Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 32 of 202
Found at i:9346224 original size:29 final size:29
Alignment explanation
Indices: 9346182--9346242 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
9346172 TAGTTTAGTC
9346182 ATTTCTTATTTTGGTAAGTGAGGGAGTTG
1 ATTTCTTATTTTGGTAAGTGAGGGAGTTG
9346211 ATTTCTTATTTTGGTAAGTGAGGGAGTTG
1 ATTTCTTATTTTGGTAAGTGAGGGAGTTG
9346240 ATT
1 ATT
9346243 CATGGTCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (29 bp):
ATTTCTTATTTTGGTAAGTGAGGGAGTTG
Found at i:9347346 original size:30 final size:30
Alignment explanation
Indices: 9347310--9347370 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
9347300 GAATCAAAGT
*
9347310 TAAGAAATTATTTTTTTAATA-TTTTTCATA
1 TAAGAAATT-CTTTTTTAATAGTTTTTCATA
*
9347340 TAAGAAATTCTTTTTTAATAGTTTTTTATA
1 TAAGAAATTCTTTTTTAATAGTTTTTCATA
9347370 T
1 T
9347371 TATTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (30 bp):
TAAGAAATTCTTTTTTAATAGTTTTTCATA
Found at i:9347701 original size:18 final size:18
Alignment explanation
Indices: 9347678--9347718 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9347668 AATAAACTTT
9347678 TTTTTGAAATATAATTTA
1 TTTTTGAAATATAATTTA
** *
9347696 TTTTTGTTATGTAATTTA
1 TTTTTGAAATATAATTTA
9347714 TTTTT
1 TTTTT
9347719 ACTCTACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTGAAATATAATTTA
Found at i:9349547 original size:6 final size:6
Alignment explanation
Indices: 9349538--9349570 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9349528 ATATTGATAT
9349538 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TGT
9349571 ATTGGCTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.52
Consensus pattern (6 bp):
TGTTAC
Found at i:9349636 original size:53 final size:53
Alignment explanation
Indices: 9349556--9349657 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
9349546 TTACTGTTAC
* * *
9349556 TGTTACTGTTACTGTATTGGCTAGCATGTTGTGCTATATGATTGATATGATAT
1 TGTTACTGTTACTGTATTGGCTAGCATGATATGCTACATGATTGATATGATAT
* **
9349609 TGTTACTGTTATTGTATTGTTTAGCATGATATGCTACATGATTGATATG
1 TGTTACTGTTACTGTATTGGCTAGCATGATATGCTACATGATTGATATG
9349658 CCATTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (53 bp):
TGTTACTGTTACTGTATTGGCTAGCATGATATGCTACATGATTGATATGATAT
Found at i:9351855 original size:9 final size:9
Alignment explanation
Indices: 9351841--9351877 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9351831 TATAGTTTGA
9351841 TATTCGAAT
1 TATTCGAAT
9351850 TATTCGAAT
1 TATTCGAAT
*
9351859 TATTCGAGT
1 TATTCGAAT
*
9351868 TATTTGAAT
1 TATTCGAAT
9351877 T
1 T
9351878 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9351947 original size:9 final size:9
Alignment explanation
Indices: 9351930--9351960 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9351920 TCGAGTTGAT
9351930 TCGAATAAC
1 TCGAATAAC
*
9351939 TCGATTAAC
1 TCGAATAAC
9351948 TCGAATAAC
1 TCGAATAAC
9351957 TCGA
1 TCGA
9351961 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9355616 original size:20 final size:20
Alignment explanation
Indices: 9355591--9355633 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9355581 TTTAGGTACC
9355591 TATCTAATGAGAAATGATTG
1 TATCTAATGAGAAATGATTG
9355611 TATCTAATGAGAAATGATTG
1 TATCTAATGAGAAATGATTG
9355631 TAT
1 TAT
9355634 GAAACAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (20 bp):
TATCTAATGAGAAATGATTG
Found at i:9356033 original size:12 final size:12
Alignment explanation
Indices: 9356016--9356041 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9356006 AGGATATGCA
9356016 ATCTTAGATATG
1 ATCTTAGATATG
9356028 ATCTTAGATATG
1 ATCTTAGATATG
9356040 AT
1 AT
9356042 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:9356064 original size:19 final size:20
Alignment explanation
Indices: 9356028--9356075 Score: 80
Period size: 19 Copynumber: 2.4 Consensus size: 20
9356018 CTTAGATATG
9356028 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
9356049 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
9356068 ATCTTAGA
1 ATCTTAGA
9356076 AGATATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:9356097 original size:23 final size:22
Alignment explanation
Indices: 9356033--9356098 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 22
9356023 ATATGATCTT
9356033 AGATATGATATATGCAATCTT---
1 AGATATG--ATATGCAATCTTAGA
9356054 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
9356076 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
9356099 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.31
21 7 0.18
22 8 0.21
23 12 0.31
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:9362399 original size:44 final size:45
Alignment explanation
Indices: 9362311--9362862 Score: 534
Period size: 44 Copynumber: 12.5 Consensus size: 45
9362301 GCAAATCAGT
* * *
9362311 GAAGATAGTAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9362355 GAAGATA-CAGATCTTATCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
9362399 GAAGAAAGCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
9362443 GAAGATAGTAGGTCCTGTCTTCCTGTATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
9362487 GAAGAT-GTAGATCTTGTCTTCCCATATTGGTAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* ** ** * * *
9362531 GAAGAAATTAGATCTTGTCTTTATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
9362575 GAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9362620 GAAGAT-GCAAATCTTGTGTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9362664 GAAGAAAGCAGATCTTGTCTTCATGA-ATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCT-ATATTGGTAGCGAAGTAGATC
* * *
9362708 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
9362752 GAAGATA-CAGATATTGTCTTCCTATACTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
9362796 GAAGAAAGCAGATCTTATCTTCATGTATTGGCA-TGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
*
9362840 GAAGATAGCAGATCTTGCCTTCC
1 GAAGATAGCAGATCTTGTCTTCC
9362863 AGCACTGACA
Statistics
Matches: 407, Mismatches: 89, Indels: 24
0.78 0.17 0.05
Matches are distributed among these distances:
43 66 0.16
44 249 0.61
45 91 0.22
46 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:9362824 original size:265 final size:264
Alignment explanation
Indices: 9362328--9362853 Score: 854
Period size: 265 Copynumber: 2.0 Consensus size: 264
9362318 GTAGGTCTTG
* *
9362328 TCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTATCTTCCCATATTGGTGGCGGAG
1 TCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATCTTATCTTCCCATATTGGTGGCGAAG
* *
9362393 TAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGATAGTAGGTCC
66 TAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTAGCGTGAAGTAGATCGAAGATAGCAGGTCC
* ** * *
9362458 TGTCTTCCTGTATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATATTGGTAGCGA
131 TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATACTGGTAGCGA
* ** * * *
9362523 AGTAGATTGAAGAAATTAGATCTTGTCTTTATGTATTGGCGTGAAGTAGATCGAAGATAGCAGAT
196 AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGAT
9362588 CCTA
261 CCTA
* * *
9362592 TCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAAATCTTGTGTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAAATCTTATCTTCCCATATTGGTGGCGAA
*
9362657 GTAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
65 GTAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTAGCGTGAAGTAGATCGAAGATAGCAGGTC
* *
9362722 CTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCTATACTGGTGGCG
130 CTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATACTGGTAGCG
9362787 AAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGA
195 AAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGA
9362852 TC
260 TC
9362854 TTGCCTTCCA
Statistics
Matches: 240, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
264 17 0.07
265 223 0.93
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (264 bp):
TCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAAATCTTATCTTCCCATATTGGTGGCGAAG
TAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTAGCGTGAAGTAGATCGAAGATAGCAGGTCC
TGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATACTGGTAGCGA
AGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGAT
CCTA
Found at i:9362862 original size:132 final size:132
Alignment explanation
Indices: 9362311--9362850 Score: 846
Period size: 132 Copynumber: 4.1 Consensus size: 132
9362301 GCAAATCAGT
* * *
9362311 GAAGATAGTAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTATCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* *
9362376 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
9362441 TC
131 TC
* * **
9362443 GAAGATAGTAGGTCCTGTCTTCCTGTATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* * ** *
