Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 178 of 213
Found at i:53822566 original size:36 final size:38
Alignment explanation
Indices: 53822511--53822582 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
53822501 TGTTATAACA
*
53822511 TTTATATTTTTATGA-TTTTTAAATTTTT-TAATTAGT
1 TTTATAATTTTATGATTTTTTAAATTTTTATAATTAGT
*
53822547 TTTATAATTTTA-GATTTTTTTGAATTTTTATAATTA
1 TTTATAATTTTATGA-TTTTTTAAATTTTTATAATTA
53822583 TAAATTTCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.06
36 11 0.35
37 12 0.39
38 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (38 bp):
TTTATAATTTTATGATTTTTTAAATTTTTATAATTAGT
Found at i:53822581 original size:9 final size:9
Alignment explanation
Indices: 53822482--53822581 Score: 59
Period size: 8 Copynumber: 11.2 Consensus size: 9
53822472 AATTATCATT
53822482 TTTTTATAA
1 TTTTTATAA
*
53822491 -TTTTAAAA
1 TTTTTATAA
53822499 TTTGTTATAA
1 TTT-TTATAA
**
53822509 CATTTAT-A
1 TTTTTATAA
*
53822517 TTTTTATGA
1 TTTTTATAA
53822526 TTTTTA-AA
1 TTTTTATAA
53822534 TTTTT-TAA
1 TTTTTATAA
53822542 TTAGTTTTATAA
1 -T--TTTTATAA
*
53822554 -TTTTA-GA
1 TTTTTATAA
*
53822561 TTTTTTTGAA
1 TTTTTAT-AA
53822571 TTTTTATAA
1 TTTTTATAA
53822580 TT
1 TT
53822582 ATAAATTTCC
Statistics
Matches: 69, Mismatches: 11, Indels: 22
0.68 0.11 0.22
Matches are distributed among these distances:
7 1 0.01
8 30 0.43
9 18 0.26
10 13 0.19
11 4 0.06
12 3 0.04
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:53823724 original size:9 final size:9
Alignment explanation
Indices: 53823707--53823743 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
53823697 TGAGTTTTCG
53823707 AATTCGAAT
1 AATTCGAAT
*
53823716 AACTCGAAT
1 AATTCGAAT
53823725 AATTCGAAT
1 AATTCGAAT
53823734 AATTCGAAT
1 AATTCGAAT
53823743 A
1 A
53823744 TCAAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:53823810 original size:21 final size:21
Alignment explanation
Indices: 53823781--53823821 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53823771 CCTAAACTCC
53823781 CAAACCTTTTTACT-TTTCCCT
1 CAAACC-TTTTACTCTTTCCCT
*
53823802 CAAATCTTTTACTCTTTCCC
1 CAAACCTTTTACTCTTTCCC
53823822 ACCTTTCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (21 bp):
CAAACCTTTTACTCTTTCCCT
Found at i:53823999 original size:30 final size:31
Alignment explanation
Indices: 53823963--53824022 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
53823953 AAACCTTTTA
*
53823963 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
*
53823993 TTTTCCCCCAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
53824023 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:53826170 original size:41 final size:41
Alignment explanation
Indices: 53826097--53826192 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
53826087 TCGGGCTCTG
* *
53826097 TGCCTAGCAGGCTTTATGCCGGTGAATTATATC-AGGCTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGAATCATATCTA-GCTTTA
* ** * *
53826138 TGCCTAGCAGGCTTCGTGTTGGTGTATCATATCTAGCTTTG
1 TGCCTAGCAGGCTTCATGCCGGTGAATCATATCTAGCTTTA
* *
53826179 TGACTAGAAGGCTT
1 TGCCTAGCAGGCTT
53826193 TATGTCGATG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGAATCATATCTAGCTTTA
Found at i:53830833 original size:26 final size:25
Alignment explanation
Indices: 53830800--53830849 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
53830790 TATATATACC
*
53830800 TTATTATAAATATCTTTATATCTTA
1 TTATTATAAATATCTATATATCTTA
* *
53830825 TTATGTATATATATCTATATCTCTT
1 TTAT-TATAAATATCTATATATCTT
53830850 TTTAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATAAATATCTATATATCTTA
Found at i:53830846 original size:24 final size:22
Alignment explanation
Indices: 53830785--53830838 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
53830775 TTTCATATAC
*
53830785 ATATATATATATACCTTATTAT
1 ATATATATATATATCTTATTAT
* * *
53830807 AAATATCTTTATATCTTATTAT
1 ATATATATATATATCTTATTAT
*
53830829 GTATATATAT
1 ATATATATAT
53830839 CTATATCTCT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATATATATATATCTTATTAT
Found at i:53836025 original size:18 final size:18
Alignment explanation
Indices: 53836004--53836038 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
53835994 TCAAAAATAA
53836004 GAGAAAAAAAAAAGAAAG
1 GAGAAAAAAAAAAGAAAG
*
53836022 GAGAAAAAGAAAAGAAA
1 GAGAAAAAAAAAAGAAA
53836039 AAGGAGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
GAGAAAAAAAAAAGAAAG
Found at i:53836041 original size:20 final size:18
Alignment explanation
Indices: 53836004--53836045 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
53835994 TCAAAAATAA
*
53836004 GAGAAAAAAAAAAGAAAG
1 GAGAAAAAAAAAAAAAAG
53836022 GAGAAAAAGAAAAGAAAAAG
1 GAGAAAAA-AAAA-AAAAAG
53836042 GAGA
1 GAGA
53836046 GGTCAAGGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
GAGAAAAAAAAAAAAAAG
Found at i:53836848 original size:15 final size:15
Alignment explanation
Indices: 53836828--53836861 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
53836818 ACTTTGGATC
53836828 AAAAAAATG-AAAAT
1 AAAAAAATGAAAAAT
53836842 AAAAAAATGAAAAAT
1 AAAAAAATGAAAAAT
53836857 AAAAA
1 AAAAA
53836862 TAGAGAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAAAATGAAAAAT
Found at i:53838444 original size:132 final size:132
Alignment explanation
Indices: 53838277--53839501 Score: 2029
Period size: 132 Copynumber: 9.3 Consensus size: 132
53838267 AAGACACAAA
* *
53838277 CCTATCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTTACCCTAAGCAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
53838342 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53838407 GT
131 GT
* * *
53838409 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCATATTCTGTCACCCTAAGTAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
* * * * * *
53838474 AGAGCAGATCAAAAATGGTGAATCTTATCTTCCCAATATAGTGGACAAGCAGATTTAAGACATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53838539 GT
131 GT
* *
53838541 CCTATCACCCTAAGCAGTAGTAGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCGGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
53838606 GGAGCAGATCGAAGATGGTGAATCTTATATTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53838671 GT
131 GT
*
53838673 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTATGCAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
53838738 GGAGCAGATCGAAAATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53838803 GT
131 GT
* * *
53838805 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTATGTAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
53838870 GGAGCAGATCGAAGATTGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53838935 GT
131 GT
* * * * *
53838937 CCTATCACCCTAAGCAGTAGTGGATTAGGTTGAAGATTGCATATTCTATCACCCTATGCAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
53839002 GGAGCAGATCGAAGATGGTAAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53839067 GT
131 GT
* *
53839069 CCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTCTGTCACCCTAAGCAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
* *
53839134 GGAGCAGATCGAAGATGGTGAATCATATCTTCCCACTACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53839199 GT
131 GT
* *
53839201 CCTATCACCCTAAGCAATAGTGGAGTAGGTCGAAGATTGCAGATTTTGTCACCCTAAGCAGTAGT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
*
53839266 GGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
66 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
53839331 GT
131 GT
* * *
53839333 CCTATCACCCTAAGCAGTAGTGGAATAGGTCAAAGATTGTAGATTCTGT-ATCCCTAAGCAGTAG
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCA-CCCTAAGCAGTAG
* ** * *
53839397 TGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATGTAAGCCATT
65 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
*
53839462 AGC
130 AGT
* * *
53839465 CCTATCACCTTAAGCAGTAGTGGAGCAGATCGAAGAT
1 CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGAT
53839502 GGTGAATCTT
Statistics
Matches: 1025, Mismatches: 67, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 1024 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
CCTATCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GT
Found at i:53838618 original size:44 final size:44
Alignment explanation
Indices: 53838281--53839281 Score: 255
Period size: 44 Copynumber: 22.8 Consensus size: 44
53838271 CACAAACCTA
* * *
53838281 TCACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* ** * *
53838325 TTACCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGGTGAATCTTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTC-TG
* * * * * ** * *
53838369 TCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* * * *
53838413 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCATATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * * * ** * *
53838457 TCACCCTAAGTAGTAGTAGAGCAGATC-AAAAATGGTGAATCTTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTC-TG
* * ** * *
53838501 TCTTCCC-AA-TA-TAGTGGACAAGCAGATTTAAGACATT--AG-TCCTA
1 TC-ACCCTAAGCAGTAGTGG---AGCAGATCGAAG--ATTGCAGATTCTG
* * *
53838545 TCACCCTAAGCAGTAGTAGAGTAGGTCGAAGATTGCAGATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* ** *
53838589 TCACCCTAAGCGGTAGTGGAGCAGATCGAAGA-TGGTGAATCT-
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * * * * ** * *
53838631 TATATTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 T-CA--CCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* *
53838677 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * ** * *
53838721 TCACCCTATGCAGTAGTGGAGCAGATCGAA-AATGGTGAATCTTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTC-TG
* * * * * ** * *
53838765 TCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* * *
53838809 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * * * *
53838853 TCACCCTATGTAGTAGTGGAGCAGATCGAAGATTG-TGAATCTTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTC-TG
* * * * * ** * *
53838897 TCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
** * * * *
53838941 TCACCCTAAGCAGTAGTGGATTAGGTTGAAGATTGCATATTCTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* * * * *
53838985 TCACCCTATGCAGTAGTGGAGCAGATCGAAGATGGTA-AATCTTA
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTC-TG
* * * * * ** * *
53839029 TCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TC-ACCCTAA-GCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* * * *
53839073 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTCTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
* *
53839117 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCATATCT-
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT--TGCA-GAT-TCTG
* * * ** * *
53839164 TC-CCACT-A-CAGTGGAGAAGCAGATTTAAGCCATT--AG-TCCTA
1 TCACC-CTAAGCAGTAGTGGAGCAGATCGAAG--ATTGCAGATTCTG
* * * *
53839205 TCACCCTAAGCAATAGTGGAGTAGGTCGAAGATTGCAGATTTTG
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
*
53839249 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGAT
1 TCACCCTAAGCAGTAGTGGAGCAGATCGAAGAT
53839282 GGTGAATCTT
Statistics
Matches: 672, Mismatches: 206, Indels: 158
0.65 0.20 0.15
Matches are distributed among these distances:
40 2 0.00
41 26 0.04
42 9 0.01
43 162 0.24
44 301 0.45
45 129 0.19
46 19 0.03
47 15 0.02
48 9 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCAGATTCTG
Found at i:53839343 original size:220 final size:219
Alignment explanation
Indices: 53839249--53839653 Score: 585
Period size: 220 Copynumber: 1.8 Consensus size: 219
53839239 GCAGATTTTG
53839249 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
* * * *
53839314 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCAAAGATTGTAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTAGAATC
* * * * * *
53839379 TGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAATACAGTGGAG
131 TATATCCCTAAGCAGTAGAGAAGCAGATCAAAGACAGTGAATCCTATCTACCCAAAACAGTGGAG
*
53839444 AAGCATATGTAAGCCATTAGCCCTA
196 AAGCATACGTAAG-CATTAGCCCTA
* *
53839469 TCACCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
1 TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
* * ** *
53839534 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGGTCAAAGATTTTAGATTC
66 GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTAGAATC
* * * * * *
53839599 TGTATCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAA
131 TATATCCCTAAGCAGTAGAGAAGCAGATCAAAGACAGTGAATCCTATCTACCCAA
53839654 GATAGTAGGG
Statistics
Matches: 181, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 181 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (219 bp):
TCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAA
GCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAACAGATCAAAGATGGTAGAATC
TATATCCCTAAGCAGTAGAGAAGCAGATCAAAGACAGTGAATCCTATCTACCCAAAACAGTGGAG
AAGCATACGTAAGCATTAGCCCTA
Found at i:53839589 original size:88 final size:88
Alignment explanation
Indices: 53839384--53839576 Score: 323
Period size: 88 Copynumber: 2.2 Consensus size: 88
53839374 GATTCTGTAT
*
53839384 CCCTAAGCAGTAGTGGAGCAGATCAAAGACAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCA
1 CCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCA
*
53839449 TATGTAAGCCATTAGCCCTATCA
66 GATGTAAGCCATTAGCCCTATCA
* * *
53839472 CCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCA
1 CCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCA
* *
53839537 GATTTAAGCCATTAGTCCTATCA
66 GATGTAAGCCATTAGCCCTATCA
53839560 CCCTAAGCAGTAGTGGA
1 CCCTAAGCAGTAGTGGA
53839577 ATAGGTCAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 97 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (88 bp):
CCCTAAGCAGTAGTGGAGCAGATCAAAGATAGTGAATCTTATCTTCCCAATACAGTGGAGAAGCA
GATGTAAGCCATTAGCCCTATCA
Found at i:53840384 original size:21 final size:20
Alignment explanation
Indices: 53840358--53840396 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53840348 ATGAACTCTA
*
53840358 TTTTCCCTTTTATTTTTTTAT
1 TTTTCCC-TTCATTTTTTTAT
53840379 TTTTCCCTTCATTTTTTT
1 TTTTCCCTTCATTTTTTT
53840397 TCTTCCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCCCTTCATTTTTTTAT
Found at i:53840593 original size:14 final size:14
Alignment explanation
Indices: 53840574--53840601 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
53840564 ACCCAGGGCT
53840574 GGAGTTCAGAAAGG
1 GGAGTTCAGAAAGG
53840588 GGAGTTCAGAAAGG
1 GGAGTTCAGAAAGG
53840602 CTAAAAATAA
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:0.36, C:0.07, G:0.43, T:0.14
Consensus pattern (14 bp):
GGAGTTCAGAAAGG
Found at i:53841327 original size:22 final size:22
Alignment explanation
Indices: 53841297--53841353 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
53841287 TATTTTCATA
53841297 TATATATATATATATACCTTAT
1 TATATATATATATATACCTTAT
* * * *
53841319 TATAAATATCTTTATATCTTAT
1 TATATATATATATATACCTTAT
*
53841341 TATGTATATATAT
1 TATATATATATAT
53841354 CTATATCTCT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATATATATATATACCTTAT
Found at i:53841364 original size:26 final size:25
Alignment explanation
Indices: 53841315--53841364 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
53841305 TATATATACC
*
53841315 TTATTATAAATATCTTTATATCTTA
1 TTATTATAAATATCTATATATCTTA
* *
53841340 TTATGTATATATATCTATATCTCTT
1 TTAT-TATAAATATCTATATATCTT
53841365 TTTAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (25 bp):
TTATTATAAATATCTATATATCTTA
Found at i:53843307 original size:19 final size:19
Alignment explanation
Indices: 53843283--53843336 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
53843273 TTTCAGGATC
53843283 CACACGGGCTGGACACGCT
1 CACACGGGCTGGACACGCT
53843302 CACACGGGCTGGACACGCT
1 CACACGGGCTGGACACGCT
53843321 CACACGGGCTGGACAC
1 CACACGGGCTGGACAC
53843337 ATGCCCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.22, C:0.37, G:0.31, T:0.09
Consensus pattern (19 bp):
CACACGGGCTGGACACGCT
Found at i:53848672 original size:20 final size:20
Alignment explanation
Indices: 53848647--53848686 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
53848637 ACAACATTGA
*
53848647 ATAGTTAATCTTTAGGGATT
1 ATAGTTAATCTTTAGAGATT
* *
53848667 ATAGTTGATTTTTAGAGATT
1 ATAGTTAATCTTTAGAGATT
53848687 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (20 bp):
ATAGTTAATCTTTAGAGATT
Found at i:53849269 original size:20 final size:20
Alignment explanation
Indices: 53849232--53849269 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53849222 ATGCCAAAAG
*
53849232 AAGCCACAAGGAAAAACAAA
1 AAGCCACAAGAAAAAACAAA
53849252 AAGCCACAA-AAAAGAACA
1 AAGCCACAAGAAAA-AACA
53849270 CACACAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.66, C:0.21, G:0.13, T:0.00
Consensus pattern (20 bp):
AAGCCACAAGAAAAAACAAA
Found at i:53850823 original size:21 final size:20
Alignment explanation
Indices: 53850792--53850848 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 20
53850782 TTCTCAATCC
53850792 AATATACATTTCAATATCACAAT
1 AATAT-CATTTCAAT-TCA-AAT
53850815 AAT-TCATTT-AATTCAAAT
1 AATATCATTTCAATTCAAAT
*
53850833 CATATCATTTGCAATT
1 AATATCATTT-CAATT
53850849 TCCATTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.30
20 3 0.10
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (20 bp):
AATATCATTTCAATTCAAAT
