTTAAT
3587743 TTTATTATTATTATTATTATTA
1 TTTATTATTATTATTA-TATTA
3587765 TTTATTATTATTATTATATTA
1 TTTATTATTATTATTATATTA
3587786 ATTACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTATTATTATTATATTA
Found at i:3595498 original size:4 final size:4
Alignment explanation
Indices: 3595489--3595526 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
3595479 AGAAAAGTAT
* *
3595489 ATAC ATAC ATAC ACAC ACAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
3595527 CCATGATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAC
Found at i:3596201 original size:105 final size:102
Alignment explanation
Indices: 3596014--3596245 Score: 290
Period size: 105 Copynumber: 2.2 Consensus size: 102
3596004 TGAGAATTTT
** * *
3596014 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
3596079 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
3596119 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCAC-
* *
3596184 TT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
3596221 AAAACAAACTTTGTCTCGCTTGAGA
1 AAAACAAATTTTGTCTCGCTTGAGA
3596246 AAATTTCTCT
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
101 2 0.02
102 24 0.21
103 4 0.04
104 4 0.04
105 77 0.68
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:3596243 original size:36 final size:36
Alignment explanation
Indices: 3596214--3596281 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
3596204 TTGAGATCGT
*
3596214 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGAAAA
1 TTTCTCTAAAAACAAACTTTGTCTCACTTGAGAAAA
* *
3596249 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGA
1 TTTCTCTAAAAACAAACTTTGTCTCACTTGAGA
3596282 CTATATCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (36 bp):
TTTCTCTAAAAACAAACTTTGTCTCACTTGAGAAAA
Found at i:3596592 original size:28 final size:29
Alignment explanation
Indices: 3596561--3596811 Score: 173
Period size: 29 Copynumber: 8.7 Consensus size: 29
3596551 ACAGGTTCTC
*
3596561 TTGAA-AAAAATCTTTGAGTTTGTTCCCT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
3596589 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* *
3596618 TTGAATAAATATCTTTGAG-TTGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* * * **
3596646 TTG-A-AAAAATCTTTGAATCTATTTATT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*** * *
3596673 TT-AA-AACAAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAATAA-AAA--------TCT-TTGAGTTTGTTCCTT
3596710 TTGAA-AAAAATCTTTGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
*
3596738 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
* * *
3596767 TTGAATAAATATCTTTGAG-TCGTTTCTT
1 TTGAATAAAAATCTTTGAGTTTGTTCCTT
3596795 TTG---AAAAATCTTTGAGT
1 TTGAATAAAAATCTTTGAGT
3596812 CTATTTATTT
Statistics
Matches: 180, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
25 12 0.07
26 11 0.06
27 12 0.07
28 44 0.24
29 80 0.44
36 3 0.02
37 14 0.08
38 4 0.02
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (29 bp):
TTGAATAAAAATCTTTGAGTTTGTTCCTT
Found at i:3596741 original size:149 final size:148
Alignment explanation
Indices: 3596542--3596875 Score: 568
Period size: 149 Copynumber: 2.3 Consensus size: 148
3596532 ACGATTTTTG
*
3596542 TCTCTTGAGACAGGTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCCTTTGAATAAAAATCTTGGA
1 TCTCTTGAGACAGATTCTCTTGAAAAAAATCTTTGAGTTTGTTCCCTTTGAATAAAAATCTTGGA
*
3596607 GTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAATCTTTGAATCTATTTAT
66 GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTG-AAAAATCTTTGAATCTATTTAT
3596672 TTTAAAACAAAGTTTTGTC
130 TTTAAAACAAAGTTTTGTC
* *
3596691 TCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGA
1 TCTCTTGAGACAGATTCTCTTGAAAAAAATCTTTGAGTTTGTTCCCTTTGAATAAAAATCTTGGA
*
3596756 GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAATCTTTGAGTCTATTTATT
66 GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAATCTTTGAATCTATTTATT
*
3596821 TTGAAACAAAGTTTTGTC
131 TTAAAACAAAGTTTTGTC
*
3596839 TCTCTTGAGACA-ATT-TCGTG--AAAAATCTTTGAGTTTG
1 TCTCTTGAGACAGATTCTCTTGAAAAAAATCTTTGAGTTTG
3596876 AAACAAAGTT
Statistics
Matches: 178, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
144 17 0.10
146 4 0.02
147 2 0.01
148 51 0.29
149 104 0.58