9362508 CCATATTGGTAGCGAAGTAGATTGAAGAAATTAGATCTTGTCTTTATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
9362573 TC
131 TC
* * * * *
9362575 GAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAAATCTTGTGTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAGATCTTGTCTT
*
9362640 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
9362705 ATC
130 ATC
*
9362708 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
* * * *
9362773 CTATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
9362838 TC
131 TC
9362840 GAAGATAGCAG
1 GAAGATAGCAG
9362851 ATCTTGCCTT
Statistics
Matches: 371, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
132 250 0.67
133 121 0.33
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTC
CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:9362974 original size:265 final size:263
Alignment explanation
Indices: 9362383--9362977 Score: 595
Period size: 265 Copynumber: 2.2 Consensus size: 263
9362373 TTCCCATATT
* * * * * * ** * *
9362383 GGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAGA
1 GGTGGCGAAGCAGAGCGAAAAAAGCAGATCTTGCCTTCATGAACCAACGCGAAGTAGATCGAAGA
* * ** *
9362448 TAGTAGGTCCTGTCTTCCTGTATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATA
66 TAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATA
* * ** * * *
9362513 TTGGTAGCGAAGTAGATTGAAGAAATTAGATCTTGTCTTTATGTATTGGCGTGAAGTAGATCGAA
131 CTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAA
* * * ** ** ** * **
9362578 GATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAAATCTTGTGTTCCC
196 GATAGCAGATCCTACCTTCCTACACTGACAGCGAAGCAGATCGAAGACACAAACCTTGTCCTCCC
*
9362643 ATATT
261 --ATG
* * * * **** *
9362648 GGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGAATTGGCGTGAAGTAGATCGAAGA
1 GGTGGCGAAGCAGAGCGAAAAAAGCAGATCTTGCCTTCATGAACCAACGCGAAGTAGATCGAAGA
*
9362713 TAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCTATA
66 TAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATA
*
9362778 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAA
131 CTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAA
* * * *
9362843 GATAGCAGATCTTGCCTTCC-AGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTG-CCTCC
196 GATAGCAGATCCTACCTTCCTA-CACTGACAGCGAAGCAGATCGAAGACACAAACCTTGTCCTCC
9362906 C-TG
260 CATG
* * * * *
9362909 GGTTGCAGCGGAGCAG-GCTAAAAATAGCAGATCTTGCCTTCTTGCACCAACAGCGAAGCAGATC
1 GG-TG--GCGAAGCAGAGCGAAAAA-AGCAGATCTTGCCTTCATGAACCAAC-GCGAAGTAGATC
9362973 GAAGA
61 GAAGA
9362978 CACCAGCCTT
Statistics
Matches: 276, Mismatches: 48, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
261 3 0.01
262 2 0.01
263 5 0.02
264 31 0.11
265 235 0.85
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (263 bp):
GGTGGCGAAGCAGAGCGAAAAAAGCAGATCTTGCCTTCATGAACCAACGCGAAGTAGATCGAAGA
TAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATACAGATATTGTCTTCCCATA
CTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAA
GATAGCAGATCCTACCTTCCTACACTGACAGCGAAGCAGATCGAAGACACAAACCTTGTCCTCCC
ATG
Found at i:9363106 original size:88 final size:88
Alignment explanation
Indices: 9362844--9363073 Score: 370
Period size: 88 Copynumber: 2.6 Consensus size: 88
9362834 TAGATCGAAG
* * *
9362844 ATAGCAGATCTTGCCTTCCAGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
*
9362909 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* **
9362932 ATAGCAGATCTTGCCTTCTTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
*
9362997 GGTTGCAGCGGAGCAAGTTAAAA
66 GGTTGCAGCGGAGCAGGTTAAAA
* *
9363020 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGATGACCCCAGCC
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCC
9363074 CTATCTCCCT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 129 1.00
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
GGTTGCAGCGGAGCAGGTTAAAA
Found at i:9363138 original size:44 final size:44
Alignment explanation
Indices: 9363073--9363282 Score: 289
Period size: 44 Copynumber: 4.8 Consensus size: 44
9363063 TGACCCCAGC
*
9363073 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
9363117 CCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
9363161 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
*
9363205 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
9363249 CCCATCTCCCTGAG-CAGCAGTGGAGTAAGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
9363283 AATAGCAGAT
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
43 1 0.01
44 142 0.98
45 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:9364087 original size:12 final size:12
Alignment explanation
Indices: 9364070--9364095 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9364060 AGGATATGCA
9364070 ATCTTAGATATG
1 ATCTTAGATATG
9364082 ATCTTAGATATG
1 ATCTTAGATATG
9364094 AT
1 AT
9364096 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:9364136 original size:17 final size:19
Alignment explanation
Indices: 9364082--9364129 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
9364072 CTTAGATATG
9364082 ATCTTAGATATGATATATGCA
1 ATCTTAGATATG--ATATGCA
*
9364103 ATCTTATATATGATATGCA
1 ATCTTAGATATGATATGCA
9364122 ATCTTAGA
1 ATCTTAGA
9364130 AGATATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
ATCTTAGATATGATATGCA
Found at i:9364138 original size:22 final size:23
Alignment explanation
Indices: 9364087--9364152 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
9364077 ATATGATCTT
9364087 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGCAATCTTAGA
*
9364108 ATATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
9364130 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
9364153 GATTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 11 0.30
21 7 0.19
22 7 0.19
23 12 0.32
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:9364444 original size:20 final size:21
Alignment explanation
Indices: 9364419--9364487 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
9364409 CGATTTAGTC
9364419 TTTTATT-ATTTATTATTTAT
1 TTTTATTAATTTATTATTTAT
*
9364439 TTTTATTAAATTTGA-T-TTTCT
1 TTTTATT-AATTT-ATTATTTAT
* *
9364460 TGTTATTAAGTTATTA-TTAT
1 TTTTATTAATTTATTATTTAT
9364480 TTTTATTA
1 TTTTATTA
9364488 TTATCATCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.03
20 22 0.56
21 10 0.26
22 5 0.13
23 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATTAATTTATTATTTAT
Found at i:9364644 original size:33 final size:32
Alignment explanation
Indices: 9364600--9364705 Score: 89
Period size: 33 Copynumber: 3.4 Consensus size: 32
9364590 ATATTATATA
*
9364600 TATATATATATATTATTCTATTTGCATAACTTT
1 TATATACATATATTATTCTATTT-CATAACTTT
* *
9364633 TATATACATATA-TATAC-ATTT-A-CA-TTT
1 TATATACATATATTATTCTATTTCATAACTTT
* *
9364660 TATATACATATACATT-TTTTATTTCCTAACTTT
1 TATATACATAT--ATTATTCTATTTCATAACTTT
*
9364693 TATATGCATATAT
1 TATATACATATAT
9364706 ATATACTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
27 14 0.24
28 1 0.02
29 3 0.05
30 5 0.09
31 6 0.10
32 5 0.09
33 24 0.41
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.52
Consensus pattern (32 bp):
TATATACATATATTATTCTATTTCATAACTTT
Found at i:9364665 original size:17 final size:17
Alignment explanation
Indices: 9364634--9364677 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9364624 CATAACTTTT
*
9364634 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
9364650 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
9364667 ATATACATTTT
1 ATATACATTTT
9364678 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:9364850 original size:29 final size:29
Alignment explanation
Indices: 9364818--9364881 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
9364808 ATTAATTTTA
9364818 ATATATGCAATTAT-TATTTGTTTAT-ATAT
1 ATATATGCAATTATCT-TTT-TTTATAATAT
* * *
9364847 ATATGTGTAATTATCTTTTTTTATAATCT
1 ATATATGCAATTATCTTTTTTTATAATAT
9364876 ATATAT
1 ATATAT
9364882 ATGTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.17
29 23 0.79
30 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (29 bp):
ATATATGCAATTATCTTTTTTTATAATAT
Found at i:9364897 original size:31 final size:34
Alignment explanation
Indices: 9364842--9364903 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
9364832 TATTTGTTTA
* *
9364842 TATATATATGTGTAATTATCTTTTTT-TATAATC
1 TATATATATGTATAATAATCTTTTTTATATAATC
9364875 TATATATATGTAT-ATAAT-TTTTTTATATA
1 TATATATATGTATAATAATCTTTTTTATATA
9364904 TGTACATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 8 0.31
33 12 0.46
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (34 bp):
TATATATATGTATAATAATCTTTTTTATATAATC
Found at i:9365369 original size:13 final size:13
Alignment explanation