Found at i:53852356 original size:16 final size:16
Alignment explanation
Indices: 53852335--53852388 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
53852325 TTTAGTTCGC
53852335 TGTAATGGAATACAGG
1 TGTAATGGAATACAGG
* *
53852351 TGTAATGGAATAGAGC
1 TGTAATGGAATACAGG
*
53852367 TGTAATGGAATATAGG
1 TGTAATGGAATACAGG
*
53852383 CGTAAT
1 TGTAAT
53852389 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.30, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATACAGG
Found at i:53852951 original size:22 final size:23
Alignment explanation
Indices: 53852909--53852951 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
53852899 TATGAATTTA
*
53852909 CTAAAATCATAATATATAATACT
1 CTAAAATCATAATATAAAATACT
*
53852932 CTAAAAT-ATAATTTAAAATA
1 CTAAAATCATAATATAAAATA
53852952 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (23 bp):
CTAAAATCATAATATAAAATACT
Found at i:53852959 original size:119 final size:119
Alignment explanation
Indices: 53852622--53853297 Score: 1196
Period size: 119 Copynumber: 5.7 Consensus size: 119
53852612 TTATTATTAA
* * * *
53852622 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTCTATGAATTTACTGAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATAT
*
53852687 AATACTATAAAAAATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
65 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
53852742 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATAT
53852807 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
65 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
53852862 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
* *
53852927 ATACTCTAAAATATAATTTAAAATAATTATTATTATATATAATTTAAT-AAAAT
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
53852980 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
* *
53853045 ATACTCT-AAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
53853098 ATATAATTTAATAAAATTCTTAATATATTTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
*
53853163 ATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
*
53853217 ATATAATTTAATAAAATTATTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
53853282 ATACTATAAAA-ATAAT
66 ATACTATAAAATATAAT
53853298 ATATAATCTA
Statistics
Matches: 541, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
117 38 0.07
118 157 0.29
119 205 0.38
120 141 0.26
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (119 bp):
ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
Found at i:53853003 original size:17 final size:17
Alignment explanation
Indices: 53852961--53852996 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
53852951 AATTATTATT
53852961 ATATATAATTTAATAAA
1 ATATATAATTTAATAAA
53852978 ATATATAATTTAATAAA
1 ATATATAATTTAATAAA
53852995 AT
1 AT
53852997 TCTTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATAATTTAATAAA
Found at i:53853040 original size:36 final size:35
Alignment explanation
Indices: 53852979--53853160 Score: 121
Period size: 37 Copynumber: 4.8 Consensus size: 35
53852969 TTTAATAAAA
*
53852979 TATATAATTTAATAAAATTCTTAATATAATTATTCT
1 TATATAATTTAATAAAA-TCATAATATAATTATTCT
* * *
53853015 TATATGAATTTACTAAAATCATAATATATAATACTCT
1 TATAT-AATTTAATAAAATCATAATATA-ATTATTCT
* * ***
53853052 AAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAA
1 -TATATAATTT--AATAA-AATCA-T-AATATAA-TT-AT--TCT
* *
53853097 TATATAATTTAATAAAATTCTTAATATATTTATTCT
1 TATATAATTTAATAAAA-TCATAATATAATTATTCT
*
53853133 TATATGAATTTACTAAAATCATAATATA
1 TATAT-AATTTAATAAAATCATAATATA
53853161 TAATACTATA
Statistics
Matches: 111, Mismatches: 21, Indels: 28
0.69 0.13 0.17
Matches are distributed among these distances:
36 28 0.25
37 33 0.30
38 6 0.05
39 6 0.05
40 10 0.09
41 5 0.05
42 13 0.12
43 1 0.01
44 9 0.08
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATATAATTATTCT
Found at i:53853071 original size:31 final size:30
Alignment explanation
Indices: 53853035--53853227 Score: 106
Period size: 26 Copynumber: 6.6 Consensus size: 30
53853025 TACTAAAATC
53853035 ATAATATATAATACTCTAAATATAATTTAA-A
1 ATAATATATAATA-T-TAAATATAATTTAATA
53853066 ATAATA-AT--TATTAAATATAATTTAATA
1 ATAATATATAATATTAAATATAATTTAATA
* *
53853093 AAAATATATAAT-TT-AATAAAATTCT--TA
1 ATAATATATAATATTAAATATAATT-TAATA
* ** * * * ** *
53853120 ATATATTTATTCTTATATGAATTTACTAAAATC
1 ATA-ATATA-TAATAT-TAAATATAATTTAATA
53853153 ATAATATATAATACTATAAAATATAATTTAA-A
1 ATAATATATAATA-T-T-AAATATAATTTAATA
53853185 ATAATA-AT--TATTAAATATAATTTAATA
1 ATAATATATAATATTAAATATAATTTAATA
*
53853212 AAAATATATAAT-TTAA
1 ATAATATATAATATTAA
53853228 TAAAATTATT
Statistics
Matches: 122, Mismatches: 22, Indels: 38
0.67 0.12 0.21
Matches are distributed among these distances:
26 27 0.22
27 18 0.15
28 19 0.16
29 11 0.09
30 5 0.04
31 12 0.10
32 18 0.15
33 12 0.10
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (30 bp):
ATAATATATAATATTAAATATAATTTAATA
Found at i:53853074 original size:13 final size:12
Alignment explanation
Indices: 53853052--53853090 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
53853042 ATAATACTCT
53853052 AAATATAATTTA
1 AAATATAATTTA
*
53853064 AAATAATAATTATT
1 AAAT-ATAATT-TA
53853078 AAATATAATTTA
1 AAATATAATTTA
53853090 A
1 A
53853091 TAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 6 0.26
13 12 0.52
14 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:53853132 original size:236 final size:237
Alignment explanation
Indices: 53852622--53853297 Score: 1192
Period size: 236 Copynumber: 2.8 Consensus size: 237
53852612 TTATTATTAA
* * * *
53852622 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTCTATGAATTTACTGAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATAT
*
53852687 AATACTATAAAAAATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
65 AATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
*
53852752 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
130 ATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTAT-A
*
53852817 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAT
193 AATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
53852862 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
* *
53852927 ATACTCTAAAATATAATTTAAAATAATTATTATTATATATAATTTAAT-AAAATATATAATTTAA
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
*
53852991 TAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTCTAAAT
131 TAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAT
53853056 ATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
196 ATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
*
53853098 ATATAATTTAATAAAATTCTTAATATATTTATTCTTATATGAATTTACTAAAATCATAATATATA
1 ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
*
53853163 ATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAA
66 ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
* *
53853228 TAAAATTATTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA
131 TAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAT
53853293 ATAAT
196 ATAAT
53853298 ATATAATCTA
Statistics
Matches: 418, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
236 154 0.37
237 128 0.31
238 30 0.07
239 82 0.20
240 24 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (237 bp):
ATATAATTTAATAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATA
ATACTATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
TAAAATTCTTAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAT
ATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAT
Found at i:53853193 original size:13 final size:12
Alignment explanation
Indices: 53853169--53853209 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
53853159 TATAATACTA
53853169 TAAAATATAATT
1 TAAAATATAATT
53853181 TAAAATAATAATT
1 TAAAAT-ATAATT
*
53853194 ATTAAATATAATT
1 -TAAAATATAATT
53853207 TAA
1 TAA
53853210 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:53853240 original size:17 final size:18
Alignment explanation
Indices: 53853199--53853245 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
53853189 TAATTATTAA
53853199 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
53853217 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
*
53853235 AT-TAATATAAT
1 ATATAATTTAAT
53853246 TATTCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:53853272 original size:355 final size:357
Alignment explanation
Indices: 53852622--53853297 Score: 1214
Period size: 355 Copynumber: 1.9 Consensus size: 357
53852612 TTATTATTAA
* *
53852622 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTCTATGAATTTACTGAAATCATAATATAT
1 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
53852687 AATACTATAAAAAATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
66 AATACTATAAAAAATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
53852752 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
131 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
* *
53852817 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCT
196 AATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTAT
*
53852882 TAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTCTAAAATATAATTTA
261 TAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAATTTA
53852947 AAATAATTATTATTATATATAATTTAATAAAAT
325 AAATAATTATTATTATATATAATTTAATAAAAT
* *
53852980 ATATAATTTAATAAAATTCTTAATA-TAATTATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
53853044 AATACTCT-AAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
66 AATACTATAAAAAATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
**
53853108 ATAAAATTCTTAATA-TATTTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
131 ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
53853172 AATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTAT
196 AATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTAT
53853237 TAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
261 TAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAAT
53853298 ATATAATCTA
Statistics
Matches: 306, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
354 5 0.02
355 165 0.54
356 69 0.23
357 43 0.14
358 24 0.08
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (357 bp):
ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAAAATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTA
ATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAA
AATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTAT
TAATATAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAAATAATTTAA
AATAATTATTATTATATATAATTTAATAAAAT
Found at i:53853429 original size:19 final size:19
Alignment explanation
Indices: 53853367--53853436 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
53853357 TAGTGAAACA
53853367 AATAATTTAATTATTCTAC
1 AATAATTTAATTATTCTAC
** *
53853386 AATAA-AAAAATA-T-TAGC
1 AATAATTTAATTATTCTA-C
*
53853403 AGTAATTTAATTATTCTAC
1 AATAATTTAATTATTCTAC
53853422 AATAATTTAA-TATTC
1 AATAATTTAATTATTC
53853437 ATATATTAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
16 2 0.05
17 6 0.15
18 13 0.33
19 16 0.41
20 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAATTTAATTATTCTAC
Found at i:53854754 original size:49 final size:50
Alignment explanation
Indices: 53854679--53854783 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 50
53854669 AAAAAAAAAC
* * * *
53854679 AAATTAAAATTAAGTTTAATATCATGAATCAAAATG-TGAACACTTTATA
1 AAATTAAAATTAAGTTCAATAACATGAATCAAAAAGCTCAACACTTTATA
53854728 AAATTAAAATTAAGTTCAATAACATGAATCAAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATAACATGAATCAAAAAGCTCAACACTTTATA
53854778 AAATTA
1 AAATTA
53854784 TAACACATGA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 33 0.65
50 18 0.35
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.31
Consensus pattern (50 bp):
AAATTAAAATTAAGTTCAATAACATGAATCAAAAAGCTCAACACTTTATA
Found at i:53857169 original size:16 final size:16
Alignment explanation
Indices: 53857130--53857163 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
53857120 AATAAATTGG
53857130 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
53857146 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
53857162 AA
1 AA
53857164 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:53858319 original size:21 final size:21
Alignment explanation
Indices: 53858295--53858335 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
53858285 CATAAATAGA
53858295 AAACATCAACTTAATACAGAC
1 AAACATCAACTTAATACAGAC
53858316 AAACATCAACTTAATACAGA
1 AAACATCAACTTAATACAGA
53858336 AACCAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.05, T:0.20
Consensus pattern (21 bp):
AAACATCAACTTAATACAGAC
Found at i:53859314 original size:17 final size:18
Alignment explanation
Indices: 53859292--53859332 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
53859282 AAATAGAGAA
53859292 AAGAAAAGAAACG-TGAG
1 AAGAAAAGAAACGATGAG
53859309 AAGAAAAGAAACGTATGAG
1 AAGAAAAGAAACG-ATGAG
53859328 AAGAA
1 AAGAA
53859333 GAAGCAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 13 0.59
19 9 0.41
ACGTcount: A:0.61, C:0.05, G:0.27, T:0.07
Consensus pattern (18 bp):
AAGAAAAGAAACGATGAG
Found at i:53859774 original size:51 final size:49
Alignment explanation
Indices: 53859707--53859899 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 49
53859697 CAATGATGTT
* *
53859707 CGGTTCACATAGTAGCCTACACATAGTACTACACATGTGAGCATTACCATC
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-CA-TACCATC
* * * *
53859758 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-C-ATACCATC
* * * * * * *
53859809 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTC
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACATACCA-TC
*
53859859 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACATAGTAGCCTACACATAGTACTACACACGTGAC
53859900 CATCACTTTC
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
49 2 0.02
50 40 0.34
51 75 0.64
52 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (49 bp):
CGGTACACATAGTAGCCTACACATAGTACTACACACGTGACATACCATC
Found at i:53859892 original size:101 final size:102
Alignment explanation
Indices: 53859714--53859898 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
53859704 GTTCGGTTCA
* * *
53859714 CATAGTAGCCTACACATAGTACTACACATGTGAGCATTACCATCCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTACACATAGTACTACACATGCGAGCACTACCATCCGATACACATAGTAGCCTACA
53859779 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* * * *
53859816 CATAGTAGCCTGCACATAGTACTACACATGCGA-C-CTATCATTCCGGTACACATAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGAGCACTACCA-TCCGATACACATAGTAGCCTAC
53859879 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
53859899 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 31 0.41
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGAGCACTACCATCCGATACACATAGTAGCCTACA
CATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:53869420 original size:25 final size:25
Alignment explanation
Indices: 53869349--53869420 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
53869339 TACTAGCTGT
* * *
53869349 ATATCGGGAAGCTCTTGCGAGACAA
1 ATATCGGGAAGCTCATGAGAGTCAA
53869374 ATATCGGGAAGCTCATGAGAGTCAA
1 ATATCGGGAAGCTCATGAGAGTCAA
* *
53869399 GTATCGGGAAGCTCAAGAGAGT
1 ATATCGGGAAGCTCATGAGAGT
53869421 TGTGGTGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (25 bp):
ATATCGGGAAGCTCATGAGAGTCAA
Found at i:53875307 original size:103 final size:103
Alignment explanation
Indices: 53875064--53875430 Score: 524
Period size: 103 Copynumber: 3.6 Consensus size: 103
53875054 AACCGTTGTT
* * * *
53875064 GGTGGATTCCGCACTTAGC-ACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGG
* * *
53875128 AATCAGCACTTAGCAACCCCC-TTCACATTTCAGATGC
66 AATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
* ** * **
53875165 GATGGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACC-AATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
53875230 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
* * **
53875269 GGTGGAATCAGCACTTAGCAACCACCAAT-AGGTAGGGGAATTAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACACAGCAACCCCTCGGGG
*
53875333 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
65 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
*
53875372 GGTAGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
53875431 TTATATGCAA
Statistics
Matches: 240, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
101 16 0.07
102 6 0.03
103 179 0.75
104 39 0.16
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (103 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGG
AATCAGCACTTAGCAACCCCCTTTCACATTTAAAATAC
Found at i:53875791 original size:30 final size:29
Alignment explanation
Indices: 53875757--53875821 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
53875747 TAATCCTCCA
53875757 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
53875787 CCCAAACTTTTGCATAATTACATTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
53875817 CCCAA
1 CCCAA
53875822 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:53875795 original size:31 final size:30
Alignment explanation
Indices: 53875764--53875821 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53875754 CCACCCAACT