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (148 bp):
TCTCTTGAGACAGATTCTCTTGAAAAAAATCTTTGAGTTTGTTCCCTTTGAATAAAAATCTTGGA
GTTTGTTCCTTTTGAATAAATATCTTTGAGTCGTTTCTTTTGAAAAATCTTTGAATCTATTTATT
TTAAAACAAAGTTTTGTC
Found at i:3596898 original size:52 final size:53
Alignment explanation
Indices: 3596820--3596924 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
3596810 GTCTATTTAT
3596820 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAG
1 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
*
3596872 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAATCTTTGAG
1 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
3596925 ATTGTTTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 38 0.75
53 13 0.25
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (53 bp):
TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
Found at i:3596948 original size:28 final size:28
Alignment explanation
Indices: 3596911--3597045 Score: 103
Period size: 28 Copynumber: 4.4 Consensus size: 28
3596901 CAATTTTGTG
3596911 AAAAAATCTTTGAGATTGTTTCTTTTGA
1 AAAAAATCTTTGAGATTGTTTCTTTTGA
* *
3596939 AAAAAATCTTTGAGTTTGTTTCTTTGGA
1 AAAAAATCTTTGAGATTGTTTCTTTTGA
* *
3596967 AACAAAATTTTTTCTCTCTTAAGATAGTTTCTTTTGAA
1 AA-AAAA-------TCT-TTGAGATTGTTTCTTTTG-A
3597005 ACAAAAATCTTTGAG-TCTGTTTCTTTTGA
1 A-AAAAATCTTTGAGAT-TGTTTCTTTTGA
3597034 AACAAAAT-TTTG
1 AA-AAAATCTTTG
3597046 TCTCTCTTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 26
0.72 0.07 0.22
Matches are distributed among these distances:
28 33 0.38
29 12 0.14
30 14 0.16
31 3 0.03
36 3 0.03
37 14 0.16
38 6 0.07
39 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (28 bp):
AAAAAATCTTTGAGATTGTTTCTTTTGA
Found at i:3597006 original size:37 final size:36
Alignment explanation
Indices: 3596956--3597077 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 36
3596946 CTTTGAGTTT
*
3596956 GTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA-TTTTTCTCTCTTAAGATA
* * *
3596993 GTTTCTTTTGAAACAAAA-----ATCT-TTGAG-TCT
1 GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGAT-A
3597023 GTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAATTTT-TCTCTCTTAAGATA
*
3597060 ATTTCTTTTGAAACAAAA
1 GTTTCTTTTGAAACAAAA
3597078 ATCTTTGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
29 1 0.01
30 22 0.32
31 3 0.04
36 3 0.04
37 38 0.56
38 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (36 bp):
GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
Found at i:3597019 original size:67 final size:67
Alignment explanation
Indices: 3596923--3597137 Score: 269
Period size: 67 Copynumber: 3.3 Consensus size: 67
3596913 AAAATCTTTG
* * *
3596923 AGATTGTTTCTTTTG-AA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCT
3596986 TA
66 TA
* *
3596988 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCT
3597053 TA
66 TA
* * * *
3597055 AGATAATTTCTTTTGAAACAAAAATCTTTGAATATGTTTCTCTT--AAA-ATGAATTTTGTATCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCT-TTGGAAACA-AAATTTTGTCTCT
*
3597117 CTTG
64 CTTA
**
3597121 AGACCGTTTCTTTTGAA
1 AGATAGTTTCTTTTGAA
3597138 GTAAATCTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
65 15 0.11
66 33 0.25
67 83 0.62
68 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (67 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCT
TA
Found at i:3597397 original size:64 final size:62
Alignment explanation
Indices: 3597318--3597442 Score: 178
Period size: 64 Copynumber: 2.0 Consensus size: 62
3597308 GATGAGATCC
* *
3597318 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGGAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTT-GAAAAA
* * **
3597382 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
3597443 TACCCACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 5 0.09
63 14 0.25
64 36 0.65
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (62 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAA
Found at i:3597736 original size:1 final size:1
Alignment explanation
Indices: 3597730--3597755 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3597720 GACAATGTTT
3597730 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
3597756 TCATTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.