Indices: 9365351--9365377 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9365341 CCTAACGTAT
9365351 TGGATGTGACACG
1 TGGATGTGACACG
9365364 TGGATGTGACACG
1 TGGATGTGACACG
9365377 T
1 T
9365378 TGATTTCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (13 bp):
TGGATGTGACACG
Found at i:9366199 original size:16 final size:17
Alignment explanation
Indices: 9366165--9366201 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9366155 TACAGAAATG
9366165 TATAAAACATCAGATTT
1 TATAAAACATCAGATTT
*
9366182 TATAAAATATCA-ATTT
1 TATAAAACATCAGATTT
9366198 TATA
1 TATA
9366202 TATCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAAACATCAGATTT
Found at i:9368587 original size:17 final size:18
Alignment explanation
Indices: 9368565--9368598 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9368555 TTAATTACTA
9368565 AAATTT-AAAATTATTTT
1 AAATTTGAAAATTATTTT
*
9368582 AAATTTGAAATTTATTT
1 AAATTTGAAAATTATTT
9368599 AAAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AAATTTGAAAATTATTTT
Found at i:9368748 original size:7 final size:7
Alignment explanation
Indices: 9368736--9368765 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
9368726 TTTTGCATGC
9368736 AAAATAA
1 AAAATAA
9368743 AAAATAA
1 AAAATAA
9368750 AAAATAA
1 AAAATAA
9368757 AAAATAA
1 AAAATAA
9368764 AA
1 AA
9368766 TATTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:9368797 original size:21 final size:23
Alignment explanation
Indices: 9368762--9368805 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
9368752 AATAAAAAAT
9368762 AAAATATTAATTTTTTATTTTTA
1 AAAATATTAATTTTTTATTTTTA
9368785 AAAATA-T-ATTTTTTATTTTTA
1 AAAATATTAATTTTTTATTTTTA
9368806 GCACTAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 14 0.67
22 1 0.05
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
AAAATATTAATTTTTTATTTTTA
Found at i:9372788 original size:24 final size:22
Alignment explanation
Indices: 9372747--9372790 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
9372737 CATTAATCAA
*
9372747 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
9372769 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
9372791 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:9373069 original size:25 final size:25
Alignment explanation
Indices: 9373001--9373073 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
9372991 ACGAGTTGTA
9373001 AACGGTAAGCTACTCT-GAGCTGAAT
1 AACGGTAAGCT-CTCTCGAGCTGAAT
* * *
9373026 AACAGTAAACTCAT-GCGAGCTGAAT
1 AACGGTAAGCTC-TCTCGAGCTGAAT
*
9373051 ATCGGTAAGCTCTCTCGAGCTGA
1 AACGGTAAGCTCTCTCGAGCTGA
9373074 GAATTGGTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCTCTCGAGCTGAAT
Found at i:9375751 original size:24 final size:24
Alignment explanation
Indices: 9375712--9375760 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9375702 CGCAACACGA
*
9375712 CAACCCTGTGTCGCAACACCAAGG
1 CAACCCTATGTCGCAACACCAAGG
*
9375736 CAACCCTATGTTGCAACACCAAGG
1 CAACCCTATGTCGCAACACCAAGG
9375760 C
1 C
9375761 CAGAATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.37, G:0.18, T:0.14
Consensus pattern (24 bp):
CAACCCTATGTCGCAACACCAAGG
Found at i:9378373 original size:16 final size:16
Alignment explanation
Indices: 9378352--9378382 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9378342 TTTAGGAACA
9378352 AAAATGTAATTTTTCC
1 AAAATGTAATTTTTCC
*
9378368 AAAATGTGATTTTTC
1 AAAATGTAATTTTTC
9378383 GATTGGATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (16 bp):
AAAATGTAATTTTTCC
Found at i:9378723 original size:101 final size:99
Alignment explanation
Indices: 9378608--9378883 Score: 329
Period size: 101 Copynumber: 2.7 Consensus size: 99
9378598 AAAGTGATGG
* *
9378608 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAATGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGAAATGTCACATGTGTAGTAC
* * *
9378673 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
65 TATGTGCAGGCTACTACGCGAACCGGAAAG-TTCAA
* * *
9378709 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAT-TAATGATCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GA-ATGAAATG-TCACATGTGTAGT
* * **
9378773 ACTATGTGCAGGCTACTACGTGAACTGGAAAGTTTGA
63 ACTATGTGCAGGCTACTACGCGAACCGGAAAGTTCAA
* * * * *
9378810 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGA-AAT-GTCACATGTGTAGTA
9378875 CTATGTGCA
64 CTATGTGCA
9378884 AACCACCGAA
Statistics
Matches: 150, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
99 2 0.01
100 2 0.01
101 104 0.69
102 42 0.28
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGAAATGTCACATGTGTAGTACT
ATGTGCAGGCTACTACGCGAACCGGAAAGTTCAA
Found at i:9378730 original size:51 final size:49
Alignment explanation
Indices: 9378608--9378846 Score: 273
Period size: 51 Copynumber: 4.8 Consensus size: 49
9378598 AAAGTGATGG
* *
9378608 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATTAAA
* * * *
9378656 TGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
1 --TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA--TTAAA
* *
9378709 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATATTAATGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATTAA--A
* * * **
9378760 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACTGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-TTAAA
* *
9378810 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
9378847 TCGAATGATA
Statistics
Matches: 161, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 3 0.02
50 73 0.45
51 80 0.50
52 2 0.01
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATTAAA
Found at i:9384607 original size:51 final size:50
Alignment explanation
Indices: 9384487--9384674 Score: 232
Period size: 50 Copynumber: 3.7 Consensus size: 50
9384477 AAAGTGATGG
* * * * *** *
9384487 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTTCGA
* * * *
9384537 TCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAG-TTCGA
* *
9384588 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTTCGA
*
9384638 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
9384675 TCGAATGATA
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
50 76 0.65
51 41 0.35
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGTTCGA
Found at i:9384647 original size:101 final size:101
Alignment explanation
Indices: 9384487--9384674 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 101
9384477 AAAGTGATGG
* * * * * * *
9384487 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGAAAGATCACATGTGTAGTAC
* *
9384552 TATGTGCAGGCTACTATGTGTACCAGATAGCTTCGA
66 TATGTGAAGGCTACTACGTGTACCAGATAGCTTCGA
*** *
9384588 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGATCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGAAAGATCACATGTGTAGTAC
9384653 TATGTGAAGGCTACTACGTGTA
66 TATGTGAAGGCTACTACGTGTA
9384675 TCGAATGATA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGAAAGATCACATGTGTAGTAC
TATGTGAAGGCTACTACGTGTACCAGATAGCTTCGA
Found at i:9390432 original size:23 final size:23
Alignment explanation
Indices: 9390385--9390529 Score: 75
Period size: 23 Copynumber: 6.3 Consensus size: 23
9390375 GGAGAAAGTG
* * *
9390385 CTACTGGCAGTTTAGTCGCATAT
1 CTACTGGCAGTTCATTCGCAAAT
*
9390408 CTACTGGCAGTTCATTTGCAAAT
1 CTACTGGCAGTTCATTCGCAAAT
* * * *
9390431 CTATCGTTG--GTTTACTCGTAAAT
1 CTA-C-TGGCAGTTCATTCGCAAAT
*
9390454 CAACTGGCAGTTCA-TCTGCAAAT
1 CTACTGGCAGTTCATTC-GCAAAT
* * * *
9390477 CTATTGTC-GATTTATCCGCAAAT
1 CTACTGGCAG-TTCATTCGCAAAT
* *
9390500 CTACTAGCAATTCATAT-GCAAAT
1 CTACTGGCAGTTCAT-TCGCAAAT
9390523 CTACTGG
1 CTACTGG
9390530 TGGTTCGTCC
Statistics
Matches: 88, Mismatches: 25, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
21 2 0.02
22 4 0.05
23 78 0.89
24 2 0.02
25 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (23 bp):
CTACTGGCAGTTCATTCGCAAAT
Found at i:9390463 original size:46 final size:46
Alignment explanation
Indices: 9390401--9390525 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
9390391 GCAGTTTAGT
* * * * *
9390401 CGCATATCTACTGGCAGTTCATTTGCAAATCTATCGTTGGTTTA-C
1 CGCAAATCAACTGGCAGTTCATATGCAAATCTATCGTCGATTTATC
* * *
9390446 TCGTAAATCAACTGGCAGTTCATCTGCAAATCTATTGTCGATTTATC
1 -CGCAAATCAACTGGCAGTTCATATGCAAATCTATCGTCGATTTATC
* * *
9390493 CGCAAATCTACTAGCAATTCATATGCAAATCTA
1 CGCAAATCAACTGGCAGTTCATATGCAAATCTA
9390526 CTGGTGGTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 65 0.98
47 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CGCAAATCAACTGGCAGTTCATATGCAAATCTATCGTCGATTTATC
Found at i:9392999 original size:6 final size:6
Alignment explanation
Indices: 9392988--9393022 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9392978 TATTAACAAC
9392988 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