53875764 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
53875794 TTTTGCATAATTACATTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
53875822 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:53879744 original size:25 final size:25
Alignment explanation
Indices: 53879715--53879785 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
53879705 TACTAGCTGT
* *
53879715 ATATCGGGAAGCTCTTGCGAGACAA
1 ATATCGGGAAGCTCATGAGAGACAA
* *
53879740 ATATCGAGAAGCTCATGAGAGCCAA
1 ATATCGGGAAGCTCATGAGAGACAA
* *
53879765 GTATCGGGAAGCTCAAGAGAG
1 ATATCGGGAAGCTCATGAGAG
53879786 TTGTGGTGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (25 bp):
ATATCGGGAAGCTCATGAGAGACAA
Found at i:53879755 original size:75 final size:75
Alignment explanation
Indices: 53879626--53879767 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 75
53879616 GTACATGCTG
* * * * *
53879626 CTCATACAAGCATGTAACCGGGAAGCTCCTCCGAGCCATATAACGGGAAGCTCATGTGAGCTAAG
1 CTCATACAAGCATGTAACCGGGAAGCTCCTCCGAGACAAATAACGAGAAGCTCATGAGAGCCAAG
53879691 TAAAGGGGAA
66 TAAAGGGGAA
* * * * *
53879701 CTCATACTAGC-TGTATATCGGGAAGCTCTTGCGAGACAAATATCGAGAAGCTCATGAGAGCCAA
1 CTCATACAAGCATGTA-ACCGGGAAGCTCCTCCGAGACAAATAACGAGAAGCTCATGAGAGCCAA
53879765 GTA
65 GTA
53879768 TCGGGAAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 4 0.07
75 52 0.93
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (75 bp):
CTCATACAAGCATGTAACCGGGAAGCTCCTCCGAGACAAATAACGAGAAGCTCATGAGAGCCAAG
TAAAGGGGAA
Found at i:53903421 original size:19 final size:19
Alignment explanation
Indices: 53903363--53903422 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
53903353 TCGGAATTGA
* *
53903363 TTTCTAGAAAATGAATTACT
1 TTTCTGGAAAATGATTTA-T
* * *
53903383 TTTCTGGAATAT-CTAATAT
1 TTTCTGGAAAATGAT-TTAT
53903402 TTTCTGGAAAATGATTTAT
1 TTTCTGGAAAATGATTTAT
53903421 TT
1 TT
53903423 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTCTGGAAAATGATTTAT
Found at i:53907587 original size:17 final size:17
Alignment explanation
Indices: 53907565--53907597 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53907555 AATATCTAAA
*
53907565 ATTTATCAAATTTTATT
1 ATTTATAAAATTTTATT
53907582 ATTTATAAAATTTTAT
1 ATTTATAAAATTTTAT
53907598 AATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATAAAATTTTATT
Found at i:53907605 original size:16 final size:17
Alignment explanation
Indices: 53907567--53907605 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
53907557 TATCTAAAAT
* *
53907567 TTATCAAATTTTATTAT
1 TTATAAAATTTTATTAA
53907584 TTATAAAATTTTA-TAA
1 TTATAAAATTTTATTAA
53907600 TTATAA
1 TTATAA
53907606 TATCTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATAAAATTTTATTAA
Found at i:53908337 original size:6 final size:6
Alignment explanation
Indices: 53908305--53908412 Score: 55
Period size: 6 Copynumber: 18.7 Consensus size: 6
53908295 CACTTCAGCT
* * *
53908305 GAAGGA GAA-GA -AA-GA AAAGGA -AAGGA GAAGGA GAAGAA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* * * * * * * * *
53908349 GAAGAA GAAGAA GAAGAA GAAGAA GGAAGAA AAAGGA AAAAGA -AAAGA
1 GAAGGA GAAGGA GAAGGA GAAGGA -GAAGGA GAAGGA GAAGGA GAAGGA
*
53908397 GAAGGA GAAGAA GAAG
1 GAAGGA GAAGGA GAAG
53908413 AGGGAGGGAA
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
4 4 0.04
5 14 0.15
6 67 0.74
7 6 0.07
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:53908344 original size:3 final size:3
Alignment explanation
Indices: 53908330--53908413 Score: 100
Period size: 3 Copynumber: 28.0 Consensus size: 3
53908320 AAAGGAAAGG
*
53908330 AGA AGG AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA
* * *
53908376 AGA AAA AGGA AAA AGA A-A AG- AGA AGG AGA AGA AGA AGA
1 AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
53908414 GGGAGGGAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.06
3 60 0.87
4 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:53909333 original size:315 final size:317
Alignment explanation
Indices: 53908691--53909542 Score: 1405
Period size: 315 Copynumber: 2.7 Consensus size: 317
53908681 TACAAAAAGA
* ** *
53908691 AATAAAAAAACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAAAGAAAAATACG
1 AATAAAATAA-GAAAATAGTATATTTTTTGAAAGTAATAAAATCC--AAAAATAAGAAAAATACG
*
53908756 AATAAATGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
63 AACAAATGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
53908821 TTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTAAAA
128 TTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTAAAA
53908886 GTAATAAAATCTA-AAAATAAGAAAAATACGAACAAATGGCCAAAATAAGGGGGTTTTACTAAAT
193 GTAATAAAATCTAGAAAATAAG-AAAATA-GAACAAATGGCCAAAATAAGGGGGTTTTACTAAAT
53908950 TTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
256 TTATATAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
53909012 AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAAC
1 AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAAC
53909077 AAATGGCCAAAATAAGGGTTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
66 AAATGGCCAAAATAAGGG-TTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
* *
53909142 TCAAACATTATGTACTAAAATAATATAAAATAATAAAATACAAAAATAGTATA-TTTTTAAAAGT
130 TCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTAAAAGT
* **
53909206 AATAAAAT-TAGAAAATAAGAAAAT-GAACAAA-GAGCCAAAATAATGGTTTTTTACTAAATTTA
195 AATAAAATCTAGAAAATAAGAAAATAGAACAAATG-GCCAAAATAAGGGGGTTTTACTAAATTTA
*
53909268 TATAAAAAACACACTAAATTAATATATTTCAAACATTATGTACTAAAATAATATAAAAT
259 TATAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
* * *
53909327 AATAAAATACA-AAACTAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGGAAAATACGAA
1 AATAAAATA-AGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAA
* *
53909391 CAAAGGGCCAAAATAATGG-TTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
65 CAAATGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
* * *
53909455 TCAAACATTATGTACTAACATAATATGAAATAATAAAATACGAAAATAATATATTTTTTGAAAGT
130 TCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTAAAAGT
53909520 AATAAAATCT-GAAAATAAGAAAA
195 AATAAAATCTAGAAAATAAGAAAA
53909543 ATATATTGAA
Statistics
Matches: 504, Mismatches: 21, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
313 94 0.19
314 32 0.06
315 168 0.33
316 1 0.00
317 7 0.01
318 64 0.13
319 97 0.19
320 32 0.06
321 9 0.02
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.29
Consensus pattern (317 bp):
AATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATACGAAC
AAATGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTT
CAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTA
ATAAAATCTAGAAAATAAGAAAATAGAACAAATGGCCAAAATAAGGGGGTTTTACTAAATTTATA
TAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
Found at i:53909487 original size:159 final size:159
Alignment explanation
Indices: 53908690--53909545 Score: 1354
Period size: 158 Copynumber: 5.4 Consensus size: 159
53908680 ATACAAAAAG
** *
53908690 AAATAA-AAAA-ACGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAAAAGAAAAAT
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCG--AAAATAAGAAAAAT
*
53908753 ACGAATAAATGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAAT
64 ACGAACAAATGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAAACACACTAAATTAAT
53908818 ACATTTCAAACATTATGTACTAAAATAATATA
128 ACATTTCAAACATTATGTACTAAAATAATATA
* * **
53908850 AAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATCTAAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
**
53908915 GAACAAATGGCCAAAATAAGGGGGTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATACA
66 GAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
53908979 TTTCAAACATTATGTACTAAAATAATATA
131 TTTCAAACATTATGTACTAAAATAATATA
* *
53909008 AAATAATAAAATAAGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
53909073 GAACAAATGGCCAAAATAAGGGTTTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATA
66 GAACAAATGGCCAAAATAAGGG--TTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATA
53909138 CATTTCAAACATTATGTACTAAAATAATATA
129 CATTTCAAACATTATGTACTAAAATAATATA
* * **
53909169 AAATAATAAAATACAAAAATAGTATA-TTTTTAAAAGTAATAAAATTAGAAAATAAG-AAAAT--
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
* *
53909230 GAACAAA-GAGCCAAAATAATGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTAATAT
66 GAACAAATG-GCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
53909293 ATTTCAAACATTATGTACTAAAATAATATA
130 ATTTCAAACATTATGTACTAAAATAATATA
*
53909323 AAATAATAAAATAC-AAAACTAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGGAAAATA
1 AAATAATAAAATACGAAAA-TAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATA
* *
53909387 CGAACAAAGGGCCAAAATAATGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
65 CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
* *
53909452 ATTTCAAACATTATGTACTAACATAATATG
130 ATTTCAAACATTATGTACTAAAATAATATA
* *
53909482 AAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATA
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATA
53909546 TATTGAAATT
Statistics
Matches: 649, Mismatches: 33, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
153 4 0.01
154 72 0.11
155 46 0.07
156 6 0.01
157 19 0.03
158 174 0.27
159 128 0.20
160 89 0.14
161 80 0.12
162 31 0.05
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.29
Consensus pattern (159 bp):
AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
GAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
TTTCAAACATTATGTACTAAAATAATATA
Found at i:53914863 original size:76 final size:76
Alignment explanation
Indices: 53914773--53914914 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
53914763 ATAACAGTTT
53914773 ACTAAAAATAATACTAACTAACAATAATAATTAGGG-TTTTACTAAAAATAATAACTAACAATAA
1 ACTAAAAATAATACTAACTAA-AATAATAATTAGGGTTTTTACTAAAAATAATAACTAACAATAA
53914837 TATAGTGTAAAA
65 TATAGTGTAAAA
* * *** *
53914849 ACTAACAATCATACTAACTAAAATAATAATTAGGGTTTTTACTAATCCTAATAACTAACCATAAT
1 ACTAAAAATAATACTAACTAAAATAATAATTAGGGTTTTTACTAAAAATAATAACTAACAATAAT
53914914 A
66 A
53914915 ATACTAGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 14 0.24
76 45 0.76
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (76 bp):
ACTAAAAATAATACTAACTAAAATAATAATTAGGGTTTTTACTAAAAATAATAACTAACAATAAT
ATAGTGTAAAA
Found at i:53915165 original size:33 final size:34
Alignment explanation
Indices: 53915128--53915191 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
53915118 AATACCTTAT
* *
53915128 TTTCTCAATTTTTTTTCT-TCTCTTTCTTTTTCC
1 TTTCTCAATTCTCTTTCTCTCTCTTTCTTTTTCC
* *
53915161 TTTCTCTATTCTCTTTCTCTCTTTTTCTTTT
1 TTTCTCAATTCTCTTTCTCTCTCTTTCTTTT
53915192 CTTTTTCCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (34 bp):
TTTCTCAATTCTCTTTCTCTCTCTTTCTTTTTCC
Found at i:53915192 original size:15 final size:15
Alignment explanation
Indices: 53915139--53915193 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
53915129 TTCTCAATTT
* *
53915139 TTTTTCTTCTCTTTC
1 TTTTTCTTTTCTCTC
*
53915154 TTTTTCCTTTCTCT-
1 TTTTTCTTTTCTCTC
* *
53915168 ATTCTC-TTTCTCTC
1 TTTTTCTTTTCTCTC
53915182 TTTTTCTTTTCT
1 TTTTTCTTTTCT
53915194 TTTTCCGGCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
13 7 0.23
14 8 0.26
15 16 0.52
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTTTTCTCTC
Found at i:53915264 original size:20 final size:20
Alignment explanation
Indices: 53915239--53915289 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
53915229 CTCTTCCTCC
53915239 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTTCT
53915259 TTCTTCTCCTTTCCTTTTCT
1 TTCTTCTCCTTTCCTTTTCT
53915279 TTCTTCTCCTT
1 TTCTTCTCCTT
53915290 CAGCTGAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTTCTCCTTTCCTTTTCT
Found at i:53915378 original size:27 final size:27
Alignment explanation
Indices: 53915330--53915394 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
53915320 GGTCCCAAAG
* * *
53915330 TGGTGCCGCCTGTGGCAGTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
53915357 TGGTGCCGCCTCTGCCACTGGCACCTT
1 TGGTGCCGCCTCTGCCACTGGCACCTT
*
53915384 TGATGCCGCCT
1 TGGTGCCGCCT
53915395 GTGGCAGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.08, C:0.35, G:0.31, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACCTT
Found at i:53916714 original size:13 final size:13
Alignment explanation
Indices: 53916683--53916743 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
53916673 TAATCACTTC
*
53916683 ATATAACTAATTCT
1 ATATAACTCATT-T
*
53916697 ATATAACTGATTT
1 ATATAACTCATTT
53916710 ATATAA-TCATTT
1 ATATAACTCATTT
*
53916722 CACAT-ACTCATTT
1 -ATATAACTCATTT
53916735 ATATAACTC
1 ATATAACTC
53916744 TTTCTGATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 9 0.22
13 20 0.50
14 11 0.28
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (13 bp):
ATATAACTCATTT
Found at i:53916782 original size:13 final size:13
Alignment explanation
Indices: 53916766--53916799 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
53916756 ATCTCATTTT
**
53916766 ACCATTTCGTTTA
1 ACCATTTCGAGTA
53916779 ACCATTTCGAGTA
1 ACCATTTCGAGTA
53916792 ACCATTTC
1 ACCATTTC
53916800 ATTTTACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (13 bp):
ACCATTTCGAGTA
Found at i:53920757 original size:68 final size:70
Alignment explanation
Indices: 53920671--53920841 Score: 197
Period size: 68 Copynumber: 2.5 Consensus size: 70
53920661 CAAAATTTTT
* * * * * *
53920671 ACTATTTTCGTTAAAAAGTTAATTTTAATCTCACATTGAC-TA-AGAATATTCTCATAGCTCACC
1 ACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAACATAGAGAATACTATCATAACTCACC
53920734 TCTTA
66 TCTTA
* *
53920739 ATTATTTTCATTAAAAAGTTAATTTTGATCCCACATTAACTAATAGAGAATACTATCATAACTCA
1 ACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAAC--ATAGAGAATACTATCATAACTCA
* *
53920804 CTTCTTC
64 CCTCTTA
53920811 ACTATTTTCATT--AAAGTTTAATTTTAATCCC
1 ACTATTTTCATTAAAAAG-TTAATTTTAATCCC
53920842 TTAAAAATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
68 35 0.41
70 4 0.05
71 15 0.17
72 32 0.37
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (70 bp):
ACTATTTTCATTAAAAAGTTAATTTTAATCCCACATTAACATAGAGAATACTATCATAACTCACC
TCTTA
Found at i:53921313 original size:15 final size:16
Alignment explanation
Indices: 53921286--53921316 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
53921276 AAATCATTTA
53921286 AACTTATTTATTAAAT
1 AACTTATTTATTAAAT
53921302 AACTTA-TTATTAAAT
1 AACTTATTTATTAAAT
53921317 TCAAAACCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
AACTTATTTATTAAAT
Found at i:53921603 original size:20 final size:22
Alignment explanation
Indices: 53921578--53921623 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
53921568 AAAACAATCC
*
53921578 TTTTAGTCTTT-AATTTAT-TT
1 TTTTAGCCTTTAAATTTATATT
53921598 TTTTAGCCTTTAAATTTATATT
1 TTTTAGCCTTTAAATTTATATT
53921620 TTTT
1 TTTT
53921624 CAAATCACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 7 0.30
22 6 0.26
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTAGCCTTTAAATTTATATT
Found at i:53921711 original size:9 final size:9
Alignment explanation
Indices: 53921699--53921775 Score: 64
Period size: 9 Copynumber: 8.2 Consensus size: 9
53921689 TTTAATTAAT
53921699 TTTTAAAAA
1 TTTTAAAAA
53921708 TTTTTAAAAA
1 -TTTTAAAAA
* **
53921718 ATAAAAAAA
1 TTTTAAAAA
*
53921727 TATTAAAAA
1 TTTTAAAAA
*
53921736 TATTAAAAA
1 TTTTAAAAA
*
53921745 GTATTAAAATA
1 -TTTTAAAA-A
*
53921756 TTTTTAAAA
1 TTTTAAAAA
53921765 TTTTAAAAA
1 TTTTAAAAA
53921774 TT
1 TT
53921776 AATTAAACGT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
9 31 0.56
10 23 0.42
11 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:53921711 original size:10 final size:10
Alignment explanation
Indices: 53921696--53921782 Score: 67
Period size: 10 Copynumber: 9.0 Consensus size: 10
53921686 GTATTTAATT
*
53921696 AATTTTTAAA
1 AATTATTAAA
*
53921706 AATTTTTAAA
1 AATTATTAAA
*
53921716 AA--ATAAAA
1 AATTATTAAA
*
53921724 AAATATTAAA
1 AATTATTAAA
53921734 AA-TATTAAA
1 AATTATTAAA
*
53921743 AAGTATTAAA
1 AATTATTAAA
*
53921753 ATATT-TTTAA
1 A-ATTATTAAA
53921763 AATT-TTAAA
1 AATTATTAAA
53921772 AATTAATTAAA
1 AATT-ATTAAA
53921783 CGTTGACATG
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
8 6 0.09
9 20 0.31
10 32 0.49
11 7 0.11
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (10 bp):
AATTATTAAA
Found at i:53921735 original size:19 final size:19
Alignment explanation
Indices: 53921703--53921753 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
53921693 ATTAATTTTT
* *
53921703 AAAAATTTTTAAAAAATAA
1 AAAAATATTAAAAAAATAA
* *
53921722 AAAAATATTAAAAATATTA
1 AAAAATATTAAAAAAATAA
*
53921741 AAAAGTATTAAAA
1 AAAAATATTAAAA
53921754 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATATTAAAAAAATAA
Found at i:53921781 original size:19 final size:19
Alignment explanation
Indices: 53921722--53921782 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
53921712 TAAAAAATAA
*
53921722 AAAAATATTAAAAA-TATT
1 AAAAGTATTAAAAATTATT
*
53921740 AAAAAGTATTAAAATATTTTT
1 -AAAAGTATTAAAA-ATTATT
*
53921761 AAAA-TTTTAAAAATTAATT
1 AAAAGTATTAAAAATT-ATT
53921780 AAA
1 AAA
53921783 CGTTGACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.09