9393023 TTTATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:9397699 original size:6 final size:6
Alignment explanation
Indices: 9397673--9397719 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
9397663 AAAAATCATA
*
9397673 AAAAAT AAATAAT CTAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAA-AAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
9397720 CCAAACTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 29 0.78
7 6 0.16
8 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:9403682 original size:60 final size:60
Alignment explanation
Indices: 9403583--9403702 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
9403573 AGGGAATGAT
* * *
9403583 CCTAGCCTAAATGATAATCTAAATGGTTAAGATATTAATCCT-ATTGTTCATAGGGTGGTA
1 CCTAGCCTAAATGATAATCTAAATGGTCAAGACACTAATCCTCA-TGTTCATAGGGTGGTA
* * * * *
9403643 CCTAGTCTGAATGATAATCTAAATGGTCAGGACGCTAATCCTCATGTTCGTAGGGTGGTA
1 CCTAGCCTAAATGATAATCTAAATGGTCAAGACACTAATCCTCATGTTCATAGGGTGGTA
9403703 GATGATCGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (60 bp):
CCTAGCCTAAATGATAATCTAAATGGTCAAGACACTAATCCTCATGTTCATAGGGTGGTA
Found at i:9409484 original size:27 final size:27
Alignment explanation
Indices: 9409429--9409484 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
9409419 TAATTACAAT
* *
9409429 TTAATATGTTTATAATTTAAGTGTAAA
1 TTAATATGTTTATAATTAAAGTATAAA
*
9409456 TTAATGAT-TTTATAATTAAAGTATGAA
1 TTAAT-ATGTTTATAATTAAAGTATAAA
9409483 TT
1 TT
9409485 TAGAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (27 bp):
TTAATATGTTTATAATTAAAGTATAAA
Found at i:9412288 original size:24 final size:23
Alignment explanation
Indices: 9412236--9412288 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
9412226 TGCTGCCGAG
*
9412236 GAGCCTACTCAAACTATTGTTGT
1 GAGCCTACTCAAACTATTGTTGA
* *
9412259 GAAGCCTACTCAACCTGTTGTTGAA
1 G-AGCCTACTCAAACTATTGTTG-A
9412284 GAGCC
1 GAGCC
9412289 CGAATAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (23 bp):
GAGCCTACTCAAACTATTGTTGA
Found at i:9417681 original size:16 final size:17
Alignment explanation
Indices: 9417655--9417692 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
9417645 GTCTTATTCT
9417655 TTTTTCATTTCT-TCC-
1 TTTTTCATTTCTATCCA
9417670 TTTTTCATTTTCTATCCA
1 TTTTTCA-TTTCTATCCA
9417688 TTTTT
1 TTTTT
9417693 GCAAACAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 5 0.25
17 3 0.15
18 5 0.25
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTCATTTCTATCCA
Found at i:9420754 original size:7 final size:7
Alignment explanation
Indices: 9420742--9420770 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9420732 TAATTAAATA
9420742 TTTTATT
1 TTTTATT
9420749 TTTTATT
1 TTTTATT
9420756 TTTTATT
1 TTTTATT
9420763 TTTTATT
1 TTTTATT
9420770 T
1 T
9420771 ACCTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTATT
Found at i:9424681 original size:57 final size:60
Alignment explanation
Indices: 9424588--9424735 Score: 214
Period size: 57 Copynumber: 2.5 Consensus size: 60
9424578 ACCCTAATTC
* * *
9424588 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
9424646 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
9424707 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
9424736 ACCGTCAATT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
56 6 0.08
57 45 0.56
60 1 0.01
61 1 0.01
62 21 0.26
63 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:9435884 original size:19 final size:19
Alignment explanation
Indices: 9435830--9435884 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
9435820 ACTCATTTCC
*
9435830 TTAATTATTTTTAATCTCAAT
1 TTAATT-TTTTAAAT-TCAAT
* *
9435851 TTAATTTTTAAAATTCATT
1 TTAATTTTTTAAATTCAAT
*
9435870 TTAATTTTTTCAATT
1 TTAATTTTTTAAATT
9435885 TTTTAAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 17 0.59
20 6 0.21
21 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTTTTAAATTCAAT
Found at i:9436154 original size:38 final size:37
Alignment explanation
Indices: 9436087--9436199 Score: 145
Period size: 38 Copynumber: 3.0 Consensus size: 37
9436077 TTCATCCTTT
*
9436087 TGAATACATGTTAAAGCATGTTTACTGCTAGTGTTGAA
1 TGAATACATGTT-AAGCATGTTTACTGCTAGTGATGAA
* * *
9436125 CTGAATACACGTTAAGCATGTTAATTGCTAGTGATGAA
1 -TGAATACATGTTAAGCATGTTTACTGCTAGTGATGAA
* *
9436163 TCAAATACATGTTAATCATGTTTACTGCTAGTGATGA
1 T-GAATACATGTTAAGCATGTTTACTGCTAGTGATGA
9436200 TTCGTTCTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.02
38 52 0.81
39 11 0.17
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (37 bp):
TGAATACATGTTAAGCATGTTTACTGCTAGTGATGAA
Found at i:9436366 original size:21 final size:21
Alignment explanation
Indices: 9436342--9436393 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
9436332 ATATGTTGTG
*
9436342 TATCCACAATAAGTGGTAGTT
1 TATCCACAATAAGTAGTAGTT
* * *
9436363 TATCTACAAATTAGTAGTGGTT
1 TATCCAC-AATAAGTAGTAGTT
9436385 TATCCACAA
1 TATCCACAA
9436394 CCCAAAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
TATCCACAATAAGTAGTAGTT
Found at i:9437807 original size:36 final size:36
Alignment explanation
Indices: 9437756--9437827 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
9437746 TCAAGCTTTG
* * *
9437756 ATTCTAGTATGTTCATGTCCTTATAGGTGGTTACCT
1 ATTCTAGTATATTCATGTCCTCATAGATGGTTACCT
*
9437792 ATTCTAGTATATTCATGTCCTCATCGATGGTTACCT
1 ATTCTAGTATATTCATGTCCTCATAGATGGTTACCT
9437828 TCTTACAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (36 bp):
ATTCTAGTATATTCATGTCCTCATAGATGGTTACCT
Found at i:9438130 original size:33 final size:33
Alignment explanation
Indices: 9438084--9438148 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
9438074 CTTGCATGAT
* *
9438084 GATGCGAAACCACCATGTGCGAGCTCATGTAAG
1 GATGCGAAACCACCATATGCGAACTCATGTAAG
9438117 GATGC-AAACCCACCATATGCGAACTCATGTAA
1 GATGCGAAA-CCACCATATGCGAACTCATGTAA
9438149 ACGAACTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (33 bp):
GATGCGAAACCACCATATGCGAACTCATGTAAG
Found at i:9439829 original size:26 final size:26
Alignment explanation
Indices: 9439800--9439852 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
9439790 ATTAAATTAA
* *
9439800 AATTATCATAAATATAATTATTATTT
1 AATTATCATAAAGATAAATATTATTT
9439826 AATTATCATAAAGATAAATATTATTT
1 AATTATCATAAAGATAAATATTATTT
9439852 A
1 A
9439853 TCTTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTATCATAAAGATAAATATTATTT
Found at i:9442289 original size:125 final size:123
Alignment explanation
Indices: 9442099--9442433 Score: 528
Period size: 123 Copynumber: 2.7 Consensus size: 123
9442089 GTTTCTAATA
* *
9442099 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTAAAATCGCAGCCTCGT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAAATCGCGGCCTCGT
*
9442164 GGATGCGCTTTTGCTACAGTAGGGCACTG-AAGAAATAATTATTTTTTGACGTTTCTGAGC
66 GGACGCGCTTTTGCTACAGTAGGGCA-TGTAAGAAAT-ATT-TTTTTTGACGTTTCTGAGC
* * *
9442224 AAATAGTATAATATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGGCCTCGT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAAATCGCGGCCTCGT
* * * *
9442289 GGACGCGCTTTTGCTACAGGAGGTCATGTAAGAAATATTTTTTTTGACTTTTCTGGGC
66 GGACGCGCTTTTGCTACAGTAGGGCATGTAAGAAATATTTTTTTTGACGTTTCTGAGC
* *
9442347 AAATAGTATAAAACCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAAATCGCGGCCTCCT
1 AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAAATCGCGGCCTCGT
9442412 GGACGCGCTTTTGCTACAGTAG
66 GGACGCGCTTTTGCTACAGTAG
9442434 CATGTTTGGG
Statistics
Matches: 193, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
123 98 0.51
124 5 0.03
125 90 0.47
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (123 bp):
AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTGTGAAATCGCGGCCTCGT
GGACGCGCTTTTGCTACAGTAGGGCATGTAAGAAATATTTTTTTTGACGTTTCTGAGC
Found at i:9444517 original size:29 final size:29
Alignment explanation
Indices: 9444441--9444722 Score: 466
Period size: 29 Copynumber: 9.9 Consensus size: 29
9444431 AATATCCATC
9444441 TAATTAAATTAGG-T-GGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
* *
9444468 TAATCAAATTAGGTTA-GGTTAGAGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
9444496 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
*
9444525 TAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
*
9444554 TAATCAAATTAGGTTA-GGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
9444582 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
* *
9444611 TAATCAAATTAAGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
*
9444640 TAATTAAATTAGGTTAAGGTTAGGG-TTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
9444668 TAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTT
9444697 TAATTAAATTAGGTTAGGGTTAGGGT
1 TAATTAAATTAGGTTAGGGTTAGGGT
9444723 ATGAAATAAA