19 24 0.69
20 5 0.14
21 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAGTATTAAAAATTATT
Found at i:53923493 original size:7 final size:6
Alignment explanation
Indices: 53923463--53923492 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
53923453 GTCATCAAGC
53923463 AAAACG AAAACG AAAACG AAAACAG AAAAC
1 AAAACG AAAACG AAAACG AAAAC-G AAAAC
53923493 AAAGTCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.70, C:0.17, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAACG
Found at i:53925775 original size:370 final size:370
Alignment explanation
Indices: 53924912--53931780 Score: 4617
Period size: 370 Copynumber: 18.1 Consensus size: 370
53924902 GAAGAGAAAA
* * *
53924912 GAAATTGCTAAAATCCTCACTCACCAGAAGAGTAAAC-CTCTCACGAACCACCCTTAGCAAAATC
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGC-CTCACGAACCACCCCTAGCAAAATC
* * *
53924976 ACAACTAATGAAACAAAAAGACCTTCCAAAGATATCAAAACAACCACCCTAAAATGAAACTAACA
65 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* ** * * **
53925041 AATTATACTTACTTGAGGATTTTAATAACACCAATGCAGTTTAAATGATGGCACAATAGAAGATA
130 AATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATA
* * * **
53925106 GGTTGGCAATGAAGAAACAATAGCAAGAGA-TAACAACAGGGGAAAATGATAACAAATGTAAAAG
195 GGTCGGCAATGAAGAAACAATAGCAAGAGACGAA-AACAGGGGAATATGGCAACAAATGTAAAAG
* *
53925170 AAAC-AAAAGAATAATGAAACAGAAATAAAGAAGAAGAAAAAAATAACGTCAGAGGAACAGAAAA
259 AAACGAAAA-AAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAACAGAAAA
** * *
53925234 TAGGTCAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTGGG
321 T-GGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* * * * * **
53925285 GAAATTGCTAAAATCATCACTCTCTAGAAGAGTAAACACCTTATGAACCACCTTTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* ** * * *
53925350 TAACTAACAAAATCAAAAGACCTTCCAAAGATACCAAGACAACCACCCTAAAATGAAACTAATGA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* *
53925415 ATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGCAGATAG
131 ATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATAG
* ** * * * * *
53925480 ATCTACAATGAAGAAATAATATCAAGAGATGAAAACATGGGAGTATGGCAACAAATGTAAAAGAA
196 GTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAGAA
** * * *
53925545 ACGAAATCAAAATGAAA-TGAAAAAAGAAGAAAAAGAAAATAAAGTTAGAGGAACAGAAAGTGGG
261 ACGAAAAAAAAATGAAACAGAAAAAAGAAGAAAAA-AAAATAACGTTAGAGGAACAGAAAATGGG
* *
53925609 AAAAAGAAATGGAAGTAGTGGAAAAAGAGGAACATAAAAAATTTGA
325 AAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* * * * * **
53925655 GAAATTGCTAAAACCCTTACTCACTAGAAAAGTAAACGCCTTACGAACCACCCCTAAAAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * *
53925720 -ACACTAATGAAACCAAAAGTCCTTCCAAAGATAGCAAAACAACCACCCTAAAATGAAACTAACG
66 CA-ACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* * * * * * * * *
53925784 AATTATACATACTTGAAGATTTTAAAAACACCGATGCAGT-TAAAAT-GCTAGCACAACAGAATA
130 AATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCT-AAATGGC-GGCACAATAGAAGA
* ** *
53925847 TAGGTCGGCAATGAAGAAACAATAGCAAGAGGCGTCAACAGGGGAATATGACAACAAATGTAAAA
193 TAGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAA
* *
53925912 GAAACAAAAGAAAAAAAAAT-AGAA-AGAAAAAAGAAG-AAAAAAAATAACATCAGAGGAA-A-A
258 GAAAC----GAAAAAAAAATGA-AACAGAAAAAAGAAGAAAAAAAAATAACGTTAGAGGAACAGA
* *
53925972 AAATAGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGG
318 AAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * * * *
53926026 GAAGTTGCTAAAATCCTCACTCACTAGAAGACTAAATGCCTCACGAACCA-CTCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * * * * *
53926090 CAACTAATGAAAGCAAAAGACCTTCTAAAGATATCAAGTCAACCACCCTAAAACGAAATTAATGA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * *
53926155 ATTATACTTACCT-AATGATTTTAAGAACACCAATGCAGTCTAAATGGTGGCA-AAGTAGAAGAT
131 ATTATACTTACCTGAAT-ATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAA-TAGAAGAT
* * * * * *
53926218 AAGTCGACAATGAAGAAACAATAGAAAGAGACGATAACAGGGGAATATGGAAATAAATGTAAAAG
194 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAG
* * * * *
53926283 AAACGAAAGAAATATAAAACAGAATGGAAGAAGAAGAAAAAAAAATAACATTAGAGGAACTGAAA
259 AAACGAAAAAAAAATGAAACAGAA---AA-AAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAA
*
53926348 ATTGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGTG
320 ATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG-G
* * *
53926400 GAAATTGCTAAAATCCTCACTCGCTAGAAAAGTAAACGTCTCACGAACTACCCCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
*
53926465 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAA-GAAAACTAACT
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAACTAACG
*
53926529 AATTATACTTACCT-AATGATTTTAATAACACCAACACAGTCTAAATGGCGGCACAATAGAAGAT
130 AATTATACTTACCTGAAT-ATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGAT
*** * *
53926593 AGGTCGGCAATGAAGAAACAATAGCAAGAGAC-AACAACAAAAGAATATAGCAACAAATGTAATA
194 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGAA-AACAGGGGAATATGGCAACAAATGTAAAA
** * * * *
53926657 GAAACGAAGGAAAAATGAAACAGAAAGGAAGAAGAAGAAAAAATGACGTTAGAGGAAGA-AAAAT
258 GAAACGAAAAAAAAATGAAACAGAAA-AAAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAAT
* * * * *
53926721 GGGAAAACA-AAATGAAAGTAGTAGAAAGAGAGGAATATAAAAAAATGGG
322 GGGAAAA-AGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* *
53926770 GAAATTG-TAAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCCCTAGCAAAATC
1 GAAATTGCT-AAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATC
*
53926834 ACAACTAATGAAACCAAAAGACCTCCCAAAGATATCAAGACAACCACCCTAAAA-GAAAACTAAC
65 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAACTAAC
* * * * *
53926898 GAATTATACTTACCTGAAGAGTTTAATAACACCAACCCAGTCTACATGGCGGCACAATAGAAAAT
129 GAATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGAT
* * * * * * *
53926963 ATGTCGGTAACGAAAAAACAGTAGCAAGAGACGATAATAGGGGAATATGGCAACAAATGTAAAA-
194 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAG
* * * *
53927027 AAAC-AAAAGAAAATAAAACAAAAAGAAAGAAG-AAAAAAAATAACGTTAGAGGAACAAAAAATG
259 AAACGAAAAAAAAATGAAACAGAAA-AAAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAATG
* *
53927090 GGAAAAGGAAATGAAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGGG
323 GGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * * *
53927139 GAAATT-CTAAAGTCCTTACTCGCTAGAAGAGTAAACGCCTCACGAACCA-ACCTAGAAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * * * *
53927202 CAACTAATGAAACCAAAAGACATTCCAAAGATATTAAGATAACCACCCTAAAATTAAACTAGCGA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * * * **
53927267 ATTATACTTACCTGAATATTTTAATAGCACCAACGTAGTCTAAATGGCGACAGAACAGAAGGCAG
131 ATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATAG
* * * * * * *
53927332 GTTGGCAATGAAGCAACAATAGTAAGAGACGACAATAGGGGAATATGGTAAAAAATGTAAAAGAA
196 GTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAGAA
* * * * * *
53927397 ACGAAAGAAAAATAAAACAGAAAGGAAGAAGAAGAAGAAGATAACGTTAGAGGAACATAAAATGG
261 ACGAAAAAAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAACAGAAAATGG
* *
53927462 TAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGG
324 GAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* *
53927510 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAATGCCTCACGAACCACCCCTAGCAAAATTA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
** * * *
53927575 CAACTAATGAAAGGAAAAAACCTTCCAAAGATATTAAGACAACCACCCTAAAA-GAATATTAACG
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAA-ACTAACG
* *
53927639 AATTATACTTACCT-AATAATTTTAAGAACACCAACACAGTCTAAATGGTC-GCACAATAGAAGA
130 AATTATACTTACCTGAAT-ATTTTAATAACACCAACGCAGTCTAAATGG-CGGCACAATAGAAGA
* * * * * * ** * ** * **
53927702 TA--TCAAGACAACCACCCTAAAAGAAA-ACTAACGAATTATAC-TTACCAGAAGATTTTAATAA
193 TAGGTC--GGC-A--A---T-GAAGAAACAATAGC-AA-GAGACGAAAACAGGGGA--AT-ATGG
* * * ** * *
53927763 CACCAATGCAGTCTAAATAGCAGCAC-AACAGAAGATAGGTCGGTAACGAAGAAGCAATAGCAAG
244 CAACAA---A-TGTAAA-AG-A-AACGAA-A-AA-A-AAAT--GAAAC--AGAA--AAAAG-AAG
* * ** * * * *** ** **
53927827 AAACGACAACAGGA-GAATATG-GCAACAAATGTAAAA--GAAACGAAAGAAAACAAAACAGAAA
291 AAA--AAAAAATAACG-TTA-GAGGAAC--A-G-AAAATGGGAA--AAAGAAATGGAAGTAG-TG
* * * * * *
53927888 GAAAGAAAAAGAAGA-AAATAACGTTAGA
345 GAAAG-AGAGGAACATAAA-AA-ATTTGG
* *** * * * * * * ** *
53927916 GAAACTGAAACTGGGAAAAAGAAATGGAATTAG-TGGAAAGAG-AGGAA--CATAAAAAATTTGG
1 GAAATTG---CT----AAAA-TCCT--CACTCGCTAG-AAGAGTA--AACGCCTCACGAA----C
* *** * * ** * ** *** * *
53927977 GA-AAATTGCTAAAATC-CTAACTCATTAGAAAAGTAAACG-CC-TCACGAATCACCCCTAGCAA
49 CACCCCTAGC-AAAATCAC-AACT-AAT-G-AAACCAAAAGACCTTC-C-AAAGATATCAAG-AC
* * * * * ** * *
53928038 AATCAACACT--AATGAAACCAA--AA-GA-CCTT-CC--AA-A-GAT-ATCAAGA-CAAC-CAC
106 AA-CCACCCTAAAATGAAACTAACGAATTATACTTACCTGAATATTTTAAT-AACACCAACGCAG
* * ** ** * * * *** * *
53928089 CCTAAAAGAAAAGTAACGAATTATACTTACATAAAGAT-TTTAAT-AACACCAAC-ACAGTCTAA
169 TCTAAATG--GCGGCAC-AA-TAGA---AGAT--AGGTCGGCAATGAAGA--AACAATAG-C-AA
* * ** * *
53928151 -ATGGCGGCACAACAGAAG-ATAGGTCGGCAATAAA-GAAACAGTAGCAAGAGACGACAACAGGG
221 GA-GAC-G-AAAACAGGGGAATA--T-GGCAACAAATGTAA-A--AG--A-A-ACGA-AA-A---
* * * * * * *
53928213 GAATATGACAACA-AATGTAAAAGAAACAAAATAAAACAGAACATAAATAAAGAAGAAGAAAATA
268 AAAAATGA-AACAGAA---AAAAG-AAGAAAA-AAAA-ATAACGT---T--AG-AG--GAACAGA
* * * * * *
53928277 AAGTCAGAGGAACCAA-AAATGGGAAAAAGAAATGG-AAGTAGTGGAAACAGAGGAACGTAAAAG
318 AAAT--G-GGAA-AAAGAAAT-GG---AAGTAGTGGAAAG-AGAGG-AAC------A--TAAAAA
53928340 ATTTGGG
365 ATTT-GG
* * * * *
53928347 GAAATTGCTGAAATACTCACTCGCCA-AAGAGTAAAAGCCTCATGAACCACCCCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * * * * *
53928411 CAACTAAAGAAACCAAAATACCTTCCAAAGATTTAAAAACAACCACCCTAAAATGAAACTAATGA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * * *
53928476 ATTATACTTACCTGAAAATTTTAATAATAACACCAACGCAGTCCAAATGGTGGCATAAAAGAAGA
131 ATTATACTTACCTGAATA-TTT--TAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGA
* * * * *
53928541 TAAGTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAAGGGAATATGACAACAAATTTAAAA
193 TAGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAA
* * *
53928606 GAAA-TAAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAAAAGAAA
258 GAAACGAAAA-AAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAACAGAAA
*
53928670 ATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGTG
320 ATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG-G
* * * * * ** *
53928722 AAAATTGCTAAAATCCTCACTCGCCAGAAAATTAAATGCCTCAATAACCACCCTTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * **
53928787 -ACACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACTACTCTAAAACAAAACTAACG
66 CA-ACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* ** ** * *
53928851 AATTATACTTACCTGAAGATTTTAATAACACTGACGCAGTCTAAATGGCAACACAACAGAATATA
130 AATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATA
* * ** * * *
53928916 GGTCGGTAATGAAGAAACAATAGTAAGAGACGTCAATAGGAGAATATGGAAACAAATGTAAAAGA
195 GGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAGA
* * * * * * *
53928981 AAC-AAAAGAAAACGAAACTAGAAGAAAGAAGAAGAAAAAATAACATTAGAGGAACAGAGAATGA
260 AACGAAAAAAAAATGAAAC-AGAAAAAAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAATGG
* * *
53929045 GAAAAAGAAATTGAAGTAGTGGAAAGAGAAGAAAATAAAAAATTTGG
324 GAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* * * * * *
53929092 AGAAATTGCTAAAATCCTCATTCGCCAAAAGATTAAACGCCTCATGAACC-TCCCTAGCAAAATC
1 -GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATC
* * * *
53929156 ACAACTAATGAAAGCAAAAGACCTTCCAATGATATCAAGACAACCATCCTAAAACGAAACTAACG
65 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACG
* * *
53929221 AATTATACTTACCT-AATGATTTTAAGAACACCAACACAGTCTAAATGGTGGCACAATAGAAGAT
130 AATTATACTTACCTGAAT-ATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGAT
* * * * * * ** *
53929285 ATGTCAGCAATAAAGAAACAATAGTAAGAGATGACAACAAAGGAATATAGCAACAAATGTAAAAG
194 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAG
** * * * *
53929350 AAACGAAGGAAAAATGAAACA-AAAAGGAAGAAGAAGAAAAAATAACATTAGAGGAACATAAAAG
259 AAACGAAAAAAAAATGAAACAGAAAA--AAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAAT
* *
53929414 GGGAAAAAGAAATAGAAGTTGTGGAAAGAGAGGAACATAAAAAATTTAGG
322 GGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * * ** *
53929464 GAAATTGCTAAAATCCTCATTCGCCAGAAGAGTAAATGCCTCACGAACCA-CCCTAAAAAAATTA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
** * ** * * *
53929528 GTACTAATGATAGTAAAAGGCCTTCCAAAGATATCAAGATAACCACCCTAAAATGAAACTAACAA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * * ** * *
53929593 ATTATACTTACTTG-ATGATTTTAATAACACCAACACAATCAAAATGGTAGCACAACAGAAGATT
131 ATTATACTTACCTGAAT-ATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATA
* * *
53929657 GATCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGA
195 GGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAGA
* * * * *
53929722 AACGAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAAGAACGTTAGACGAACATAAAATG
260 AACGAAAAAAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAACAGAAAATG
* * * *
53929787 GGAAAAAGAAATGGAAGCAATGGAAAGAGAGAAATATAAAAAATTTGG
323 GGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* * * * *
53929835 GAAAATTGCTAAAATCTTTACTCGCTAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATC
1 G-AAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATC
* *
53929900 ACAACTAATGAAACCAAAAGACCTTTCAACGATATCAAGACAACCACCCTAAAA-GAAAACTAAC
65 ACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAACTAAC
* * * * *
53929964 GAATTATACTTA-CTAGAAGATTTTAATAACACCAACGTAATCTAAATGTCGCCACAATAGAAGA
129 GAATTATACTTACCT-GAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGA
* * *
53930028 TAGGTCGACAATGAAGAAACAGTAGCAAGAGACGATAACAGGGGAATATGGCAACAAATGTAAAA
193 TAGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAA
* * *
53930093 GAAAC-AAAATAAAACGAAACAGAAAGAAAGAAG-----AAAATAACGTTAGAGGAACAAAAAAT
258 GAAACGAAAAAAAAATGAAACAGAAA-AAAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAAT
* * *
53930152 GGGAAAAAGAAATGGAAGTGGTGGAAAGAGAGGAACGTAAAAAATGTAGG
322 GGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAAT-TTGG
* * * * *
53930202 GAAATCGCTGAAATACTCACTCGCTAGAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
* * * * * * * * *
53930267 CAACTAATGTAACAAAAATACCTTCCAAAGATTTAAAAATAACCACCCTAAAACGAAACTAACAA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * *
53930332 ATTATACTTACCTGAATATTTTAATAATAACACCAACGCAGTTTAAATAGTGGCACAACAGAAGA
131 ATTATACTTACCTGAATA-TTT--TAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGA
* * * * **
53930397 TAAGTCGGCAATGAAGAAATAGTAGCAAGAGACGATAACAAAGGAATATGGCAACAAATGTAAAA
193 TAGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAA
* * * * * * *
53930462 GAAATGAAAGAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAACGAACAAAAAA
258 GAAACGAAAAAAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAACAGAAAA
* *
53930527 TGGG-AAAATAAATGGAAGTAGTGGAAAGAGAGGAACGTAAAAAATTTGG
321 TGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* ** ** * *** * **** * * ** * ** * * *
53930576 GTAAATT-TTAGGA-GGT-ATTTTTTTG--GA-TAATTTTCTAAAGTTCAAATCCAACCCAAAT-
1 G-AAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATC
* ** * * * * * **** ** *
53930634 ACCACTAGATGGGTGACACATGAGGA-TTTAGCAAAAATAATTCCATTTTTAATAACAACT--AA
65 ACAACTA-AT--GAAAC-CA-AAAGACCTT-CCAAAGAT-A-T-CA-AGACAACCAC-CCTAAAA
* * * * ** ** * *** * * * *
53930696 TGAAACCAAAAGACCTTTCAAAGATATCAAGACAACCACCATAA-AACAAAACTAACGAATTATA
119 TGAAA-CTAACGA--ATT-ATACTTA-CCTG--AA-TATTTTAATAAC---ACCAACGCAGTCTA
** ** * *** *** * * ** * * * *
53930760 CTTTCCTG-A-AGAT-TTTGATAACACCG-AA-GCAGTCTAAATGACAGCACA-ATA-GAAGATA
173 AATGGCGGCACA-ATAGAAGATAGGTCGGCAATGAAG---AAACAATAGCA-AGAGACGAAAACA
** *
53930818 GGTCGGCAATAAAGAAAC-AATAGTAAGAGACGAAAACAGGTGAATATGACAACAAATGTAAA-A
233 GG--GG-AATATGGCAACAAAT-GTAA-A-A-G-AAAC----GAA-A--A-AA-AAATG-AAACA
* * * ** * * * *
53930881 GAAACGAAAGAAAAATGAAACAGAAAGAAAGAAAAAGAAAAAAAATAACGTTAGAGGAACAAA-A
280 GAAA--AAAGAAGAA--AAA-A-AAATAACGTTAGAGGAACAGAA-AA---T-G-GGAA-AAAGA
* * * * ** ** **
53930945 AATGGGAAAAAGAAATGG-AAGTAGTGGAA-AGAGAGGAACATAA
332 AAT-GG---AAGTAGTGGAAAG-AGAGGAACATA-AAAAATTTGG
* *** * *
53930988 AAAATTTGGGGAAATTGCTAAAATCTTCACTCGCTAGAAGAGTAAATGCCTCACGAACCACCTCT
1 GAAA-TTGCTAAAAT--C------C-TCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCT
* *
53931053 AGCAAAATCACAACTAATAAAACCAAAAGGCCTTCCAAAGATATCAAGACAACCACCCTAAAATG
56 AGCAAAATCACAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG
* * * * * * *
53931118 AAACTAATGAATTATATTTACCTGAAGATTTTAATAATACCGACGTAGTCTAAATGGCGGCAAAA
121 AAACTAACGAATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAA
* * * * * * *
53931183 GAGAAAATAGGTTGGCAATGAAGAAACGATAGCAAGAGACGAGAAGAAGGGAATATGGCAACAAA
186 TAGAAGATAGGTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAA
* * ***
53931248 TGTAAAAGAAA-TAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACAACAGAGGAA
251 TGTAAAAGAAACGAAAAAAAAATGAAACAGAAA-AAAGAAGAA-AAAAAAATAACGTTAGAGGAA
*
53931312 CAGAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGG
314 CAGAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * * * *
53931370 GAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCACAAACCACCTCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
** * * * *
53931435 CATTTAATAAAACCAAAAGACCTCCCAAAGA-ATCAAGACAACCACCCTAAAATGAAACAAACAA
66 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
* * * ** * *
53931499 ATTATACTTACCTAAAGATTTTAATAACACCGACATAGTCTAAATGACGGCACAACAGAAGATAG
131 ATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATAG
* * * * *
53931564 GTCGGTAATGAAGAAATAATAGCAAGAGATGACAAA-GGGGGAATATGACAACAAATGTAAAAGA
196 GTCGGCAATGAAGAAACAATAGCAAGAGACGA-AAACAGGGGAATATGGCAACAAATGTAAAAGA
* * * *
53931628 AACGAAAGAAAAATGAGACAGAAAGAAAGAAGAAGAAGAAGAAAATAACATTAGAGGAACAAAAA
260 AACGAAAAAAAAATGAAACAGAAA-AAAGAAG-A-AA-AA-AAAATAACGTTAGAGGAACAGAAA
* *
53931693 ATGGGAAAAAGAAATGGAAGTAGTGGAAATAGAGGAATATAAAAAATTTGGG
320 ATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * *
53931745 GAAATTACTAAAATCCTCACTCACCAGAAGAGTAAA
1 GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAA
53931781 TGCCAATATA
Statistics
Matches: 5098, Mismatches: 1032, Indels: 730
0.74 0.15 0.11
Matches are distributed among these distances:
366 198 0.04
367 210 0.04
368 115 0.02
369 168 0.03
370 914 0.18
371 811 0.16
372 377 0.07
373 639 0.13
374 137 0.03
375 383 0.08
376 138 0.03
377 10 0.00
378 2 0.00
379 10 0.00
380 21 0.00
381 43 0.01
382 21 0.00
383 28 0.01
384 28 0.01
385 12 0.00
386 3 0.00
387 11 0.00
388 13 0.00
389 4 0.00
390 5 0.00
391 24 0.00
392 5 0.00
393 9 0.00
394 14 0.00
395 13 0.00
396 4 0.00
397 15 0.00
398 15 0.00
399 17 0.00
400 22 0.00
401 22 0.00
402 10 0.00
403 9 0.00
404 15 0.00
405 13 0.00
406 20 0.00
407 6 0.00
408 7 0.00
409 20 0.00
410 21 0.00
411 33 0.01
412 55 0.01
413 42 0.01
414 42 0.01
415 30 0.01
416 38 0.01
417 27 0.01
418 25 0.00
419 33 0.01
420 30 0.01
421 26 0.01
422 28 0.01
423 20 0.00
424 21 0.00
425 4 0.00
426 8 0.00
427 25 0.00
428 15 0.00
429 1 0.00
430 2 0.00
431 8 0.00
432 3 0.00
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (370 bp):
GAAATTGCTAAAATCCTCACTCGCTAGAAGAGTAAACGCCTCACGAACCACCCCTAGCAAAATCA
CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGA
ATTATACTTACCTGAATATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAATAGAAGATAG
GTCGGCAATGAAGAAACAATAGCAAGAGACGAAAACAGGGGAATATGGCAACAAATGTAAAAGAA
ACGAAAAAAAAATGAAACAGAAAAAAGAAGAAAAAAAAATAACGTTAGAGGAACAGAAAATGGGA
AAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
Found at i:53927766 original size:96 final size:96
Alignment explanation
Indices: 53927602--53927799 Score: 276
Period size: 96 Copynumber: 2.1 Consensus size: 96
53927592 AAACCTTCCA
* * *
53927602 AAGATATTAAGACAACCACCCTAAAAGAATATTAACGAATTATACTTACCTAATAATTTTAAGAA
1 AAGATATCAAGACAACCACCCTAAAAGAAAACTAACGAATTATACTTACCTAATAATTTTAAGAA
* *
53927667 CACCAACACAGTCTAAATGGTC-GCACAATAG
66 CACCAACACAGTCTAAATAG-CAGCACAACAG
*
53927698 AAGATATCAAGACAACCACCCTAAAAGAAAACTAACGAATTATACTTACC-AGA-AGATTTTAAT
1 AAGATATCAAGACAACCACCCTAAAAGAAAACTAACGAATTATACTTACCTA-ATA-ATTTTAAG
**
53927761 AACACCAATGCAGTCTAAATAGCAGCACAACAG
64 AACACCAACACAGTCTAAATAGCAGCACAACAG
53927794 AAGATA
1 AAGATA
53927800 GGTCGGTAAC
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
95 3 0.03
96 88 0.97
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.21
Consensus pattern (96 bp):
AAGATATCAAGACAACCACCCTAAAAGAAAACTAACGAATTATACTTACCTAATAATTTTAAGAA
CACCAACACAGTCTAAATAGCAGCACAACAG
Found at i:53928255 original size:15 final size:15
Alignment explanation
Indices: 53928237--53928279 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
53928227 ATGTAAAAGA
53928237 AACAAAATAAA-ACAG
1 AACAAAATAAAGA-AG
53928252 AACATAAATAAAGAAG
1 AACA-AAATAAAGAAG
*
53928268 AAGAAAATAAAG
1 AACAAAATAAAG
53928280 TCAGAGGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 12 0.48
17 1 0.04
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.09
Consensus pattern (15 bp):
AACAAAATAAAGAAG
Found at i:53928269 original size:16 final size:16
Alignment explanation
Indices: 53928237--53928284 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
53928227 ATGTAAAAGA
53928237 AACAAAATAAA-ACAG
1 AACAAAATAAAGACAG
53928252 AACATAAATAAAGA-AG
1 AACA-AAATAAAGACAG
* *
53928268 AAGAAAATAAAGTCAG
1 AACAAAATAAAGACAG
53928284 A
1 A
53928285 GGAACCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 12 0.43
16 15 0.54
17 1 0.04
ACGTcount: A:0.69, C:0.08, G:0.12, T:0.10
Consensus pattern (16 bp):
AACAAAATAAAGACAG
Found at i:53929747 original size:17 final size:15
Alignment explanation
Indices: 53929716--53929755 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
53929706 CAACAAATGT
53929716 AAAAGAAACGAAAGA
1 AAAAGAAACGAAAGA
53929731 AAAATGAAACAGAAAGA
1 AAAA-GAAAC-GAAAGA
53929748 AAGAAGAA
1 AA-AAGAA
53929756 GAAGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 5 0.23
17 11 0.50
18 2 0.09
ACGTcount: A:0.72, C:0.05, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGAAACGAAAGA
Found at i:53929752 original size:21 final size:22
Alignment explanation
Indices: 53929710--53929752 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53929700 ATATGGCAAC
53929710 AAATGTAAAAGAAACGAAAGAA
1 AAATGTAAAAGAAACGAAAGAA
53929732 AAATG-AAACAGAAA-GAAAGAA
1 AAATGTAAA-AGAAACGAAAGAA
53929753 GAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.07
Consensus pattern (22 bp):
AAATGTAAAAGAAACGAAAGAA
Found at i:53930076 original size:744 final size:744
Alignment explanation
Indices: 53924912--53931784 Score: 5535
Period size: 743 Copynumber: 9.1 Consensus size: 744
53924902 GAAGAGAAAA
* *
53924912 GAAATTGCTAAAATCCTCACTCACCAGAAGAGTAAA-CCTCTCACGAACCACCCTTAGCAAAATC
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGC-CTCACGAACCACCC-TAGCAAAATC
* * * * *
53924976 ACAACTAATGAAACAAAAAGACCTTCCAAAGATATCAAAACAACCACCCTAAAATGAAACTAACA
64 AAAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACG
* * * * ** *
53925041 AATTATACTTACTTGAGGATTTTAATAACACCAATGCAGTTTAAATGATGGCACAATAGAAGATA
129 AATTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATA
* ** * * **
53925106 GGTTGGCAATGAAGAAACAATAGCAAGAGATAACAACAGGGGAAAATGATAACAAATGTAAAAGA
194 GGTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGA
* *
53925171 AACAAAAGAATAATGAAACAGAAATAAAGAAGAAGAAAAAAATAACGTCAGAGGAACAGAAAATA
259 AACAAAAGAAAAATGAAACAGAAAGAAAGAAGAAG-AAAAAATAACGTCAGAGGAACAGAAAAT-
** *
53925236 GGTCAAAAGAAATGGAAGTAGTGGAAAGAGA-AGAACATAAAAAA-TTGGGGAAATTGCTAAAAT
322 GGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGA-AACATAAAAAATTTGGGAAAATTGCTAAAAT
* * * * ** * ** * ** *
53925299 CATCACTCTCTAGAAGAGTAAACACCTTATGAACCACCTTTAGCAAAATCATAACTAACAAAATC
386 CCTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACC
* * *
53925364 AAAAGACCTTCCAAAGATACCAAGACAACCACCCTAAAATGAAACTAATGAATTATACTTACCTG
451 AAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTA
* * * *
53925429 AATATTTTAATAACACCAACGCAGTCTAAATGG-CGGCACAACAGCAGATAGATCTACAATGAAG
516 AAGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGACAATGAAG
* * * * * * * **
53925493 AAATAATATCAAGAGATGAAAACATGGGAGTATGGCAACAAATGTAAAAGAAACGAAATCAAAAT
581 AAACAATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAAT
* * * * *
53925558 GAAA-TGAAA-AAAGAAGAAAAAGAAAATAAAGTTAGAGGAACAGAAAGTGGGAAAAAGAAATGG
646 GAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGG
* *
53925621 AAGTAGTGGAAAAAGAGGAACATAAAAAATTTGA
711 AAGTAGTGGAAAGAGAGGAACATAAAAAATTTGG
* * * * * * * **
53925655 GAAATTGCTAAAACCCTTACTCACTAGAAAAGTAAACGCCTTACGAACCACCCCTAAAAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCA-CCCTAGCAAAATCA
* * * * *
53925720 ACACTAATGAAACCAAAAGTCCTTCCAAAGATAGCAAAACAACCACCCTAAAATGAAACTAACGA
65 AAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGA
* * * * * * *
53925785 ATTATACATACTTGAAGATTTTAAAAACACCGATGCAGT-TAAAAT-GCTAGCACAACAGAATAT
130 ATTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCT-AAATGGC-GGCACAACAGAAGAT
* * * *
53925848 AGGTCGGCAATGAAGAAACAATAGCAAGAGGCGTCAACAGGGGAATATGACAACAAATGTAAAAG
193 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAG
* * * *
53925913 AAACAAAAGAAAAA-AAAATAGAAAGAAAAAAGAAGAAAAAAAATAACATCAGAGGAA-A-AAAA
258 AAACAAAAGAAAAATGAAACAGAAAGAAAGAAGAAG--AAAAAATAACGTCAGAGGAACAGAAAA
* * *
53925975 TAGGAAAAAGAAATGGAAGTAGTGGAAAGAGA-AGAACATAAAAAATTTGGGGAAGTTGCTAAAA
321 TGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGA-AACATAAAAAATTTGGGAAAATTGCTAAAA
* * * * * * *
53926039 TCCTCACTCACTAGAAGACTAAATGCCTCACGAACCA-CTCTAGCAAAATCACAACTAATGAAAG
385 TCCTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAAC
* * * * *
53926103 CAAAAGACCTTCTAAAGATATCAAGTCAACCACCCTAAAACGAAATTAATGAATTATACTTACCT
450 CAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCT
* * * * *
53926168 AATGATTTTAAGAACACCAATGCAGTCTAAATGGT-GGCA-AAGTAGAAGATAAGTCGACAATGA
515 AAAGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAA-CAGAAGATAGGTCGACAATGA
* * *
53926231 AGAAACAATAGAAAGAGACGATAACAGGGGAATATGGA-AATAAATGTAAAAGAAACGAAAGAAA
579 AGAAACAATAGCAAGAGACGACAACAGGGGAATAT-GACAACAAATGTAAAAGAAACGAAAGAAA
* * * * * * ** *
53926295 TATAAAACAGAATGGAAGAAGAAGAAAAAAAAATAACATTAGAGGAACTGAAAATTGGAAAAAGA
643 AATGAAACAGAAAGAAAGAAGAAG--AAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGA
53926360 AATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGTG
706 AATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG-G
* * * * *
53926400 GAAATTGCTAAAATCCTCACTCGCTAGAAAAGTAAACGTCTCACGAACTACCCCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCA-CCCTAGCAAAATCA
* *
53926465 CAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAA-GAAAACTAACT
65 AAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACG-AAACTAACG
* *
53926529 AATTATACTTACCT-AATGATTTTAATAACACCAACACAGTCTAAATGGCGGCACAATAGAAGAT
129 AATTATACTTACCTGAA-GATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGAT
* * * * *
53926593 AGGTCGGCAATGAAGAAACAATAGCAAGAGACAACAACAAAAGAATATAGCAACAAATGTAATAG
193 AGGTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAG
* * * * * *
53926658 AAACGAAGGAAAAATGAAACAGAAAGGAAGAAGAAGAAAAAATGACGTTAGAGGAAGA-AAAATG
258 AAACAAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAAAAATAACGTCAGAGGAACAGAAAATG
* * * * * *
53926722 GGAAAACA-AAATGAAAGTAGTAGAAAGAGAGGAATATAAAAAA-ATGGGGAAATTG-TAAAAAT
323 GGAAAA-AGAAATGGAAGTAGTGGAAAGAGAGAAACATAAAAAATTTGGGAAAATTGCT-AAAAT
* *
53926784 CCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCCCTAGCAAAATCACAACTAATGAAACC
386 CCTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACC
*
53926849 AAAAGACCTCCCAAAGATATCAAGACAACCACCCTAAAA-GAAAACTAACGAATTATACTTACCT
451 AAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAACTAACGAATTATACTTACCT
* * * * * * * ** *
53926913 GAAGAGTTTAATAACACCAACCCAGTCTACATGG-CGGCACAATAGAAAATATGTCGGTAACGAA
515 AAAGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGACAATGAA
* * * * * *
53926977 AAAACAGTAGCAAGAGACGATAATAGGGGAATATGGCAACAAATGTAAAA-AAACAAAAG-AAAA
580 GAAACAATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAA
* * *
53927040 TAAAACAAAAAGAAAGAAGAA-AA-AAAATAACGTTAGAGGAACAAAAAATGGGAAAAGGAAATG
645 TGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATG
*
53927103 AAAGTAGTGGAAAGAGAGGAACATAAAAAATTTGGG
710 GAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* * * * * * *
53927139 GAAATT-CTAAAGTCCTTACTCGCTAGAAGAGTAAACGCCTCACGAACCAACCTAGAAAAATCAC
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCCTAGCAAAATCAA
* * * ** *
53927203 AACTAATGAAACCAAAAGACATTCCAAAGATATTAAGATAACCACCCTAAAATTAAACTAGCGAA
66 AACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGAA
* * * * * **
53927268 TTATACTTACCTGAATATTTTAATAGCACCAACGTAGTCTAAATGGCGACAGAACAGAAGGCAGG
131 TTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATAGG
* * * * * * *
53927333 TTGGCAATGAAGCAACAATAGTAAGAGACGACAATAGGGGAATATGGTAAAAAATGTAAAAGAAA
196 TCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGAAA
* * * * * * *
53927398 CGAAAGAAAAATAAAACAGAAAGGAAGAAGAAGAAGAAGATAACGTTAGAGGAACATAAAATGGT
261 CAAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAA-AAAATAACGTCAGAGGAACAGAAAATGGG
*
53927463 AAAAAGAAATGGAAGTAGTGGAAAGAGA-AGAACATAAAAAATTTGGGGAAATTGCTAAAATCCT
325 AAAAAGAAATGGAAGTAGTGGAAAGAGAGA-AACATAAAAAATTTGGGAAAATTGCTAAAATCCT
* * * * **
53927527 CACTCGCTAGAAGAGTAAATGCCTCACGAACCACCCCTAGCAAAATTACAACTAATGAAAGGAAA
389 CACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAA
* * *
53927592 AAACCTTCCAAAGATATTAAGACAACCACCCTAAAA-GAATATTAACGAATTATACTTACCTAAT
454 AGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAA-ACTAACGAATTATACTTACCTAA-
* * *
53927656 A-ATTTTAAGAACACCAACACAGTCTAAATGGTC-GCACAATAGAAGATA--TCAAGACAACCAC
517 AGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTC--GAC-A--A-
* * * * * * ** * * * *
53927717 CCTAAAAGAAA-ACTAACGAATTATACTTAC--CAGAAGATTTTAATAACACCAATGCAGTCTAA
576 --T-GAAGAAACAATAGC-AA-GAGAC-GACAACAGGGGA--AT-ATGACAACAA---A-TGTAA
* * * * *
53927779 ATAGCAGCAC-AACAGAAGATAGGTCGGTAAC-G-AAG-AAGCAA-TAGCAAGAAACGACAACAG
628 A-AG-A-AACGAA-AGAA-A-A-AT--GAAACAGAAAGAAAG-AAGAAG-AAGAAA--ATAAC-G
* * * *** ** ** * * *
53927839 -GAGAATATGGCAACAAATGTAAA-AGAAACGAAAGAAAACAAAACAGAAAGAAAGAAAAAGAAG
679 TTAG---A-GG-AACAAA---AAATGGGAA--AAAGAAATGGAAGTAG-TGGAAAG-AGAGGAAC
* * *
53927902 A-AAATAACGTTAGA
732 ATAAA-AA-ATTTGG
* * **** *** ** * * **** * ** *** * *
53927916 GAAACTG--AAACTGGGAAAAAGAAATGGAATTAGTGGAAAGAGAGGAACATAAAAAATTTGGGA
1 GAAATTGCTAAAATCCTCACTCGCCA--GAA-GAGT--AAA-TGCCTCAC-GAACCACCCTAGCA
* * * * ** * *
53927979 AAATTGCTAAAATCCTAACTCATTA-GAAAAGTAAACGCCTCACGAATCACCCCTAGCAAAATCA
59 AAA-T-C-AAAA--CTAA-TGA-AACCAAAAG---AC-CTTC-C-AA--A--GATATCAAGA-CA
** * * * * * ** * ***
53928043 A-CACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAAGAAAAGTAACG
106 ACCAC-CCT-AAAAC-GAA-A-C-T--AACGA-AT-TATAC--TTA-CCT----GAAGA-T-TTT
* * * * ** **
53928107 AATTATACTTACATAAAG-A-TTTTAATAACACCA-ACACAGTCTAA-AT-GG-CGGCACA--AC
152 AA-TA-AC--AC-CAACGCAGTCTAAATGGCGGCACA-ACAG---AAGATAGGTCGGCA-ATGA-
* * * * * * * * * *
53928164 AGAAGATAGGTCGGCAATA-AAGA-AACAGTAGCAAGA-GACGACAACAGGGGAATATGACAACA
206 AGAA-ACA-AT-AGCAAGAGACGACAACAG-AGGAATATG--G-CAACA----AATGT-AAAAGA
* * * * *
53928226 AATGTAAAAGAAACAAAATAAAACAGAACATAAATAAAGAAGAAGAAAATAAAGTCAGAGGAACC
259 AA--CAAAAG--A-AAAATGAAACAGAA-AGAAA-GAAGAAGAA-AAAATAACGTCAGAGGAA-C
* * * * *
53928291 A-AAAATGGGAAAAAGAAATGGAAGTAGTGGAAACAGAGGAACGTAAAAGATTTGGGGAAATTGC
315 AGAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGAAACATAAAAAATTTGGGAAAATTGC
* * * *
53928355 TGAAATACTCACTCGCC-AAAGAGTAAAAGCCTCATGAACCACCCCTAGCAAAATCACAACTAAA
380 TAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAAT
* * * * *
53928419 GAAACCAAAATACCTTCCAAAGATTTAAAAACAACCACCCTAAAATGAAACTAATGAATTATACT
445 GAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACT
* * * *
53928484 TACCTGAAA-ATTTTAATAATAACACCAACGCAGTCCAAATGGT-GGCATAAAAGAAGATAAGTC
510 TACCT-AAAGA-TTT--TAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTC
* * * **
53928547 GGCAATGAAGAAACAATAGCAAGAGACGACAACAAGGGAATATGACAACAAATTTAAAAGAAATA
571 GACAATGAAGAAACAATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACG
53928612 AAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAA-AAGAAAATGGGA
636 AAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAA-AAAATGGGA
*
53928676 AAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGTG
700 AAAAGAAATGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTTG-G
* * * **
53928722 AAAATTGCTAAAATCCTCACTCGCCAGAAAATTAAATGCCTCAATAACCACCCTTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCC-TAGCAAAATCA
* * * *
53928787 ACACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACTACTCTAAAACAAAACTAACGA
65 AAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGA
** ** *
53928852 ATTATACTTACCTGAAGATTTTAATAACACTGACGCAGTCTAAATGGCAACACAACAGAATATAG
130 ATTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATAG
* * * * *
53928917 GTCGGTAATGAAGAAACAATAGTAAGAGACGTCAATAG-GAGAATATGGAAACAAATGTAAAAGA
195 GTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAG-GAATATGGCAACAAATGTAAAAGA
* * * *
53928981 AACAAAAG-AAAACGAAACTAG-AAGAAAGAAGAAGAAAAAATAACATTAGAGGAACAGAGAATG
259 AACAAAAGAAAAATGAAAC-AGAAAGAAAGAAGAAGAAAAAATAACGTCAGAGGAACAGAAAATG
* *
53929044 AGAAAAAGAAATTGAAGTAGTGGAAAGAGAAGAAA-ATAAAAAATTT-GGAGAAATTGCTAAAAT
323 GGAAAAAGAAATGGAAGTAGTGGAAAGAG-AGAAACATAAAAAATTTGGGA-AAATTGCTAAAAT
* * * * *
53929107 CCTCATTCGCCAAAAGATTAAACGCCTCATGAACC-TCCCTAGCAAAATCACAACTAATGAAAGC
386 CCTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACC
* * *
53929171 AAAAGACCTTCCAATGATATCAAGACAACCATCCTAAAACGAAACTAACGAATTATACTTACCTA
451 AAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTA
* * * * * *
53929236 ATGATTTTAAGAACACCAACACAGTCTAAATGGT-GGCACAATAGAAGATATGTC-AGCAATAAA
516 AAGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGA-CAATGAA
* * ** *
53929299 GAAACAATAGTAAGAGATGACAACAAAGGAATAT-AGCAACAAATGTAAAAGAAACGAAGGAAAA
580 GAAACAATAGCAAGAGACGACAACAGGGGAATATGA-CAACAAATGTAAAAGAAACGAAAGAAAA
* * * * *
53929363 ATGAAACAAAAAGGAAGAAGAAGAA-AAAATAACATTAGAGGAACATAAAAGGGGAAAAAGAAAT
644 ATGAAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAAT
* *
53929427 AGAAGTTGTGGAAAGAGAGGAACATAAAAAATTTAGG
709 GGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* ** * *
53929464 GAAATTGCTAAAATCCTCATTCGCCAGAAGAGTAAATGCCTCACGAACCACCCTAAAAAAATTAG
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCCTAGCAAAATCAA
* * ** * * * *
53929529 TACTAATGATAGTAAAAGGCCTTCCAAAGATATCAAGATAACCACCCTAAAATGAAACTAACAAA
66 AACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGAA
* * * * * ** * *
53929594 TTATACTTACTTGATGATTTTAATAACACCAACACAATCAAAATGGTAGCACAACAGAAGATTGA
131 TTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATAGG
53929659 TCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGAAA
196 TCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGAAA
* * * * *
53929724 CGAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAGAAAAGAACGTTAGACGAACATAAAATGGG
261 CAAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAA-AAAATAACGTCAGAGGAACAGAAAATGGG
* * * * *
53929789 AAAAAGAAATGGAAGCAATGGAAAGAGAGAAATATAAAAAATTTGGGAAAATTGCTAAAATCTTT
325 AAAAAGAAATGGAAGTAGTGGAAAGAGAGAAACATAAAAAATTTGGGAAAATTGCTAAAATCCTC
*
53929854 ACTCGCTAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAA
390 ACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAA
* *
53929919 GACCTTTCAACGATATCAAGACAACCACCCTAAAA-GAAAACTAACGAATTATACTTA-CTAGAA
455 GACCTTCCAAAGATATCAAGACAACCACCCTAAAATG-AAACTAACGAATTATACTTACCTA-AA
* * * *
53929982 GATTTTAATAACACCAACGTAATCTAAAT-GTCGCCACAATAGAAGATAGGTCGACAATGAAGAA
518 GATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGACAATGAAGAA
* * * *
53930046 ACAGTAGCAAGAGACGATAACAGGGGAATATGGCAACAAATGTAAAAGAAAC-AAA-ATAAAACG
583 ACAATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACGAAAGA-AAAATG
53930109 AAAC----AGAAAG-A-AAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGA
647 AAACAGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGA
* * *
53930168 AGTGGTGGAAAGAGAGGAACGTAAAAAATGTAGG
712 AGTAGTGGAAAGAGAGGAACATAAAAAAT-TTGG
* * * * *
53930202 GAAATCGCTGAAATACTCACTCGCTAGAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCA-CCCTAGCAAAATCA
* * * * * * * * *
53930267 CAACTAATGTAACAAAAATACCTTCCAAAGATTTAAAAATAACCACCCTAAAACGAAACTAACAA
65 AAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGA
* * * *
53930332 ATTATACTTACCTGAATATTTTAATAATAACACCAACGCAGTTTAAATAGTGGCACAACAGAAGA
130 ATTATACTTACCTGAAGA-TTT--TAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGA
* * * * *
53930397 TAAGTCGGCAATGAAGAAATAGTAGCAAGAGACGATAACAAAGGAATATGGCAACAAATGTAAAA
192 TAGGTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAA
** * * * *
53930462 GAAATGAAAGAAAAATGAAATAGAAAGAAAGAAGAAGAAAAAAATAACGTCAAACGAACAAAAAA
257 GAAACAAAAGAAAAATGAAACAGAAAGAAAGAAGAAG-AAAAAATAACGTCAGAGGAACAGAAAA
* * * * *
53930527 TGGG-AAAATAAATGGAAGTAGTGGAAAGAGAGGAACGTAAAAAATTTGGGTAAATT-TTAGGAG
321 TGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGAAACATAAAAAATTTGGGAAAATTGCTA--A-
* * *** * ** * * * * *** *
53930590 GTAT-TTTTTTGGATAATTTTCTAA-AGTTCAAATCCAACCCA--AA-TACCACTAG-ATGGGTG
383 -AATCCTCACTCGCCAA------AAGAG-T-AAATGC--CTCATGAACCACCCCTAGCA-AAATC
* * * * ** * * *
53930649 AC-ACATGAGGATTTAGCAAAA-ATAATTCCATTTTTAATAACAACTAATGA-AACCAAAAGACC
436 ACAAC-TAATGA--AACCAAAAGA-CCTTCCA-----AA-GATATC-AA-GACAACC-----ACC
* * * * * ** * * * * ** *
53930711 TTTCAAAGATATCAAGAC-AACCACCATAAAACAAAACTAACGAATTATACTTTC-CTGAA-G-A
484 ---CTAA-A-ATGAA-ACTAACGA--ATTATACTTACCTAAAG-ATTTTAATAACAC-CAACGCA
* * *** * * * ** * * *
53930772 TTTTGATAA-CACCGAAGCAGTCTA-A-ATGACAGCACAATAGAAGATAGGTCGGCAATAAAGAA
539 GTCT-A-AATGGTCG--GCA--CAACAGAAGATAGGTCGACA-ATG--------------AAGAA
* * *
53930834 ACAATAGTAAGAGACGAAAACAGGTGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAATGA
583 ACAATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAATGA
* *
53930899 AACAGAAAGAAAGAAAAAGAAAAAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGA
648 AACAGAAAGAAAGAAGAAG-AAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGA
53930964 AGTAGTGGAAAGAGAGGAACATAAAAAATTTGGG
712 AGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* *
53930998 GAAATTGCTAAAATCTTCACTCGCTAGAAGAGTAAATGCCTCACGAACCACCTCTAGCAAAATCA
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACC-CTAGCAAAATCA
* * * * *
53931063 CAACTAATAAAACCAAAAGGCCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAATGA
65 AAACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGA
* * * * * * *
53931128 ATTATATTTACCTGAAGATTTTAATAATACCGACGTAGTCTAAATGGCGGCAAAAGAGAAAATAG
130 ATTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATAG
* * * *
53931193 GTTGGCAATGAAGAAACGATAGCAAGAGACGAGAAGA-AGGGAATATGGCAACAAATGTAAAAGA
195 GTCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGA-GGAATATGGCAACAAATGTAAAAGA
* **
53931257 AATAAAAG-AAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACAACAGAGGAACAGAAAATG
259 AACAAAAGAAAAATGAAACAGAAAGAAAGAAGAAG-AAAAAATAACGTCAGAGGAACAGAAAATG
*
53931321 GGAAAAAGAAATGGAAGTAGTGGAAAGAGA-AGAACATAAAAAATTTGGGGAAATTGCTAAAATC
323 GGAAAAAGAAATGGAAGTAGTGGAAAGAGAGA-AACATAAAAAATTTGGGAAAATTGCTAAAATC
** * ** *
53931385 CTCACTCGCCAAAAGAGTAAATGCCTCACAAACCACCTCTAGCAAAATCACATTTAATAAAACCA
387 CTCACTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCA
* * *
53931450 AAAGACCTCCCAAAGA-ATCAAGACAACCACCCTAAAATGAAACAAACAAATTATACTTACCTAA
452 AAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAA
* ** * **
53931514 AGATTTTAATAACACCGACATAGTCTAAAT-GACGGCACAACAGAAGATAGGTCGGTAATGAAGA
517 AGATTTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGACAATGAAGA
* *
53931578 AATAATAGCAAGAGATGACAA-AGGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAAT
582 AACAATAGCAAGAGACGACAACA-GGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAAT
* *
53931642 GAGACAGAAAGAAAGAAGAAGAAGAAGAAAATAACATTAGAGGAACAAAAAATGGGAAAAAGAAA
646 GAAACAGAAAG--A-AAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAA
* *
53931707 TGGAAGTAGTGGAAATAGAGGAATATAAAAAATTTGGG
708 TGGAAGTAGTGGAAAGAGAGGAACATAAAAAATTT-GG
* *
53931745 GAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATGCC
1 GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCC
53931785 AATATAAAAA
Statistics
Matches: 4924, Mismatches: 869, Indels: 670
0.76 0.13 0.10
Matches are distributed among these distances:
737 215 0.04
738 172 0.03
739 204 0.04
740 412 0.08
741 285 0.06
742 326 0.07
743 529 0.11
744 338 0.07
745 524 0.11
746 186 0.04
747 156 0.03
748 20 0.00
749 28 0.01
750 17 0.00
751 10 0.00
752 3 0.00
753 6 0.00
754 5 0.00
755 7 0.00
756 5 0.00
757 6 0.00
758 12 0.00
759 6 0.00
760 16 0.00
761 13 0.00
762 29 0.01
763 31 0.01
764 32 0.01
765 12 0.00
766 12 0.00
767 7 0.00
768 8 0.00
769 10 0.00
770 16 0.00
771 22 0.00
773 16 0.00
774 9 0.00
775 19 0.00
776 20 0.00
777 17 0.00
778 11 0.00
779 3 0.00
780 1 0.00
781 4 0.00
782 7 0.00
783 23 0.00
784 13 0.00
785 21 0.00
786 14 0.00
788 57 0.01
789 19 0.00
790 6 0.00
791 6 0.00
792 59 0.01
793 154 0.03
794 4 0.00
795 12 0.00
796 206 0.04
797 5 0.00
799 11 0.00
800 4 0.00
801 8 0.00
802 10 0.00
803 4 0.00
804 1 0.00
805 6 0.00
806 17 0.00
807 11 0.00
808 20 0.00
809 6 0.00
810 3 0.00
811 3 0.00
812 6 0.00
813 2 0.00
814 1 0.00
816 5 0.00
817 11 0.00
818 3 0.00
819 14 0.00
820 9 0.00
821 20 0.00
822 18 0.00
823 14 0.00
824 9 0.00
825 8 0.00
826 1 0.00
829 12 0.00
830 9 0.00
831 3 0.00
832 16 0.00
833 5 0.00
834 1 0.00
835 14 0.00
836 106 0.02
837 103 0.02
838 3 0.00
839 39 0.01
841 2 0.00
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (744 bp):
GAAATTGCTAAAATCCTCACTCGCCAGAAGAGTAAATGCCTCACGAACCACCCTAGCAAAATCAA
AACTAATGAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAAAACGAAACTAACGAA
TTATACTTACCTGAAGATTTTAATAACACCAACGCAGTCTAAATGGCGGCACAACAGAAGATAGG
TCGGCAATGAAGAAACAATAGCAAGAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGAAA
CAAAAGAAAAATGAAACAGAAAGAAAGAAGAAGAAAAAATAACGTCAGAGGAACAGAAAATGGGA
AAAAGAAATGGAAGTAGTGGAAAGAGAGAAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCA
CTCGCCAAAAGAGTAAATGCCTCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAG
ACCTTCCAAAGATATCAAGACAACCACCCTAAAATGAAACTAACGAATTATACTTACCTAAAGAT
TTTAATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGACAATGAAGAAACA
ATAGCAAGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAATGAAAC
AGAAAGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGAAGTA
GTGGAAAGAGAGGAACATAAAAAATTTGG
Found at i:53930114 original size:372 final size:373
Alignment explanation
Indices: 53927698--53931784 Score: 3628
Period size: 371 Copynumber: 10.9 Consensus size: 373
53927688 CGCACAATAG
53927698 AAGATATCAAGACAACCACCCTAAAA-GAAAACTAACGAATTATACTTACC-AGAAGATTTTAAT
1 AAGATATCAAGACAACCACCCTAAAACG-AAACTAACGAATTATACTTACCTAGAAGATTTTAAT
* * * * * *
53927761 AACACCAATGCAGTCTAAATAG-CAGCACAACAGAAGATAGGTCGGTAACGAAGAAGCAATAGCA
65 AACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCA
* * * *
53927825 AGAAACGACAACAGGAGAATATGGCAACAAATGTAAAAGAAACGAAAGAAAACAAAACAGAAAGA
130 AGAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAAC-AAAAAAAACGAAACAGAAAGA
* * * *
53927890 AAGAAAAAGAAGAAAATAACGTTAGAGAAAC-TGAAACTGGGAAAAAGAAATGGAATTAGTGGAA
194 AAGAAGAAGAAGAAAATAACGTTAGAGGAACAT-AAAATGGGAAAAAGAAATGGAAGTAGTGGAA
* *** *
53927954 AGAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTAACTCATTAGAAA-AGTAAACGCC
258 AGAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCA-AAAGAGTAAATGCC
* *
53928018 TCACGAATCACCCCTAGCAAAATCA-ACACTAATGAAACCAAAAGACCTTCCA
322 TCATGAACCACCCCTAGCAAAATCACA-ACTAATGAAACCAAAAGACCTTCCA
* *
53928070 AAGATATCAAGACAACCACCCTAAAA-GAAAAGTAACGAATTATACTTACATA-AAGATTTTAAT
1 AAGATATCAAGACAACCACCCTAAAACG-AAACTAACGAATTATACTTACCTAGAAGATTTTAAT
* * *
53928133 AACACCAACACAGTCTAAATGG-CGGCACAACAGAAGATAGGTCGGCAATAAAGAAACAGTAGCA
65 AACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCA
* *
53928197 AGAGACGACAACAGGGGAATATGACAACAAATGTAAAAGAAACAAAATAAAAC-AGAACA-TAA-
130 AGAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAA-AAAACGA-AACAGAAAG
* * *
53928259 ATA-AAGAAGAAGAAAATAAAGTCAGAGGAACCA-AAAATGGGAAAAAGAAATGGAAGTAGTGGA
193 AAAGAAGAAGAAGAAAATAACGTTAGAGGAA-CATAAAATGGGAAAAAGAAATGGAAGTAGTGGA
* * * * * * *
53928322 AACAGAGGAACGTAAAAGATTTGGGGAAATTGCTGAAATACTCACTCGCC-AAAGAGTAAAAGCC
257 AAGAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCC
* *
53928386 TCATGAACCACCCCTAGCAAAATCACAACTAAAGAAACCAAAATACCTTCCA
322 TCATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * * * * *
53928438 AAGATTTAAAAACAACCACCCTAAAATGAAACTAATGAATTATACTTACCT-GAAAATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGA-TTT--TA
* * * *
53928502 ATAACACCAACGCAGTCCAAATGGT-GGCATAAAAGAAGATAAGTCGGCAATGAAGAAACAATAG
63 ATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAG
* * * * *
53928566 CAAGAGACGACAACAAGGGAATATGACAACAAATTTAAAAGAAATAAAAGAAAAATGAAACAGAA
128 CAAGAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAA-CAAA-AAAAACGAAACAGAA
* *
53928631 AGAAAGAAGAAGAAGAAAATAACGTTAGAGGAAAAGAAAATGGGAAAAAGAAATGGAAGTAGTGG
191 AGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGG
* * *
53928696 AAAGAGAAGAACATAAAAAATTTGTGAAAATTGCTAAAATCCTCACTCGCCAGAAA-ATTAAATG
256 AAAGAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCA-AAAGAGTAAATG
*
53928760 CCTCAAT-AACCACCCTTAGCAAAATCA-ACACTAATGAAACCAAAAGACCTTCCA
320 CCTC-ATGAACCACCCCTAGCAAAATCACA-ACTAATGAAACCAAAAGACCTTCCA
* * *
53928814 AAGATATCAAGACAACTACTCTAAAACAAAACTAACGAATTATACTTACCT-GAAGATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
** ** * * *
53928878 ACACTGACGCAGTCTAAATGG-CAACACAACAGAATATAGGTCGGTAATGAAGAAACAATAGTAA
66 ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
* * * *
53928942 GAGACGTCAATAGGAGAATATGGAAACAAATGTAAAAGAAACAAAAGAAAACGAAACTAG-AAGA
131 GAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAA-AAAACGAAAC-AGAAAGA
* * * * *
53929006 AAGAAGAAGAA-AAAATAACATTAGAGGAACAGAGAATGAGAAAAAGAAATTGAAGTAGTGGAAA
194 AAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAA
* * * * *
53929070 GAGAAGAAAATAAAAAATTT-GGAGAAATTGCTAAAATCCTCATTCGCCAAAAGATTAAACGCCT
259 GAGAGGAACATAAAAAATTTGGGA-AAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCT
* *
53929134 CATGAACC-TCCCTAGCAAAATCACAACTAATGAAAGCAAAAGACCTTCCA
323 CATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * * *
53929184 ATGATATCAAGACAACCATCCTAAAACGAAACTAACGAATTATACTTACCTA-ATGATTTTAAGA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
* * * * * *
53929248 ACACCAACACAGTCTAAATGGT-GGCACAATAGAAGATATGTCAGCAATAAAGAAACAATAGTAA
66 ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
* ** * * * * *
53929312 GAGATGACAACAAAGGAATATAGCAACAAATGTAAAAGAAACGAAGGAAAAATGAAACAAAAAGG
131 GAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAAC-AA-AAAAAACGAAACAGAAAGA
* * * *
53929377 AAGAAGAAGAA-AAAATAACATTAGAGGAACATAAAAGGGGAAAAAGAAATAGAAGTTGTGGAAA
194 AAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAA
* *
53929441 GAGAGGAACATAAAAAATTTAGGG-AAATTGCTAAAATCCTCATTCGCCAGAAGAGTAAATGCCT
259 GAGAGGAACATAAAAAATTT-GGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCT
* ** * ** * ** *
53929505 CACGAACCA-CCCTAAAAAAATTAGTACTAATGATAGTAAAAGGCCTTCCA
323 CATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * * * *
53929555 AAGATATCAAGATAACCACCCTAAAATGAAACTAACAAATTATACTTA-CTTGATGATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
* * * * * *
53929619 ACACCAACACAATCAAAATGGT-AGCACAACAGAAGATTGATCGGCAATGAAGAAACAATAGCAA
66 ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
* *
53929683 GAGACGACAACAGAGGAATATGGCAACAAATGTAAAAGAAACGAAAGAAAAATGAAACAGAAAGA
131 GAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAAC-AAA-AAAAACGAAACAGAAAGA
* * * *
53929748 AAGAAGAAGAAGAAAAGAACGTTAGACGAACATAAAATGGGAAAAAGAAATGGAAGCAATGGAAA
194 AAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAA
* * * * *
53929813 GAGAGAAATATAAAAAATTTGGGAAAATTGCTAAAATCTTTACTCGCTAAAAGAGTAAATGCCTC
259 GAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTC
*
53929878 ATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTTCA
324 ATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
*
53929928 ACGATATCAAGACAACCACCCTAAAA-GAAAACTAACGAATTATACTTA-CTAGAAGATTTTAAT
1 AAGATATCAAGACAACCACCCTAAAACG-AAACTAACGAATTATACTTACCTAGAAGATTTTAAT
* * * * * *
53929991 AACACCAACGTAATCTAAAT-GTCGCCACAATAGAAGATAGGTCGACAATGAAGAAACAGTAGCA
65 AACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCA
*
53930055 AGAGACGATAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAATAAAACGAAAC----AGA
130 AGAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAA-AAAACGAAACAGAAAGA
* *
53930116 AAG-A-AAGAAGAAAATAACGTTAGAGGAACAAAAAATGGGAAAAAGAAATGGAAGTGGTGGAAA
194 AAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAA
* * * * * * *
53930179 GAGAGGAACGTAAAAAATGTAGGG-AAATCGCTGAAATACTCACTCGCTAGAAGAGTAAATGCCT
259 GAGAGGAACATAAAAAAT-TTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCT
* * *
53930243 CATGAACCACCCCTAGCAAAATCACAACTAATGTAACAAAAATACCTTCCA
323 CATGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * * * * *
53930294 AAGATTTAAAAATAACCACCCTAAAACGAAACTAACAAATTATACTTACCT-GAATATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGA-TTT--TA
* * * * *
53930358 ATAACACCAACGCAGTTTAAATAGT-GGCACAACAGAAGATAAGTCGGCAATGAAGAAATAGTAG
63 ATAACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAG
* ** * * *
53930422 CAAGAGACGATAACAAAGGAATATGGCAACAAATGTAAAAGAAATGAAAGAAAAATGAAATAGAA
128 CAAGAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAA-CAAA-AAAAACGAAACAGAA
* * * * * *
53930487 AGAAAGAAGAAGAAAAAAATAACGTCAAACGAACAAAAAATGGG-AAAATAAATGGAAGTAGTGG
191 AGAAAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGG
* * * * * *** * ** *****
53930551 AAAGAGAGGAACGTAAAAAATTTGGGTAAATT-TTAGGAGGTAT-TTTTTTGGATAATTTTCTAA
256 AAAGAGAGGAACATAAAAAATTTGGGAAAATTGCTA--A--AATCCTCACTCGCCAAAAGAGTAA
* * * ** * * * *
53930614 A-G-TTCA--AATCCA-ACC---C-AAAT-ACCACTAGATGGGTGACACATGAGGA-TTTAGCA
317 ATGCCTCATGAA-CCACCCCTAGCAAAATCACAACTA-AT--GAAAC-CA-AAAGACCTT-CCA
* **** ** * * * * * * ** * *
53930667 AAAATAATTCCATTTTTAATAACAACT--AATGAAACCAAAAGACCTTTCAAAGATATCAAGACA
1 AAGAT-A-T-CA-AGACAACCAC-CCTAAAACGAAA-CTAACGA--ATT-ATACTTACCTAG--A
* *** * * * *** ** * *
53930730 ACCACCATAA-AACAAAACTAACGAATTATACTTTCCTGAAGATTTTG-ATAACACCGAAG-CA-
55 A-GATTTTAATAAC---ACCAACGCA--GT-C-TAAATG--G--TCGGCACAACA--GAAGATAG
** * * * * ** * * * * * * * *
53930791 GTC-TAAATGACAG-CACAATAG-AAGATAGGTCGGCAATAAAGAAACAATAGTAAGAGACGAAA
106 GTCGGCAATGA-AGAAACAATAGCAAG--A-GACGACAACAGGGGAA-TATGGCAACAAATGTAA
* * * * * * * * ** *
53930853 ACAGGTGAATATGACAACAAATGTAAA-AGAAACGAAAGAAAAATGAAACAGAAAGAAAGAAAAA
166 A-A---GAA-A-CAAAAAAAACG-AAACAGAAA-GAAAGAAGAA-G-AAGA-AAATAACGTTAGA
* * * * *
53930917 GAAAAAAAATAACGTTAGAGGAACAAA-AAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAGG
220 GGAACATAA-AA---T-G-GGAA-AAAGAAAT-GG---AAGTAGT-G--------GAAAGAGAGG
* * * * *
53930981 AACATAAAAAATTTGGGGAAATTGCTAAAATCTTCACTCGCTAGAAGAGTAAATGCCTCACGAAC
265 AACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCATGAAC
* * *
53931046 CACCTCTAGCAAAATCACAACTAATAAAACCAAAAGGCCTTCCA
330 CACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * *
53931090 AAGATATCAAGACAACCACCCTAAAATGAAACTAATGAATTATATTTACCT-GAAGATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