Statistics
Matches: 238, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
27 12 0.05
28 81 0.34
29 145 0.61
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (29 bp):
TAATTAAATTAGGTTAGGGTTAGGGTTTT
Found at i:9444527 original size:57 final size:58
Alignment explanation
Indices: 9444441--9444722 Score: 466
Period size: 57 Copynumber: 4.9 Consensus size: 58
9444431 AATATCCATC
* *
9444441 TAATTAAATTAGG-T-GGGTTAGGGTTTTTAATCAAATTAGGTTA-GGTTAGAGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
*
9444496 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
*
9444554 TAATCAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
* * *
9444611 TAATCAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
9444668 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
9444723 ATGAAATAAA
Statistics
Matches: 214, Mismatches: 8, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
55 13 0.06
56 1 0.00
57 138 0.64
58 62 0.29
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (58 bp):
TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
Found at i:9444597 original size:86 final size:86
Alignment explanation
Indices: 9444441--9444722 Score: 489
Period size: 86 Copynumber: 3.3 Consensus size: 86
9444431 AATATCCATC
* *
9444441 TAATTAAATTAGG-T-GGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGAGTTTTTAATTAAA
1 TAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
9444504 TTAGGTTAGGGTTAGGGTTTT
66 TTAGGTTAGGGTTAGGGTTTT
9444525 TAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
9444590 TTAGGTTAGGGTTAGGGTTTT
66 TTAGGTTAGGGTTAGGGTTTT
* *
9444611 TAATCAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAA
1 TAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTT-AGGTTAGGGTTTTTAATTAA
9444675 ATTAGGTTAGGGTTAGGGTTTT
65 ATTAGGTTAGGGTTAGGGTTTT
*
9444697 TAATTAAATTAGGTTAGGGTTAGGGT
1 TAATCAAATTAGGTTAGGGTTAGGGT
9444723 ATGAAATAAA
Statistics
Matches: 189, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
84 12 0.06
85 1 0.01
86 167 0.88
87 9 0.05
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (86 bp):
TAATCAAATTAGGTTAGGGTTAGGGTTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
TTAGGTTAGGGTTAGGGTTTT
Found at i:9445977 original size:15 final size:15
Alignment explanation
Indices: 9445957--9445988 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9445947 NNNNNNNNGT
*
9445957 TTTAATTAAATTAGG
1 TTTAATCAAATTAGG
9445972 TTTAATCAAATTAGG
1 TTTAATCAAATTAGG
9445987 TT
1 TT
9445989 AGGGTTAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (15 bp):
TTTAATCAAATTAGG
Found at i:9446006 original size:29 final size:29
Alignment explanation
Indices: 9445972--9446157 Score: 248
Period size: 29 Copynumber: 6.2 Consensus size: 29
9445962 TTAAATTAGG
*
9445972 TTTAATCAAATTAGGTTAGGGTTAGAGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTT
9446001 TTTAATCAAATTAGGTTA-GGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTT
*
9446029 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 TTTAATCAAATTAGGTTAGGGTTAGGG-------TT
*
9446065 TTTAATCAAATTGGGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTT
*
9446094 TTTAATCAAATTACGTTAGGGTTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTT
* *
9446123 TTTAATCAAATAAGGTTAGGGGTAGGGTT
1 TTTAATCAAATTAGGTTAGGGTTAGGGTT
9446152 TTTAAT
1 TTTAAT
9446158 TACATCAAAT
Statistics
Matches: 140, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
28 26 0.19
29 87 0.62
36 27 0.19
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (29 bp):
TTTAATCAAATTAGGTTAGGGTTAGGGTT
Found at i:9446018 original size:23 final size:25
Alignment explanation
Indices: 9445972--9446047 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 25
9445962 TTAAATTAGG
9445972 TTTAATCAAATTAGGTTAGGGTTAGAGTT
1 TTTAATCAAATTAGGTTA--G-TAG-GTT
9446001 TTTAATCAAATTAGGTTAGGTTAGGGTT
1 TTTAATCAAATTAGGTTA-G-TA-GGTT
*
9446029 TTTAATTAAATTAGGTTAG
1 TTTAATCAAATTAGGTTAG
9446048 GGTTAGGGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 1 0.02
28 25 0.56
29 19 0.42
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (25 bp):
TTTAATCAAATTAGGTTAGTAGGTT
Found at i:9446069 original size:36 final size:36
Alignment explanation
Indices: 9446027--9446128 Score: 128
Period size: 36 Copynumber: 3.0 Consensus size: 36
9446017 TAGGTTAGGG
*
9446027 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAA
*
9446063 TTTTTAATCAAATTGGGTTAGGGTTAGGG-------
1 TTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAA
*
9446092 TTTTTAATCAAATTACGTTAGGGTTAGGGTTTTTAA
1 TTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAA
9446128 T
1 T
9446129 CAAATAAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
29 27 0.49
36 28 0.51
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (36 bp):
TTTTTAATCAAATTAGGTTAGGGTTAGGGTTTTTAA
Found at i:9446105 original size:65 final size:64
Alignment explanation
Indices: 9445999--9446128 Score: 224
Period size: 65 Copynumber: 2.0 Consensus size: 64
9445989 AGGGTTAGAG
* *
9445999 TTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATCAAATTACGTTAGGGTTAGGGTTTTTAA
*
9446063 TTTTTAATCAAATTGGGTTAGGGTTAGGGTTTTTAATCAAATTACGTTAGGGTTAGGGTTTTTAA
1 TTTTTAATCAAATTAGGTTA-GGTTAGGGTTTTTAATCAAATTACGTTAGGGTTAGGGTTTTTAA
9446128 T
1 T
9446129 CAAATAAGGT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
64 19 0.31
65 43 0.69
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.46
Consensus pattern (64 bp):
TTTTTAATCAAATTAGGTTAGGTTAGGGTTTTTAATCAAATTACGTTAGGGTTAGGGTTTTTAA
Found at i:9446222 original size:25 final size:25
Alignment explanation
Indices: 9446187--9446264 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
9446177 ATAACTCGAA
*
9446187 AAAATTTCTATTTTACTACATCAAAT
1 AAAA-TTCTATTTTATTACATCAAAT
*
9446213 AAAATTCTATTTTATTACATAAAAT
1 AAAATTCTATTTTATTACATCAAAT
* *
9446238 AAACTTCTATTTTATTACATCGAAT
1 AAAATTCTATTTTATTACATCAAAT
9446263 AA
1 AA
9446265 TATCAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 43 0.91
26 4 0.09
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (25 bp):
AAAATTCTATTTTATTACATCAAAT
Found at i:9447440 original size:7 final size:7
Alignment explanation
Indices: 9447428--9447459 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
9447418 TTATATTTAT
9447428 AATACTA
1 AATACTA
9447435 AATACTA
1 AATACTA
9447442 AATACTA
1 AATACTA
9447449 AATACTA
1 AATACTA
9447456 AATA
1 AATA
9447460 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:9448650 original size:51 final size:52
Alignment explanation
Indices: 9448594--9448711 Score: 206
Period size: 51 Copynumber: 2.3 Consensus size: 52
9448584 TATTTTAAAA
9448594 AAGGAAATTTG-GAGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTTGAGAGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
*
9448645 AAGGAAA-TTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
1 AAGGAAATTTGAGAGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
9448696 AAGGAAA-TTGAGAGAA
1 AAGGAAATTTGAGAGAA
9448712 TTTTGGAAGG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 3 0.05
51 61 0.95
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.28
Consensus pattern (52 bp):
AAGGAAATTTGAGAGAAAATTGAAATTAAATATGGATTTGAGAGAATTTTGG
Found at i:9448655 original size:22 final size:22
Alignment explanation
Indices: 9448630--9448736 Score: 90
Period size: 22 Copynumber: 4.5 Consensus size: 22
9448620 AAATATGGAT
9448630 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* * **
9448652 TTGAGAGGAA-ATTGAAATTAAA
1 TTGAGA-GAATTTTGGAAGGAAA
9448674 TATGGATTTGAGAGAATTTTGGAAGGAAA
1 T-T-GA---GAG--AATTTTGGAAGGAAA
9448703 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
9448725 TTGAGAGGAATT
1 TTGAGA-GAATT
9448737 GAGAGGAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
22 36 0.54
23 9 0.13
24 5 0.07
26 1 0.01
27 4 0.06
28 3 0.04
29 9 0.13
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:9448753 original size:12 final size:11
Alignment explanation
Indices: 9448697--9448753 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
9448687 GAATTTTGGA
9448697 AGGAAATTGAG
1 AGGAAATTGAG
*
9448708 A-GAATTTTG-G
1 AGGAA-ATTGAG
9448718 AAGGAAATTGAG
1 -AGGAAATTGAG
9448730 AGG-AATTGAG
1 AGGAAATTGAG
9448740 AGGAAATATGAG
1 AGGAAAT-TGAG
9448752 AG
1 AG
9448754 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:9449486 original size:20 final size:21
Alignment explanation
Indices: 9449463--9449521 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 21
9449453 GTAAGAAAAT
9449463 ATTATTATATTTTTA-TTTTA
1 ATTATTATATTTTTATTTTTA
9449483 ATTA--ATATTATTATATTTTTA
1 ATTATTATATT-TT-TATTTTTA
9449504 ATACTATTATATATTTTA
1 AT--TATTATAT-TTTTA