* * * * * * * *
53931154 ATACCGACGTAGTCTAAATGG-CGGCAAAAGAGAAAATAGGTTGGCAATGAAGAAACGATAGCAA
66 ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
* * * * *
53931218 GAGACGAGAAGAAGGGAATATGGCAACAAATGTAAAAGAAATAAAAGAAAATGAAACAGAAAGAA
131 GAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAA-AAAACGAAACAGAAAGAA
* *** *
53931283 AGAAGAAGAAAAAAATAACAACAGAGGAACAGAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAG
195 AGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAG
* *
53931348 AGAAGAACATAAAAAATTTGGGGAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCA
260 AGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCA
** * ** * *
53931413 CAAACCACCTCTAGCAAAATCACATTTAATAAAACCAAAAGACCTCCCA
325 TGAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
* * *
53931462 AAGA-ATCAAGACAACCACCCTAAAATGAAACAAACAAATTATACTTACCTA-AAGATTTTAATA
1 AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
* ** * * *
53931525 ACACCGACATAGTCTAAAT-GACGGCACAACAGAAGATAGGTCGGTAATGAAGAAATAATAGCAA
66 ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
* * * *
53931589 GAGATGACAA-AGGGGGAATATGACAACAAATGTAAAAGAAACGAAAGAAAAATGAGACAGAAAG
131 GAGACGACAACA-GGGGAATATGGCAACAAATGTAAAAGAAAC-AAA-AAAAACGAAACAGAAAG
* *
53931653 AAAGAAGAAGAAGAAGAAAATAACATTAGAGGAACAAAAAATGGGAAAAAGAAATGGAAGTAGTG
193 --A-AAGAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTG
* * * * * *
53931718 GAAATAGAGGAATATAAAAAATTTGGGGAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATG
255 GAAAGAGAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATG
53931783 CC
320 CC
53931785 AATATAAAAA
Statistics
Matches: 3044, Mismatches: 501, Indels: 337
0.78 0.13 0.09
Matches are distributed among these distances:
366 193 0.06
367 14 0.00
368 113 0.04
369 199 0.07
370 208 0.07
371 709 0.23
372 458 0.15
373 292 0.10
374 18 0.01
375 267 0.09
376 139 0.05
377 23 0.01
378 4 0.00
379 2 0.00
380 9 0.00
381 9 0.00
383 9 0.00
384 6 0.00
385 9 0.00
386 1 0.00
387 3 0.00
389 4 0.00
390 12 0.00
391 26 0.01
392 16 0.01
393 16 0.01
394 16 0.01
395 11 0.00
396 3 0.00
397 14 0.00
398 17 0.01
399 2 0.00
400 17 0.01
401 27 0.01
402 11 0.00
403 11 0.00
404 4 0.00
405 1 0.00
406 4 0.00
407 3 0.00
408 6 0.00
409 5 0.00
410 6 0.00
412 9 0.00
413 5 0.00
415 1 0.00
416 5 0.00
417 2 0.00
418 4 0.00
419 19 0.01
420 11 0.00
421 35 0.01
422 6 0.00
423 11 0.00
424 4 0.00
425 2 0.00
426 1 0.00
427 6 0.00
428 6 0.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.17
Consensus pattern (373 bp):
AAGATATCAAGACAACCACCCTAAAACGAAACTAACGAATTATACTTACCTAGAAGATTTTAATA
ACACCAACGCAGTCTAAATGGTCGGCACAACAGAAGATAGGTCGGCAATGAAGAAACAATAGCAA
GAGACGACAACAGGGGAATATGGCAACAAATGTAAAAGAAACAAAAAAAACGAAACAGAAAGAAA
GAAGAAGAAGAAAATAACGTTAGAGGAACATAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGA
GAGGAACATAAAAAATTTGGGAAAATTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCAT
GAACCACCCCTAGCAAAATCACAACTAATGAAACCAAAAGACCTTCCA
Found at i:53930489 original size:17 final size:15
Alignment explanation
Indices: 53930458--53930497 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
53930448 CAACAAATGT
53930458 AAAAGAAATGAAAGA
1 AAAAGAAATGAAAGA
53930473 AAAATGAAATAGAAAGA
1 AAAA-GAAAT-GAAAGA
53930490 AAGAAGAA
1 AA-AAGAA
53930498 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 5 0.23
17 11 0.50
18 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAATGAAAGA
Found at i:53930494 original size:21 final size:22
Alignment explanation
Indices: 53930452--53930494 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
53930442 ATATGGCAAC
53930452 AAATGTAAAAGAAATGAAAGAA
1 AAATGTAAAAGAAATGAAAGAA
53930474 AAATG-AAATAGAAA-GAAAGAA
1 AAATGTAAA-AGAAATGAAAGAA
53930495 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (22 bp):
AAATGTAAAAGAAATGAAAGAA
Found at i:53930908 original size:17 final size:15
Alignment explanation
Indices: 53930877--53930910 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
53930867 CAACAAATGT
53930877 AAAAGAAACGAAAGA
1 AAAAGAAACGAAAGA
53930892 AAAATGAAACAGAAAGA
1 AAAA-GAAAC-GAAAGA
53930909 AA
1 AA
53930911 GAAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (15 bp):
AAAAGAAACGAAAGA
Found at i:53930912 original size:21 final size:21
Alignment explanation
Indices: 53930871--53930921 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
53930861 ATATGACAAC
53930871 AAATGTAAAAGAAACGAAAGAA
1 AAATG-AAAAGAAACGAAAGAA
53930893 AAATGAAACAGAAA-GAAAGAA
1 AAATGAAA-AGAAACGAAAGAA
53930914 AAA-GAAAA
1 AAATGAAAA
53930922 AAAATAACGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.04
20 4 0.14
21 13 0.46
22 10 0.36
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.06
Consensus pattern (21 bp):
AAATGAAAAGAAACGAAAGAA
Found at i:53931816 original size:57 final size:57
Alignment explanation
Indices: 53931728--53931841 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
53931718 GAAATAGAGG
53931728 AATATAAAAAATTTGGGGAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATGCC
1 AATATAAAAAATTTGGGGAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATGCC
* *
53931785 AATATAAAAAATTTGGGGAAATTGCTAAAATCCTCATTCACCAGAAGAGTAAATGCC
1 AATATAAAAAATTTGGGGAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATGCC
53931842 TTACGAACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.24
Consensus pattern (57 bp):
AATATAAAAAATTTGGGGAAATTACTAAAATCCTCACTCACCAGAAGAGTAAATGCC
Found at i:53932065 original size:15 final size:15
Alignment explanation
Indices: 53932054--53932086 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
53932044 CAACAAATGT
53932054 AAAA-GAAACAAAAG
1 AAAACGAAACAAAAG
53932068 AAAACGAAACAAAAAG
1 AAAACGAAAC-AAAAG
53932084 AAA
1 AAA
53932087 GAAGAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 5 0.29
16 8 0.47
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAACGAAACAAAAG
Found at i:53932482 original size:375 final size:371
Alignment explanation
Indices: 53931789--53932551 Score: 893
Period size: 375 Copynumber: 2.0 Consensus size: 371
53931779 AATGCCAATA
* * * * * * *
53931789 TAAAAAATTTGGGGAAATTGCTAAAATCCTCATTCACCAGAAGAGTAAATGCCTTACGAACCAGC
1 TAAAAAATTTGGGAAAACTACTAAAATACTCACTCACCAGAAGAGTAAACGCCTCACGAACCAGC
* * * * * **
53931854 CTTAGCAAAATCACAACTAATGAAATCAAAAGACCTTCCAATGATATCATGACAACCACCCTAAA
66 CCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATAAAAACAACCACCCTAAA
* * * *
53931919 ATGAAACGAACGAATTATTCTTACTTGAAGATTTTAAGAACACAACGTAGTCTAAATGTCGGCAC
131 ATGAAACGAACGAATTATACTTACCTAAAGATTTTAAGAACACAACGCAGTCTAAATGTCGGCAC
* ** * ** * * * * *
53931984 AACAGAAGATGGGTAGGCAATGAAGTAATAGTAGCAAGAGACGACAATAGGGGAATAAGGCAACA
196 AACAAAAGATAAGTAGACAATGAAAAAACAATAGCAAGAGACGACAACAAGGGAATAAGACAACA
*
53932049 AATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGTCAGATGA
261 AATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGTCAAATGA
* * * * *
53932114 ACAAAAAAAGGGAAAATGTAATGGAAGTAGTGGAAAGAGAGGAACG
326 ACAAAAAAAGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACG
* ** *
53932160 TAAAAAATTTGGGAAAACTACTAAAATACTTACTCGTCAGAAGAGTAAACGCCTCATGAACCA-C
1 TAAAAAATTTGGGAAAACTACTAAAATACTCACTCACCAGAAGAGTAAACGCCTCACGAACCAGC
* * * *
53932224 TCCTAGCAAAATCACAACTAATAAAACCAAAATACCTTCTAAAGATTTAAAAACAACCAGCCTAA
66 -CCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATAAAAACAACCACCCTAA
* * ** *
53932289 AATGAAGCTAACGAATTATACTTACCTAAAGAGTTTATTAATTACACCAATGCAGTCTAAATGGT
130 AATGAAACGAACGAATTATACTTACCTAAAGA--TT-TTAAGAACA-CAACGCAGTCTAAAT-GT
* * * *
53932354 -GGCACAATAAAAGATAAGTCGACAATGAAAAAACAATAGCAAGAGACGACAGCAAGGGAATATG
190 CGGCACAACAAAAGATAAGTAGACAATGAAAAAACAATAGCAAGAGACGACAACAAGGGAATAAG
* ** * * *
53932418 ACAATAAATGTAAAAGAAATGAAAGAAAAATGAAACAGAAAGAAATAAGAAGAA-AAAATAACGT
255 ACAACAAATGTAAAAGAAACAAAAG-AAAACGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGT
* *
53932482 CAAATGAACAGAAAATGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACG
319 CAAATGAACAAAAAAAGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACG
*
53932535 TAAATAATTTGGGAAAA
1 TAAAAAATTTGGGAAAA
53932552 TTTTAGGAGG
Statistics
Matches: 324, Mismatches: 61, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
370 1 0.00
371 132 0.41
373 2 0.01
374 7 0.02
375 155 0.48
376 27 0.08
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (371 bp):
TAAAAAATTTGGGAAAACTACTAAAATACTCACTCACCAGAAGAGTAAACGCCTCACGAACCAGC
CCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATAAAAACAACCACCCTAAA
ATGAAACGAACGAATTATACTTACCTAAAGATTTTAAGAACACAACGCAGTCTAAATGTCGGCAC
AACAAAAGATAAGTAGACAATGAAAAAACAATAGCAAGAGACGACAACAAGGGAATAAGACAACA
AATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGTCAAATGA
ACAAAAAAAGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACG
Found at i:53932532 original size:803 final size:802
Alignment explanation
Indices: 53930984--53932553 Score: 2120
Period size: 803 Copynumber: 2.0 Consensus size: 802
53930974 AGAGAGGAAC
* * *
53930984 ATAAAAAATTTGGGGAAATTGCTAAAATCTTCACTCGCTAGAAGAGTAAATGCCTCACGAACCAC
1 ATAAAAAATTTGGGGAAATTGCTAAAATCCTCACTCACCAGAAGAGTAAATGCCTCACGAACCAC
*
53931049 CTCTAGCAAAATCACAACTAATAAAACCAAAAGGCCTTCCAAAGATATCAAGACAACCACCCTAA
66 CTCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAA
* * * * *
53931114 AATGAAACTAATGAATTATATTTACCTGAAGATTTTAATAATACCGACGTAGTCTAAATGGCGGC
131 AATGAAACGAACGAATTATATTTACCTGAAGATTTTAAGAACACCAACGTAGTCTAAATGGCGGC
* * * *
53931179 AAAAGAGAAAATAGGTTGGCAATGAAGAAACGATAGCAAGAGACGAGAAGAAGGGAATATGGCAA
196 AAAACAGAAAATAGGTAGGCAATGAAGAAACGATAGCAAGAGACGACAAGAAGGGAATAAGGCAA
* * *
53931244 CAAATGTAAAAGAAATAAAAGAAAATGAAACAGAAAGAAAGAAGAAGAAAAAAATAACAACAGAG
261 CAAATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAAAAAATAACAACAGAG
* * *
53931309 GAACAGAAAATGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGGGAAA
326 GAACAAAAAAAGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGGAAAA
* * * * **
53931374 TTGCTAAAATCCTCACTCGCCAAAAGAGTAAATGCCTCACAAACCACCTCTAGCAAAATCACATT
391 CTACTAAAATACTCACTCGCCAAAAGAGTAAACGCCTCACAAACCACCTCTAGCAAAATCACAAC
* *
53931439 TAATAAAACCAAAAGACCTCCCAAAGAATCAAGACAACCACCCTAAAATGAAACAAACAAATTAT
456 TAATAAAACCAAAAGACCTCCCAAAGAATAAAAACAACCACCCTAAAATGAAACAAACAAATTAT
* * *
53931504 ACTTACCTAAAGATTTTAATAACACCGACATAGTCTAAATGACGGCACAACAGAAGATAGGTCGG
521 ACTTACCTAAAGATTTTAATAACACCGACATAGTCTAAATGACGGCACAACAAAAGATAAGTCGA
* * * *
53931569 TAATGAAGAAATAATAGCAAGAGATGACAAAGGGGGAATATGACAACAAATGTAAAAGAAACGAA
586 CAATGAAAAAACAATAGCAAGAGACGACAAA-GGGGAATATGACAACAAATGTAAAAGAAACGAA
* * * *
53931634 AGAAAAATGAGACAGAAAGAAAGAAGAAGAAGAAGAAAATAACATTAGAGGAACAAAAAATGGGA
650 AGAAAAATGAAACAGAAAG-AAGAAGAAGAAGAAGAAAATAACATCAAAGGAACAAAAAATGGAA
* * * * *
53931699 AAAAGAAATGGAAGTAGTGGAAATAGAGGAATATAAAAAATTTGGGGAAATTACTAAAATCCTCA
714 AAAAGAAATGAAAGTAATGGAAAGAGAGGAACATAAAAAATTTGGGAAAATTACTAAAATCCTCA
53931764 CTCACCAGAAGAGTAAATGCCAAT
779 CTCACCAGAAGAGTAAATGCCAAT
* *
53931788 ATAAAAAATTTGGGGAAATTGCTAAAATCCTCATTCACCAGAAGAGTAAATGCCTTACGAACCAG
1 ATAAAAAATTTGGGGAAATTGCTAAAATCCTCACTCACCAGAAGAGTAAATGCCTCACGAACCA-
* * * *
53931853 CCT-TAGCAAAATCACAACTAATGAAATCAAAAGACCTTCCAATGATATCATGACAACCACCCTA
65 CCTCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTA
* *
53931917 AAATGAAACGAACGAATTAT-TCTTACTTGAAGATTTTAAGAACA-CAACGTAGTCTAAATGTCG
130 AAATGAAACGAACGAATTATAT-TTACCTGAAGATTTTAAGAACACCAACGTAGTCTAAATGGCG
* * * * *
53931980 GCACAACAGAAGATGGGTAGGCAATGAAGTAATA-G-TAGCAAGAGACGACAATAGGGGAATAAG
194 GCAAAACAGAAAATAGGTAGGCAATGAAG-AA-ACGATAGCAAGAGACGACAAGAAGGGAATAAG
* **
53932043 GCAACAAATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAGAAAATAACGTC
257 GCAACAAATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAAAAAATAACAAC
* * * * *
53932108 AGATGAACAAAAAAAGGGAAAATGTAATGGAAGTAGTGGAAAGAGAGGAACGTAAAAAATTTGGG
322 AGAGGAACAAAAAAAGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGG
* * * **
53932173 AAAACTACTAAAATACTTACTCGTCAGAAGAGTAAACGCCTCATGAACCA-CTCCTAGCAAAATC
387 AAAACTACTAAAATACTCACTCGCCAAAAGAGTAAACGCCTCACAAACCACCT-CTAGCAAAATC
* * * * * * * *
53932237 ACAACTAATAAAACCAAAATACCTTCTAAAGATTTAAAAACAACCAGCCTAAAATGAAGCTAACG
451 ACAACTAATAAAACCAAAAGACCTCCCAAAGA-ATAAAAACAACCACCCTAAAATGAAACAAACA
* ** *
53932302 AATTATACTTACCTAAAGAGTTTATTAATTACACC-A-ATGCAGTCTAAATGGTGGCACAATAAA
515 AATTATACTTACCTAAAGA--TT-TTAATAACACCGACAT--AGTCTAAATGACGGCACAACAAA
*
53932365 AGATAAGTCGACAATGAAAAAACAATAGCAAGAGACGACAGCAA-GGGAATATGACAATAAATGT
575 AGATAAGTCGACAATGAAAAAACAATAGCAAGAGACGACA--AAGGGGAATATGACAACAAATGT
* * * *
53932429 AAAAGAAATGAAAGAAAAATGAAACAGAAAG-A-AATAAGAAGAA-AAAATAACGTCAAATGAAC
638 AAAAGAAACGAAAGAAAAATGAAACAGAAAGAAGAAGAAGAAGAAGAAAATAACATCAAAGGAAC
* * *
53932491 AGAAAATGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACGTAAATAATTTGGGAAAATT
703 AAAAAATGGAAAAAAGAAATGAAAGTAATGGAAAGAGAGGAACATAAAAAATTTGGGAAAATT
53932554 TTAGGAGGTA
Statistics
Matches: 664, Mismatches: 89, Indels: 27
0.85 0.11 0.03
Matches are distributed among these distances:
802 2 0.00
803 330 0.50
804 209 0.31
805 7 0.01
806 3 0.00
807 111 0.17
809 2 0.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (802 bp):
ATAAAAAATTTGGGGAAATTGCTAAAATCCTCACTCACCAGAAGAGTAAATGCCTCACGAACCAC
CTCTAGCAAAATCACAACTAATAAAACCAAAAGACCTTCCAAAGATATCAAGACAACCACCCTAA
AATGAAACGAACGAATTATATTTACCTGAAGATTTTAAGAACACCAACGTAGTCTAAATGGCGGC
AAAACAGAAAATAGGTAGGCAATGAAGAAACGATAGCAAGAGACGACAAGAAGGGAATAAGGCAA
CAAATGTAAAAGAAACAAAAGAAAACGAAACAAAAAGAAAGAAGAAGAAAAAAATAACAACAGAG
GAACAAAAAAAGGGAAAAAGAAATGGAAGTAGTGGAAAGAGAAGAACATAAAAAATTTGGGAAAA
CTACTAAAATACTCACTCGCCAAAAGAGTAAACGCCTCACAAACCACCTCTAGCAAAATCACAAC
TAATAAAACCAAAAGACCTCCCAAAGAATAAAAACAACCACCCTAAAATGAAACAAACAAATTAT
ACTTACCTAAAGATTTTAATAACACCGACATAGTCTAAATGACGGCACAACAAAAGATAAGTCGA
CAATGAAAAAACAATAGCAAGAGACGACAAAGGGGAATATGACAACAAATGTAAAAGAAACGAAA
GAAAAATGAAACAGAAAGAAGAAGAAGAAGAAGAAAATAACATCAAAGGAACAAAAAATGGAAAA
AAGAAATGAAAGTAATGGAAAGAGAGGAACATAAAAAATTTGGGAAAATTACTAAAATCCTCACT
CACCAGAAGAGTAAATGCCAAT
Found at i:53933362 original size:17 final size:17
Alignment explanation
Indices: 53933340--53933374 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
53933330 GAACTGTACA
53933340 TAGGTATAACATTCTGT
1 TAGGTATAACATTCTGT
*
53933357 TAGGTATAACTTTCTGT
1 TAGGTATAACATTCTGT
53933374 T
1 T
53933375 GTATCTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (17 bp):
TAGGTATAACATTCTGT
Found at i:53936972 original size:41 final size:41
Alignment explanation
Indices: 53936926--53937036 Score: 204
Period size: 41 Copynumber: 2.7 Consensus size: 41
53936916 CAGGCTTAGC
53936926 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
*
53936967 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
53937008 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
53937037 TTTAAATTAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
41 63 0.93
42 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:53944033 original size:41 final size:41
Alignment explanation
Indices: 53943976--53944127 Score: 259
Period size: 41 Copynumber: 3.7 Consensus size: 41
53943966 CAGGCTTAGC
* *
53943976 GCCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGACTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
53944017 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
* *
53944058 GCCTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
53944099 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
53944128 TTTAAATTAA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
41 100 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
Found at i:53945235 original size:18 final size:18
Alignment explanation
Indices: 53945209--53945248 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
53945199 GTGAAATATT
* *
53945209 AAGTGAAGTGTTTTATGA
1 AAGTAAAGTGTTATATGA
53945227 AAGTAAAGTGTTATATGA
1 AAGTAAAGTGTTATATGA
53945245 AAGT
1 AAGT
53945249 GAATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (18 bp):
AAGTAAAGTGTTATATGA
Found at i:53953225 original size:129 final size:129
Alignment explanation
Indices: 53952994--53953245 Score: 434
Period size: 129 Copynumber: 2.0 Consensus size: 129
53952984 AAAGTAGAAT
53952994 TAGAACTCGTACCTCTATAATATTGTGATGCACCAAATGGACGAGATTAACTTTATTGAAAATGT
1 TAGAACTCGTACCTCTATAATATTGTGATGCACCAAATGGACGAGATTAACTTTATTGAAAATGT
* *
53953059 TACATTGGCTATTGAAACGTTCAAGCCATCCACAAACTGCACAATGGTAGTCTCTTCACCATGG
66 TACATTAGCTATTGAAACGTTCAAGCCATCCAAAAACTGCACAATGGTAGTCTCTTCACCATGG
* *
53953123 TAGAACTCGTACCTCTATAATTTTGTGATGCACCAAATGGACGAGATTAACATTT-TTGAAGATG
1 TAGAACTCGTACCTCTATAATATTGTGATGCACCAAATGGACGAGATTAAC-TTTATTGAAAATG
* *
53953187 TTGCATTAGCTATTGAAACGTTCAAGCCATCCAAAAACTGCACCATGGTAGTCTCTTCA
65 TTACATTAGCTATTGAAACGTTCAAGCCATCCAAAAACTGCACAATGGTAGTCTCTTCA
53953246 TCTTGTCGGA
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
129 113 0.97
130 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (129 bp):
TAGAACTCGTACCTCTATAATATTGTGATGCACCAAATGGACGAGATTAACTTTATTGAAAATGT
TACATTAGCTATTGAAACGTTCAAGCCATCCAAAAACTGCACAATGGTAGTCTCTTCACCATGG
Found at i:53954525 original size:18 final size:18
Alignment explanation