9449522 AAATTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
18 5 0.16
19 2 0.06
20 6 0.19
21 7 0.23
23 2 0.06
24 2 0.06
25 6 0.19
26 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATTATATTTTTATTTTTA
Found at i:9449502 original size:21 final size:19
Alignment explanation
Indices: 9449478--9449520 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9449468 TATATTTTTA
9449478 TTTTAATTAATATTATTATAT
1 TTTTAA-TAATATTA-TATAT
*
9449499 TTTTAATACTATTATATAT
1 TTTTAATAATATTATATAT
9449518 TTT
1 TTT
9449521 AAAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAATAATATTATATAT
Found at i:9449504 original size:17 final size:18
Alignment explanation
Indices: 9449484--9449522 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
9449474 TTTATTTTAA
*
9449484 TTAATATTATTATAT-TT
1 TTAATACTATTATATATT
9449501 TTAATACTATTATATATT
1 TTAATACTATTATATATT
9449519 TTAA
1 TTAA
9449523 AATTTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATACTATTATATATT
Found at i:9449512 original size:26 final size:26
Alignment explanation
Indices: 9449460--9449518 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
9449450 ATGGTAAGAA
**
9449460 AATATTATTATATTTTTATTTTAATT
1 AATATTATTATATTTTTATACTAATT
9449486 AATATTATTATATTTTTAATACT-ATT
1 AATATTATTATATTTTT-ATACTAATT
9449512 ATATATT
1 A-ATATT
9449519 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
AATATTATTATATTTTTATACTAATT
Found at i:9451400 original size:30 final size:30
Alignment explanation
Indices: 9451366--9451444 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
9451356 ACGAAAGAAC
* *
9451366 AAGATGAAGATGAAGATAACGCTAGAGGTG
1 AAGATGGAGATGAAGATAACGCTAGAGGTA
* * *
9451396 AAGATGGAGATGAAGATAATGTTGGAGGTA
1 AAGATGGAGATGAAGATAACGCTAGAGGTA
*
9451426 AAGACGGAGATGAAGATAA
1 AAGATGGAGATGAAGATAA
9451445 TGATAATGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.44, C:0.04, G:0.34, T:0.18
Consensus pattern (30 bp):
AAGATGGAGATGAAGATAACGCTAGAGGTA
Found at i:9451458 original size:3 final size:3
Alignment explanation
Indices: 9451434--9451485 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
9451424 TAAAGACGGA
* * *
9451434 GAT GAA GAT AAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
9451482 GAT G
1 GAT G
9451486 GGGACAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:9456064 original size:289 final size:290
Alignment explanation
Indices: 9455527--9456107 Score: 889
Period size: 289 Copynumber: 2.0 Consensus size: 290
9455517 GTAAAATATC
* * *
9455527 ATTTTGGACTGTGGTTTGGGGTTTTTGGATTTGGGTTTTATGCATGTATTATTGAAACACATTGA
1 ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
* * *
9455592 TTATATATTTTAACCAGAAAATGCATGTTACTCGACCTAATTAAAATCTGACATGAATAGTGTTT
66 TTATATATGTTAACCAGAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
* * * * *
9455657 TTCTCTTACTTTGAAAGATAACAAAATTTTATAAAACTAAGCGACAAACAACGGGTTTCTAAAAA
131 TTCTCCTACTTTGAAAGAAAACAAAATTTTACAAAACAAAGCAACAAACAACGGGTTTCTAAAAA
* *
9455722 CCTCACTATCAATAATAAAAATGAGGCTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
196 CATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
* *
9455787 CTAACTCAAGTGCAACTATAGTTTTCCAAA
261 CTAACTCAAGTGCAACCACAGTTTTCCAAA
***
9455817 ATTTTGGACTGTGGTAT-GGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACTTGTTGA
1 ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
*
9455881 TTATATATGTTAATC-GAAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATT
66 TTATATATGTTAACCAG-AAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATT
* * *
9455945 TTTC-CACTATTTTGAAAGAAAACAAAATTTTGCAAAACAAAGCAACAAACAACGGGTTTCTATA
130 TTTCTC-CTACTTTGAAAGAAAACAAAATTTTACAAAACAAAGCAACAAACAACGGGTTTCTAAA
* *
9456009 AACATCACTATCAATAATAAAAATGAGACTTCAGAATAGATGGTTCAATAAATGAATATTTTTCA
194 AACATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCA
**
9456074 AACTAACTCAAGTGTGACCACAGTTTTCCAAA
259 AACTAACTCAAGTGCAACCACAGTTTTCCAAA
9456106 AT
1 AT
9456108 GAGTTAAATT
Statistics
Matches: 263, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
288 2 0.01
289 245 0.93
290 16 0.06
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (290 bp):
ATTTTGGACTGTGGTATGGGGTTTTTGGATTTGGGTTTTATGCATGCATTATTCAAACACATTGA
TTATATATGTTAACCAGAAAATGCATGTTACACGACCTAATTAAAATCTGACATGAATAGTATTT
TTCTCCTACTTTGAAAGAAAACAAAATTTTACAAAACAAAGCAACAAACAACGGGTTTCTAAAAA
CATCACTATCAATAATAAAAATGAGACTTAAGAATAGATGGCTCAATAAATGAATATTTTTCAAA
CTAACTCAAGTGCAACCACAGTTTTCCAAA
Found at i:9460314 original size:51 final size:50
Alignment explanation
Indices: 9460135--9460383 Score: 315
Period size: 50 Copynumber: 5.0 Consensus size: 50
9460125 AAAGTGAAAG
*
9460135 TGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
1 TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
* * *
9460184 TGATAGGTCGCATGTGTAGTACTATGTACAGGCTACTACGTGTACCGGAA
1 TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
* * *
9460234 TGATCGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-A
1 TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
* * * *
9460283 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA
1 T-G-ATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A
* * *
9460336 GTGAT-GGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGG
1 -TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
9460384 TATCATTAAT
Statistics
Matches: 173, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 6 0.03
50 87 0.50
51 76 0.44
52 1 0.01
53 2 0.01
54 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (50 bp):
TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAA
Found at i:9460377 original size:26 final size:26
Alignment explanation
Indices: 9460297--9460377 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
9460287 TTCGATCACG
*
9460297 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
* * * *
9460323 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCAAGCT-ACTA
9460348 TGTGTAGTACTATGTGCAAGCTACTA
1 TGTGTAGTACTATGTGCAAGCTACTA
9460374 TGTG
1 TGTG
9460378 AACCGGTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAAGCTACTA
Found at i:9463988 original size:16 final size:16
Alignment explanation
Indices: 9463945--9463995 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
9463935 TATTTGAATG
*
9463945 TTTATGATATGATTGA
1 TTTATGATATAATTGA
**
9463961 -TTATTTTAATAATTGA
1 TTTATGAT-ATAATTGA
9463977 TTTATGATATAATTGA
1 TTTATGATATAATTGA
9463993 TTT
1 TTT
9463996 GTAATTTTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
TTTATGATATAATTGA
Found at i:9465656 original size:27 final size:27
Alignment explanation
Indices: 9465638--9465948 Score: 297
Period size: 27 Copynumber: 11.5 Consensus size: 27
9465628 AATACACTTG
*
9465638 AAGGGTAAAATAACCGAAATACCCTCA
1 AAGGGTAAAATGACCGAAATACCCTCA
* * *
9465665 AAAGGTAAAATGATCGAAATACCCCCA
1 AAGGGTAAAATGACCGAAATACCCTCA
* * * **
9465692 AATGATAAAATGACCAAAATACCCTTG
1 AAGGGTAAAATGACCGAAATACCCTCA
*
9465719 AAGGGTAAAATGACCGAAATACCCTCG
1 AAGGGTAAAATGACCGAAATACCCTCA
* *
9465746 AAGGATAAAATGACCAAAATACCCTCA
1 AAGGGTAAAATGACCGAAATACCCTCA
*
9465773 AAGGGTAAAATGACCGAAATACCCCCA
1 AAGGGTAAAATGACCGAAATACCCTCA
**
9465800 TAA-GGTAAAATGATTGAAATATCCCT-A
1 -AAGGGTAAAATGACCGAAATA-CCCTCA
* * * *
9465827 TAGGGTAAAATAACTGAATTACCCTCA
1 AAGGGTAAAATGACCGAAATACCCTCA
* * *
9465854 TAGGGTAAAATGACCGAATTACCCCCA
1 AAGGGTAAAATGACCGAAATACCCTCA
* *
9465881 TAGGGTAAAATGACCAAAATACTCC-CA
1 AAGGGTAAAATGACCGAAATAC-CCTCA
* * * * *
9465908 TAGGGTAAAATAATCAAAATACCCCCA
1 AAGGGTAAAATGACCGAAATACCCTCA
9465935 TAA-GGTAAAATGAC
1 -AAGGGTAAAATGAC
9465949 TATTATACCC
Statistics
Matches: 239, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.03
27 224 0.94
28 8 0.03
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AAGGGTAAAATGACCGAAATACCCTCA
Found at i:9466142 original size:26 final size:26
Alignment explanation
Indices: 9466112--9466210 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
9466102 TGGAGGAAGT
9466112 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
9466138 ATACTGTTACAGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* *
9466164 ATACTGTTACTGGCAGCATTGCTGCA
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
9466190 ATACTATTACTGGCAGCTTTG
1 ATACTGTTACTGGCAGCTTTG
9466211 ATGTGATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:9467715 original size:20 final size:19
Alignment explanation
Indices: 9467690--9467747 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
9467680 GGTCAATTTT
9467690 CCAAAATTTATCGAATTAGG
1 CCAAAA-TTATCGAATTAGG
*
9467710 CCAAAA-AAT-GAATT-GG
1 CCAAAATTATCGAATTAGG
*
9467726 CCAAAAATTATCAAATTAGG
1 CC-AAAATTATCGAATTAGG
9467746 CC
1 CC
9467748 TAGAAAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.13