Indices: 53954506--53954560 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
53954496 TTTTTTAAAT
53954506 TTTTTCT-TTTTTTCATA
1 TTTTTCTATTTTTTCATA
53954523 TTTTTCTATTTTTTCACT-
1 TTTTTCTATTTTTTCA-TA
** *
53954541 TTTTAATATTTTTTTATA
1 TTTTTCTATTTTTTCATA
53954559 TT
1 TT
53954561 CTAAAATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.25
18 23 0.72
19 1 0.03
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTCTATTTTTTCATA
Found at i:53954533 original size:26 final size:26
Alignment explanation
Indices: 53954504--53954553 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
53954494 AATTTTTTAA
** *
53954504 ATTTTTTCTTTTTTTCATATTTTTCT
1 ATTTTTTCACTTTTTAATATTTTTCT
53954530 ATTTTTTCACTTTTTAATATTTTT
1 ATTTTTTCACTTTTTAATATTTTT
53954554 TTATATTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTTTCACTTTTTAATATTTTTCT
Found at i:53959418 original size:19 final size:17
Alignment explanation
Indices: 53959394--53959455 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
53959384 TTCAAACAAA
*
53959394 TAATATTATTTTAATTATT
1 TAATATTAATTTAA-T-TT
53959413 TAATATTAATTTAATTT
1 TAATATTAATTTAATTT
* *
53959430 TAATATTTATCTTAATAT
1 TAATATTAAT-TTAATTT
53959448 TAA-ATTAA
1 TAATATTAA
53959456 AATTAATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.39
18 10 0.26
19 13 0.34
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATTAATTTAATTT
Found at i:53959424 original size:11 final size:11
Alignment explanation
Indices: 53959394--53959462 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 11
53959384 TTCAAACAAA
*
53959394 TAATATTATTT
1 TAATATTAATT
53959405 TAATTATTTAATAT
1 TAA-TA-TTAAT-T
53959419 TAAT-TTAATTT
1 TAATATTAA-TT
*
53959430 TAATATTTATCT
1 TAATATTAAT-T
*
53959442 TAATATTAAAT
1 TAATATTAATT
*
53959453 TAAAATTAAT
1 TAATATTAAT
53959463 GTTTATCTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
11 22 0.48
12 15 0.33
13 5 0.11
14 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:53959449 original size:29 final size:29
Alignment explanation
Indices: 53959408--53959471 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
53959398 ATTATTTTAA
* **
53959408 TTAT-TTAATATTAATTTAATTTTAATAT
1 TTATCTTAATATTAAATTAAAATTAATAT
*
53959436 TTATCTTAATATTAAATTAAAATTAATGT
1 TTATCTTAATATTAAATTAAAATTAATAT
53959465 TTATCTT
1 TTATCTT
53959472 GTATTTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 4 0.13
29 27 0.87
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
TTATCTTAATATTAAATTAAAATTAATAT
Found at i:53959450 original size:6 final size:6
Alignment explanation
Indices: 53959394--53959462 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
53959384 TTCAAACAAA
* * * *
53959394 TAATAT T-ATTT TAATTATT TAATAT TAAT-T TAATTT TAATAT TTATCT
1 TAATAT TAATAT TAA-TA-T TAATAT TAATAT TAATAT TAATAT TAATAT
*
53959442 TAATAT TAA-AT TAAAAT TAAT
1 TAATAT TAATAT TAATAT TAAT
53959463 GTTTATCTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
5 14 0.28
6 29 0.58
7 3 0.06
8 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (6 bp):
TAATAT
Found at i:53959453 original size:25 final size:26
Alignment explanation
Indices: 53959394--53959450 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
53959384 TTCAAACAAA
53959394 TAATATT-ATTTTAATTATTTAATAT
1 TAATATTAATTTTAATTATTTAATAT
*
53959419 TAAT-TTAATTTTAA-TATTT-ATCT
1 TAATATTAATTTTAATTATTTAATAT
53959442 TAATATTAA
1 TAATATTAA
53959451 ATTAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.24
24 11 0.38
25 11 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATATTAATTTTAATTATTTAATAT
Found at i:53966516 original size:42 final size:42
Alignment explanation
Indices: 53966468--53966616 Score: 149
Period size: 42 Copynumber: 3.6 Consensus size: 42
53966458 AGCTCGCATG
* **
53966468 GGGAGCTTTGCTGACATTCAACTTGTCACTTAAGCTCACGCA
1 GGGAGCTTCGCTGACACACAACTTGTCACTTAAGCTCACGCA
* * * * *
53966510 GGGAGCTCCGCTGACACACAACTTTTCCCTTAAGCTCATGTA
1 GGGAGCTTCGCTGACACACAACTTGTCACTTAAGCTCACGCA
** * *
53966552 GGGAGCTTCATTGATACACAACTTATCAC-TAAGCTCACG-A
1 GGGAGCTTCGCTGACACACAACTTGTCACTTAAGCTCACGCA
* *
53966592 GGGGAGCTTCACTGATACACAACTT
1 -GGGAGCTTCGCTGACACACAACTT
53966617 ATAAAACCGT
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
40 1 0.01
41 32 0.36
42 57 0.63
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (42 bp):
GGGAGCTTCGCTGACACACAACTTGTCACTTAAGCTCACGCA
Found at i:53966597 original size:41 final size:42
Alignment explanation
Indices: 53966486--53966618 Score: 162
Period size: 42 Copynumber: 3.2 Consensus size: 42
53966476 TGCTGACATT
* * * *
53966486 CAACTTGTCACTTAAGCTCACGCAGGGAGCTCCGCTGACACA
1 CAACTTATCACTTAAGCTCACGCAGGGAGCTTCACTGATACA
* * * * *
53966528 CAACTTTTCCCTTAAGCTCATGTAGGGAGCTTCATTGATACA
1 CAACTTATCACTTAAGCTCACGCAGGGAGCTTCACTGATACA
53966570 CAACTTATCAC-TAAGCTCACG-AGGGGAGCTTCACTGATACA
1 CAACTTATCACTTAAGCTCACGCA-GGGAGCTTCACTGATACA
53966611 CAACTTAT
1 CAACTTAT
53966619 AAAACCGTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.01
41 34 0.44
42 43 0.55
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
CAACTTATCACTTAAGCTCACGCAGGGAGCTTCACTGATACA
Found at i:53968224 original size:15 final size:16
Alignment explanation
Indices: 53968199--53968228 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53968189 CAGATTGTCT
53968199 AATATAGCTAAAATAC
1 AATATAGCTAAAATAC
53968215 AATA-AGCTAAAATA
1 AATATAGCTAAAATA
53968229 AAAATAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (16 bp):
AATATAGCTAAAATAC
Found at i:53974452 original size:30 final size:30
Alignment explanation
Indices: 53974416--53974481 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
53974406 AAAACAATAA
* * * *
53974416 GACACATGGCTGTGTGAGTAGGCCATGTGT
1 GACACATGACCGTGTGAGTAAGCCATGTGC
*
53974446 GACACATGACCGTGTGAGTAAGCCGTGTGC
1 GACACATGACCGTGTGAGTAAGCCATGTGC
53974476 GACACA
1 GACACA
53974482 CAGCCATGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.21
Consensus pattern (30 bp):
GACACATGACCGTGTGAGTAAGCCATGTGC
Found at i:53977862 original size:13 final size:13
Alignment explanation
Indices: 53977844--53977868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53977834 ATCGAAAGAG
53977844 TAGTTTAATGTTT
1 TAGTTTAATGTTT
53977857 TAGTTTAATGTT
1 TAGTTTAATGTT
53977869 GTCCTGCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
TAGTTTAATGTTT
Found at i:53985848 original size:50 final size:50
Alignment explanation
Indices: 53985725--53986015 Score: 275
Period size: 50 Copynumber: 5.7 Consensus size: 50
53985715 GATAATAACA
* * * *
53985725 TGCCAAAGCCATGT-CCAGACATGGTCTTACATGGGA-TGTTTCATGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCAG
* * * *
53985773 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAG
* ** * *
53985823 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCAG
* * * * * *
53985873 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAG
* * *
53985923 TACCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC-A-G
*
53985978 ATGCCAATACCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
53986016 TCTCTTTACC
Statistics
Matches: 201, Mismatches: 31, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
48 11 0.05
49 29 0.14
50 122 0.61
51 2 0.01
53 2 0.01
55 1 0.00
56 34 0.17
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCAG
Found at i:53985905 original size:100 final size:100
Alignment explanation
Indices: 53985727--53986020 Score: 306
Period size: 100 Copynumber: 2.9 Consensus size: 100
53985717 TAATAACATG
* ** * * *
53985727 CCAAAGCCATGT-CCAGACATGGTCTTACATGGGATGTTTCATGTAC--TACCAATGCCATATCC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCT-CGGTGCCAATGCCATGTCC
* ** *
53985789 CAGATATGGTCTTACATGGGAGTTCTCATATCAGTG
65 CAGACATGGTCTTACATGGGACCTCTCATATCAGTA
* * ** *
53985825 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAACGCCATGTCCC
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAATGCCATGTCCC
* * * *
53985890 AAACATGGTCTTACATGGGACCTCTCGTCTCGGTA
66 AGACATGGTCTTACATGGGACCTCTCATATCAGTA
* *
53985925 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAATACCA
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-T--TCATCTC--GG-TGCCAATGCCA
*
53985990 TGTCCCAGACATGGTCTTACATGGGATCTCT
60 TGTCCCAGACATGGTCTTACATGGGACCTCT
53986021 TTACCCAAAT
Statistics
Matches: 160, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
98 11 0.07
99 27 0.17
100 75 0.47
101 1 0.01
103 6 0.04
105 2 0.01
106 38 0.24
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (100 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAATGCCATGTCCC
AGACATGGTCTTACATGGGACCTCTCATATCAGTA
Found at i:53986266 original size:17 final size:17
Alignment explanation
Indices: 53986246--53986289 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
53986236 TACCACTTAG
53986246 TCTTCGATCTTATTCTT
1 TCTTCGATCTTATTCTT
53986263 TCTTCGATCTTATTCTT
1 TCTTCGATCTTATTCTT
*
53986280 TCCTCGATCT
1 TCTTCGATCT
53986290 AACCTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.11, C:0.27, G:0.07, T:0.55
Consensus pattern (17 bp):
TCTTCGATCTTATTCTT
Found at i:53986408 original size:30 final size:30
Alignment explanation
Indices: 53986374--53986431 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
53986364 CCTCGAGTCT
53986374 AACTTTGGA-AAAATTACAATTTTGCCCCTA
1 AACTTT-GACAAAATTACAATTTTGCCCCTA
* * *
53986404 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTGACAAAATTACAATTTTGCCCC
53986432 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:53988413 original size:9 final size:9
Alignment explanation
Indices: 53988398--53988447 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
53988388 TTTTGGTTAA
53988398 AAATTAACC
1 AAATTAACC
*
53988407 GAATTAACC
1 AAATTAACC
* *
53988416 GAATTACCC
1 AAATTAACC
*
53988425 CAATTAACC
1 AAATTAACC
53988434 AAATTAACC
1 AAATTAACC
53988443 AAATT
1 AAATT
53988448 GAATCACTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (9 bp):
AAATTAACC
Found at i:53988597 original size:18 final size:18
Alignment explanation
Indices: 53988554--53988597 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
53988544 TAATTTTATG
**
53988554 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
*
53988572 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
53988590 CTTGGGTT
1 ATTGGGTT
53988598 TAGATTGAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:54002165 original size:23 final size:23
Alignment explanation
Indices: 54002131--54002174 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
54002121 CTAAAATGAA
*
54002131 AATTTTTAAATAGTTCAATGATT
1 AATTTTTAAATAATTCAATGATT
*
54002154 AATTTATT-AATAATTTAATGA
1 AATTT-TTAAATAATTCAATGA
54002175 AAAAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (23 bp):
AATTTTTAAATAATTCAATGATT
Found at i:54003776 original size:19 final size:20
Alignment explanation
Indices: 54003754--54003803 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
54003744 AAAATTTACT
*
54003754 TATATATCTTACTTT-TAAA
1 TATATATCATACTTTGTAAA
*
54003773 TATACA-CATACTTTGTAAA
1 TATATATCATACTTTGTAAA
*
54003792 TACATATACATA
1 TATATAT-CATA
54003804 TATAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 7 0.29
19 13 0.54
21 4 0.17
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (20 bp):
TATATATCATACTTTGTAAA
Found at i:54011116 original size:92 final size:92
Alignment explanation
Indices: 54010957--54011147 Score: 310
Period size: 92 Copynumber: 2.1 Consensus size: 92
54010947 GCATTCCAAG
*
54010957 TAGAAGTATCTTCATTAATTAATTGATTCACCATAGTCCATCTAATATCAATGGTCTGACACAAG
1 TAGAAGTATCTTCATTAATTAACTGATTCACCATAGTCCATCTAATATCAATGGTCTGACACAAG
* * *
54011022 ACCCTCCCATCTCTAGGTTCTGGTAGC
66 ACCCTCCCATCTCCAGGTTCAGGCAGC
* * * *
54011049 TAGAAGTATCTTCATTAATTAACTGATTCACCATAGTCCATCTAATATTAATGTTTTGACACGAG
1 TAGAAGTATCTTCATTAATTAACTGATTCACCATAGTCCATCTAATATCAATGGTCTGACACAAG
54011114 ACCCTCCCATCTCCAGGTTCAGGCAGC
66 ACCCTCCCATCTCCAGGTTCAGGCAGC
54011141 TAGAAGT
1 TAGAAGT
54011148 CATTCCAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (92 bp):
TAGAAGTATCTTCATTAATTAACTGATTCACCATAGTCCATCTAATATCAATGGTCTGACACAAG
ACCCTCCCATCTCCAGGTTCAGGCAGC
Found at i:54019957 original size:15 final size:15
Alignment explanation
Indices: 54019937--54019965 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54019927 ATGCCTTACA
54019937 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
54019952 CACCGTGTTATCAA
1 CACCGTGTTATCAA
54019966 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:54022824 original size:73 final size:73
Alignment explanation
Indices: 54022705--54022856 Score: 286
Period size: 73 Copynumber: 2.1 Consensus size: 73
54022695 AAAGATTCAA
54022705 ACAATCCAAGCTGAAACTTTTAAAGTACGAAAGACTAGGTGTCTCCCATTATTTAAGTAATTACC
1 ACAATCCAAGCTGAAACTTTTAAAGTACGAAAGACTAGGTGTCTCCCATTATTTAAGTAATTACC
54022770 TTTAATTC
66 TTTAATTC
* *
54022778 ACAATCCAAGTTGAAATTTTTAAAGTACGAAAGACTAGGTGTCTCCCATTATTTAAGTAATTACC
1 ACAATCCAAGCTGAAACTTTTAAAGTACGAAAGACTAGGTGTCTCCCATTATTTAAGTAATTACC
54022843 TTTAATTC
66 TTTAATTC
54022851 ACAATC
1 ACAATC
54022857 GACAAGAACT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (73 bp):
ACAATCCAAGCTGAAACTTTTAAAGTACGAAAGACTAGGTGTCTCCCATTATTTAAGTAATTACC
TTTAATTC
Found at i:54026482 original size:20 final size:20
Alignment explanation
Indices: 54026457--54026505 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
54026447 GGACATGCCT
54026457 GTGTGTCCAGGCCATGTCCC
1 GTGTGTCCAGGCCATGTCCC
54026477 GTGTGTCCAGGCCATGTCCC
1 GTGTGTCCAGGCCATGTCCC
54026497 GTGTGTCCA
1 GTGTGTCCA
54026506 AGACGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.27
Consensus pattern (20 bp):
GTGTGTCCAGGCCATGTCCC
Found at i:54038118 original size:18 final size:18
Alignment explanation
Indices: 54038084--54038174 Score: 67
Period size: 19 Copynumber: 4.8 Consensus size: 18
54038074 ATAATTTTTG
*
54038084 TTAAAATATTGTAAAATTT
1 TTAAAA-ATTATAAAATTT
54038103 TTAAAAATTATAAAATTT
1 TTAAAAATTATAAAATTT
* *
54038121 GTTAAAATAAAATATAAAATTA
1 -TT--AA-AAATTATAAAATTT
*
54038143 TT-AAAATGATAAAATTT
1 TTAAAAATTATAAAATTT
* *
54038160 ATATAAAATAATAAA
1 TTA-AAAATTATAAA
54038175 TTAAAAAGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
17 12 0.21
18 12 0.21
19 18 0.31
21 4 0.07
22 12 0.21
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAAATTATAAAATTT
Found at i:54038139 original size:40 final size:40
Alignment explanation
Indices: 54038095--54038170 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
54038085 TAAAATATTG
* * *
54038095 TAAAATTTTTAAAAATTATAAAATTTGT-TAAAATAAAATA
1 TAAAATTATT-AAAATGATAAAATTTATATAAAATAAAATA
54038135 TAAAATTATTAAAATGATAAAATTTATATAAAATAA
1 TAAAATTATTAAAATGATAAAATTTATATAAAATAA
54038171 TAAATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 15 0.47
40 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
TAAAATTATTAAAATGATAAAATTTATATAAAATAAAATA
Found at i:54038148 original size:21 final size:23
Alignment explanation
Indices: 54038106--54038149 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
54038096 AAAATTTTTA
*
54038106 AAAATTATAAAATTTGTTAAAAT
1 AAAATTATAAAATTTATTAAAAT
54038129 AAAA-TATAAAA-TTATTAAAAT
1 AAAATTATAAAATTTATTAAAAT
54038150 GATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATTATAAAATTTATTAAAAT
Found at i:54038210 original size:10 final size:8
Alignment explanation
Indices: 54038129--54038205 Score: 50
Period size: 8 Copynumber: 9.1 Consensus size: 8
54038119 TTGTTAAAAT
54038129 AAAATATA
1 AAAATATA
* *
54038137 AAATTATT
1 AAAATATA
54038145 AAAATGATA
1 AAAAT-ATA
*
54038154 AAATTTATA
1 AAA-ATATA
54038163 TAAAATA-A
1 -AAAATATA
*
54038171 TAAAT-TA
1 AAAATATA
54038178 AAAAGGTTATA
1 AAAA---TATA
54038189 AAAATATA
1 AAAATATA
54038197 AAAATATA
1 AAAATATA
54038205 A
1 A
54038206 TAAAATTACA
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
7 8 0.15
8 24 0.45
9 10 0.19
10 5 0.09
11 6 0.11
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (8 bp):
AAAATATA
Found at i:54041979 original size:39 final size:39
Alignment explanation
Indices: 54041858--54041992 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
54041848 ATTTGGATAT
*
54041858 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTAGG
* * * * * *
54041897 AACAACGCCACTAAAGATCCAGTATTAGCGGCATTTTTTGG
1 AA-AACGCCGCTAAAAATCAAGCATTAGCGGC-GTTTTAGG
* *
54041938 AAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTCCGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTT-AGG
* *
54041977 AAAGCGCCGCAAAAAA
1 AAAACGCCGCTAAAAA
54041993 CCCAAGCACA
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.05
39 29 0.37
40 38 0.49
41 7 0.09
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTAGG
Found at i:54042072 original size:41 final size:41
Alignment explanation
Indices: 54042015--54042131 Score: 216
Period size: 41 Copynumber: 2.9 Consensus size: 41
54042005 TTTTTATTTT
54042015 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
54042056 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
54042097 TCGGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
54042132 AAAAAATATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.27
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Done.