17 9 0.29
18 4 0.13
19 4 0.13
20 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (19 bp):
CCAAAATTATCGAATTAGG
Found at i:9476789 original size:61 final size:61
Alignment explanation
Indices: 9476724--9476845 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
9476714 CTCTATTGGG
* *
9476724 CTCTCGAAGCCCAAAACATTTATTAGGAGCCTACTGGGATTAAATCAGAATCATAGGGAAT
1 CTCTCAAAGCCCAAAACATTTATTAGGAACCTACTGGGATTAAATCAGAATCATAGGGAAT
9476785 CTCTCAAAGCCCAAAACATTTATTAGGAACCTACTGGGATTAAATCAGAATCATAGGGAAT
1 CTCTCAAAGCCCAAAACATTTATTAGGAACCTACTGGGATTAAATCAGAATCATAGGGAAT
9476846 TTTTCGCAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (61 bp):
CTCTCAAAGCCCAAAACATTTATTAGGAACCTACTGGGATTAAATCAGAATCATAGGGAAT
Found at i:9479477 original size:4 final size:4
Alignment explanation
Indices: 9479468--9479497 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
9479458 AATAAACTAA
9479468 TATT TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TATT TA
9479498 ATCTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:9498990 original size:23 final size:23
Alignment explanation
Indices: 9498964--9499029 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
9498954 TCAGTTTAGG
*
9498964 TTTGTTACGAAATGGTAATGTGA
1 TTTGTTACGAAATGGTAATGCGA
* *
9498987 TTTGGTT-CGAAATGGTATTACGA
1 TTT-GTTACGAAATGGTAATGCGA
*
9499010 TTTGGTACGAAATGGTAATG
1 TTTGTTACGAAATGGTAATG
9499030 GTTCAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 2 0.06
23 30 0.86
24 3 0.09
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (23 bp):
TTTGTTACGAAATGGTAATGCGA
Found at i:9506432 original size:18 final size:19
Alignment explanation
Indices: 9506409--9506445 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9506399 TCATGAAACT
9506409 AAGTTTAACATTT-TAATC
1 AAGTTTAACATTTATAATC
*
9506427 AAGTTTAATATTTATAATC
1 AAGTTTAACATTTATAATC
9506446 TATATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AAGTTTAACATTTATAATC
Found at i:9512485 original size:2 final size:2
Alignment explanation
Indices: 9512478--9512520 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9512468 AAAAGATGCA
9512478 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9512520 A
1 A
9512521 CTCAAGAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9524612 original size:20 final size:20
Alignment explanation
Indices: 9524587--9524634 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9524577 AAACAACCCA
9524587 TATTTTTCA-TC-ATTTCAC
1 TATTTTTCATTCTATTTCAC
9524605 -ATTATTTTCATTCTATTTCAC
1 TA-T-TTTTCATTCTATTTCAC
9524626 TATTTTTCA
1 TATTTTTCA
9524635 CAAATAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 6 0.24
20 8 0.32
21 8 0.32
22 1 0.04
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTTCATTCTATTTCAC
Found at i:9524629 original size:19 final size:18
Alignment explanation
Indices: 9524585--9524631 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
9524575 CTAAACAACC
9524585 CATATTTTTCATCATTTCA
1 CATA-TTTTCATCATTTCA
9524604 CATTATTTTCATTCTATTTCA
1 CA-TATTTTCA-TC-ATTTCA
9524625 C-TATTTT
1 CATATTTT
9524632 TCACAAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 14 0.56
20 4 0.16
21 7 0.28
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.57
Consensus pattern (18 bp):
CATATTTTCATCATTTCA
Found at i:9545420 original size:22 final size:22
Alignment explanation
Indices: 9545395--9545445 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
9545385 GACAAGCCAC
*
9545395 CACTGATTTGCAGATAAATTGT
1 CACTGATTTACAGATAAATTGT
*
9545417 CACTGATTTACATATAAATTGT
1 CACTGATTTACAGATAAATTGT
*
9545439 CATTGAT
1 CACTGAT
9545446 AACACAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
CACTGATTTACAGATAAATTGT
Found at i:9552916 original size:27 final size:26
Alignment explanation
Indices: 9552824--9553026 Score: 149
Period size: 27 Copynumber: 7.5 Consensus size: 26
9552814 AAGCCCCAAA
* * *
9552824 ATAGGTAAAATTACCAAAATACCCCT
1 ATAGGTAAAATGACTAAAATACCCCC
* *** *
9552850 AAAGTGTAAAATGACTATTTTACCCCAA
1 ATAG-GTAAAATGACTAAAATACCCC-C
*
9552878 ATAGATGAAAATGACTAAAATACCCCC
1 ATAGGT-AAAATGACTAAAATACCCCC
**
9552905 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGG-TAAAATGACTAAAATACCCCC
* * *
9552932 ATAGGGTAAAATTA-TCGAAATACCACC
1 ATA-GGTAAAATGACT-AAAATACCCCC
9552959 ATATGGTAAAATGA-TCAAAATACCCCC
1 ATA-GGTAAAATGACT-AAAATACCCCC
** *
9552986 ATAGGATAAAATGACCGAAATACCCTC
1 ATAGG-TAAAATGACTAAAATACCCCC
9553013 ATAGGGTAAAATGA
1 ATA-GGTAAAATGA
9553027 TCGAAATACC
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.04
27 113 0.80
28 24 0.17
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.21
Consensus pattern (26 bp):
ATAGGTAAAATGACTAAAATACCCCC
Found at i:9552984 original size:81 final size:81
Alignment explanation
Indices: 9552885--9553036 Score: 270
Period size: 81 Copynumber: 1.9 Consensus size: 81
9552875 CAAATAGATG
*
9552885 AAAATGACTAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATTATCGA
1 AAAATGACTAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGA
9552950 AATACCACCATATGGT
66 AATACCACCATATGGT
*
9552966 AAAATGA-TCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGATCG
1 AAAATGACT-AAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
9553030 AAATACC
65 AAATACC
9553037 TTTATAGGGT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (81 bp):
AAAATGACTAAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGA
AATACCACCATATGGT
Found at i:9553031 original size:27 final size:27
Alignment explanation
Indices: 9552895--9553052 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
9552885 AAAATGACTA
* *
9552895 AAATACCCCCATAGGATAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
9552922 AAATACCCCCATAGGGTAAAATTATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * *
9552949 AAATACCACCATATGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
9552976 AAATACCCCCATAGGATAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
9553003 AAATACCCTCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
***
9553030 AAATACCTTTATAGGGTAAAATG
1 AAATACCCCCATAGGGTAAAATG
9553053 TCTGTTATGG
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:9553505 original size:28 final size:27
Alignment explanation
Indices: 9553439--9553672 Score: 263
Period size: 28 Copynumber: 8.4 Consensus size: 27
9553429 TATTGCATTG
* * *
9553439 CACTGTTACTGTATTGAG-TAACGCCTA
1 CACTG-TACTGTATTGGGCTAAGGCCCA
*
9553466 CACTGATTCTGTATTGGGCTAAGGCCCA
1 CACTG-TACTGTATTGGGCTAAGGCCCA
*
9553494 CACTGTCACTGTATTGGACTAAGGCCCA
1 CACTGT-ACTGTATTGGGCTAAGGCCCA
* *
9553522 CACTGATTCTGTATTGGGCTAAGGCCTA
1 CACTG-TACTGTATTGGGCTAAGGCCCA
* * *
9553550 CACTAATTCTGTATTTGGCTAAGGCCCA
1 CACT-GTACTGTATTGGGCTAAGGCCCA
* * *
9553578 CACTAATTCTGTATTGGGCTAAAGCCCA
1 CACT-GTACTGTATTGGGCTAAGGCCCA
9553606 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTG-TACTGTATTGGGCTAAGGCCCA
9553634 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTG-TACTGTATTGGGCTAAGGCCCA
*
9553662 TACTGTACTGT
1 CACTGTACTGT
9553673 CACTAAATAG
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
27 22 0.12
28 160 0.87
29 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (27 bp):
CACTGTACTGTATTGGGCTAAGGCCCA
Found at i:9553535 original size:56 final size:55
Alignment explanation
Indices: 9553439--9553672 Score: 303
Period size: 56 Copynumber: 4.2 Consensus size: 55
9553429 TATTGCATTG
* * *
9553439 CACTGTTACTGTATT-GAGTAACGCCTACACTGATTCTGTATTGGGCTAAGGCCCA
1 CACTG-TACTGTATTGGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
*
9553494 CACTGTCACTGTATTGGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCTA
1 CACTGT-ACTGTATTGGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
* * * *
9553550 CACTAATTCTGTATTTGG-CTAAGGCCCACACTAATTCTGTATTGGGCTAAAGCCCA
1 CACT-GTACTGTA-TTGGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
*
9553606 CACTGTTACTGTATTGGGCTAAGGCCCACACTG-TTACTGTATTGGGCTAAGGCCCA
1 CACTG-TACTGTATTGGACTAAGGCCCACACTGATT-CTGTATTGGGCTAAGGCCCA
*
9553662 TACTGTACTGT
1 CACTGTACTGT
9553673 CACTAAATAG
Statistics
Matches: 158, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
54 1 0.01
55 25 0.16
56 127 0.80
57 5 0.03
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (55 bp):
CACTGTACTGTATTGGACTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:9553579 original size:84 final size:82
Alignment explanation
Indices: 9553439--9553672 Score: 310
Period size: 84 Copynumber: 2.8 Consensus size: 82
9553429 TATTGCATTG
* *
9553439 CACTGTTACTGTATTGAG-TAACGCCTACACTGATTCTGTATTGGGCTAAGGCCCACACTGTCAC
1 CACTGTTACTGTATTGGGCTAAGGCCTACACT-ATTCTGTATTGGGCTAAGGCCCACACTGT-AC
*
9553503 TGTATTGGACTAAGGCCCA
64 TGTATTGGACTAAAGCCCA
* * *
9553522 CACTGATT-CTGTATTGGGCTAAGGCCTACACTAATTCTGTATTTGGCTAAGGCCCACACTAATT
1 CACTG-TTACTGTATTGGGCTAAGGCCTACACT-ATTCTGTATTGGGCTAAGGCCCACACT-GTA
*
9553586 CTGTATTGGGCTAAAGCCCA
63 CTGTATTGGACTAAAGCCCA
* * *
9553606 CACTGTTACTGTATTGGGCTAAGGCCCACACTGTTACTGTATTGGGCTAAGGCCCATACTGTACT
1 CACTGTTACTGTATTGGGCTAAGGCCTACACTATT-CTGTATTGGGCTAAGGCCCACACTGTACT
9553671 GT
65 GT
9553673 CACTAAATAG
Statistics
Matches: 132, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
83 23 0.17
84 108 0.82
85 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (82 bp):
CACTGTTACTGTATTGGGCTAAGGCCTACACTATTCTGTATTGGGCTAAGGCCCACACTGTACTG
TATTGGACTAAAGCCCA
Found at i:9557723 original size:23 final size:23
Alignment explanation
Indices: 9557697--9557744 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9557687 TTTTTGCAAT
9557697 TCTCATTAAATTCAAATGCGACA
1 TCTCATTAAATTCAAATGCGACA
*
9557720 TCTCATTAAATTCAAATGCGGCA
1 TCTCATTAAATTCAAATGCGACA
9557743 TC
1 TC
9557745 CTTACACAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (23 bp):
TCTCATTAAATTCAAATGCGACA
Found at i:9560590 original size:60 final size:60
Alignment explanation
Indices: 9560497--9560618 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
9560487 ATTCTTACCA
*
9560497 TAGCCGTTAAATTAGCTAATTGAGCCTCCATCATACTCTATTGGTCCTCATCCATTCGTT
1 TAGCCGTTAAATTAGCTAATTGAGCCTCCATCATACGCTATTGGTCCTCATCCATTCGTT
9560557 TAGCCGTTAAATTAGCTAATTGAGCCTCCATCATACGCTATTGGTCCTCATCCATTCGTT
1 TAGCCGTTAAATTAGCTAATTGAGCCTCCATCATACGCTATTGGTCCTCATCCATTCGTT
9560617 TA
1 TA
9560619 CCCAAGTCGG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (60 bp):
TAGCCGTTAAATTAGCTAATTGAGCCTCCATCATACGCTATTGGTCCTCATCCATTCGTT
Found at i:9587721 original size:17 final size:18
Alignment explanation
Indices: 9587700--9587738 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
9587690 ATTAAATTGG
9587700 ATATA-AATTA-AAATTA
1 ATATATAATTATAAATTA
9587716 AT-TAT-ATTATAAATTA
1 ATATATAATTATAAATTA
9587732 ATATATA
1 ATATATA
9587739 TATAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.32
16 10 0.53
17 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATAATTATAAATTA
Found at i:9587729 original size:16 final size:15
Alignment explanation
Indices: 9587706--9587743 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
9587696 TTGGATATAA
9587706 ATTA-AAATTAATTAT
1 ATTATAAATTAA-TAT
9587721 ATTATAAATTAATAT
1 ATTATAAATTAATAT
9587736 ATATATAA
1 AT-TATAA
9587744 TTTTGGACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAATTAATAT
Found at i:9589198 original size:14 final size:15
Alignment explanation
Indices: 9589175--9589207 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9589165 AATTAAAATA
9589175 TAAATAAAACTAA-T
1 TAAATAAAACTAACT
*
9589189 TAAATTAAACTAACT
1 TAAATAAAACTAACT
9589204 TAAA
1 TAAA
9589208 CTAACTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATAAAACTAACT
Found at i:9590187 original size:27 final size:27
Alignment explanation
Indices: 9590157--9590427 Score: 258
Period size: 27 Copynumber: 10.0 Consensus size: 27
9590147 ATATATATCA
* **
9590157 TACCCTTCGGGGGTATTTCATTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* * *
9590184 TACCC-TCTAGGGGTGTTTAGGTCATTT
1 TACCCTTCGA-GGGTATTTCGGTCATTT
9590211 TACCCTTCG-GAGGTATTTCGGTCATTT
1 TACCCTTCGAG-GGTATTTCGGTCATTT
* * **
9590238 TACCCTTAGATGGTATTTCTATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* *
9590265 TACCCTTCGAGGGTATTTTGGTCACTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* * *
9590292 TACCTTTCAAGGGTATTTTGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
*** *
9590319 TATATTTCGAGGGTATTTTGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
** *
9590346 TATACTTCAAGGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* *
9590373 TACCCATCGGGGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* * **
9590400 TACCTTTGGAGGGTATTTCAATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
9590427 T
1 T
9590428 CCCACAAACT
Statistics
Matches: 201, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.01
27 196 0.98
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
TACCCTTCGAGGGTATTTCGGTCATTT
Found at i:9591472 original size:24 final size:24
Alignment explanation
Indices: 9591418--9591473 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
9591408 ACTCCTTGAT
* * *
9591418 TTTCTCCTAAAATCTCTCCCCTTA
1 TTTCTCCTAAAATCACTCCACTAA
** *
9591442 TCCCTCCTAGAATCACTCCACTAA
1 TTTCTCCTAAAATCACTCCACTAA
9591466 TTTCTCCT
1 TTTCTCCT
9591474 CCAACTCCCC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.39, G:0.02, T:0.38
Consensus pattern (24 bp):
TTTCTCCTAAAATCACTCCACTAA
Found at i:9593013 original size:12 final size:12
Alignment explanation
Indices: 9592996--9593025 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9592986 CCCCACTTGC
9592996 CCGTGTGCTAGG
1 CCGTGTGCTAGG
9593008 CCGTGTGCTAGG
1 CCGTGTGCTAGG
9593020 CCGTGT
1 CCGTGT
9593026 AACAACCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.27, G:0.40, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:9595198 original size:26 final size:26
Alignment explanation
Indices: 9595169--9595220 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9595159 ACCTTTAAAA
9595169 ATCACTTAAATGATGTCCATCTTTGT
1 ATCACTTAAATGATGTCCATCTTTGT
* *
9595195 ATCACTTAAATGGTGTTCATCTTTGT
1 ATCACTTAAATGATGTCCATCTTTGT
9595221 CCACTAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (26 bp):
ATCACTTAAATGATGTCCATCTTTGT
Found at i:9609763 original size:40 final size:40
Alignment explanation
Indices: 9609680--9609764 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
9609670 AATTATTGAA
* * * *
9609680 TGAATGCACAGACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACAGACATGCCCCTATTTATACTCCAGTAACCC
* * * *
9609720 TGAATGCACATACGTGCCCCTATTTATACTCCGGTAACTC
1 TGAATGCACAGACATGCCCCTATTTATACTCCAGTAACCC
9609760 TGAAT
1 TGAAT
9609765 TAAATAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (40 bp):
TGAATGCACAGACATGCCCCTATTTATACTCCAGTAACCC
Found at i:9625563 original size:41 final size:41
Alignment explanation
Indices: 9625497--9625757 Score: 228
Period size: 41 Copynumber: 6.4 Consensus size: 41
9625487 TTATCCCATA
* *
9625497 AATTGCACATATGTGCCCCTTTTTGTACTTCGATACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTG
* * * * *
9625538 AATTACACATATGTGCCCCTGTTTGTATTTTGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTG
* * *
9625579 AATTGCATATACGTGCCCCTGATTGTACTTC-AGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGA-TACCCTTG
* * * * * *
9625620 AATTTCACAGATGTTCCCCT-TATTATACTTCGGTA-CCTCTG
1 AATTGCACATACGTGCCCCTGT-TTGTACTTCGATACCCT-TG
* * * *
9625661 CATTGCACATACGTGCCCCTGATTGTAATTCGGTACCAC-TG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGATACC-CTTG
* *
9625702 AATTCCACATACGTGCCCTTGTTTGTACTTC-ACTACTCC-TG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGA-TAC-CCTTG
9625743 AATTGCACATACGTG
1 AATTGCACATACGTG
9625758 ACCTTGATTA
Statistics
Matches: 174, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
40 2 0.01
41 169 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCTTG
Found at i:9625598 original size:82 final size:81
Alignment explanation
Indices: 9625497--9625766 Score: 269
Period size: 82 Copynumber: 3.3 Consensus size: 81
9625487 TTATCCCATA
* **
9625497 AATTGCACATATGTGCCCCTTTTTGTACTTCGATACCCTTGAATTACACATATGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGATTGTACTTCGATACCC-TGAATTACACATATGTGCCCCTGTTT
* *
9625562 GTATTTTGGTACC-CTTG
65 GTACTTCGGTACCTC-TG
* * * *
9625579 AATTGCATATACGTGCCCCTGATTGTACTTC-AGTACCCCTGAATTTCACAGATGTTCCCCT-TA
1 AATTGCACATACGTGCCCCTGATTGTACTTCGA-TA-CCCTGAATTACACATATGTGCCCCTGT-
*
9625642 TTATACTTCGGTACCTCTG
63 TTGTACTTCGGTACCTCTG
* * * * * *
9625661 CATTGCACATACGTGCCCCTGATTGTAATTCGGTACCACTGAATTCCACATACGTGCCCTTGTTT
1 AATTGCACATACGTGCCCCTGATTGTACTTCGATACC-CTGAATTACACATATGTGCCCCTGTTT
**
9625726 GTACTTCACTA-CTCCTG
65 GTACTTCGGTACCT-CTG
* *
9625743 AATTGCACATACGTGACCTTGATT
1 AATTGCACATACGTGCCCCTGATT
9625767 ACACTCTGGT
Statistics
Matches: 155, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
81 6 0.04
82 144 0.93
83 5 0.03
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (81 bp):
AATTGCACATACGTGCCCCTGATTGTACTTCGATACCCTGAATTACACATATGTGCCCCTGTTTG
TACTTCGGTACCTCTG
Found at i:9625731 original size:123 final size:123
Alignment explanation
Indices: 9625497--9625751 Score: 316
Period size: 123 Copynumber: 2.1 Consensus size: 123
9625487 TTATCCCATA
* * * * *
9625497 AATTGCACATATGTGCCCCTTTTTGTACTTCGATACCCTTGAATTACACATATGTGCCCCTGTTT
1 AATTGCACAGATGTGCCCCTTATTATACTTCGATACCCTTGAATTACACATACGTGCCCCTGATT
* * * * *
9625562 GTATTTTGGTACCCTTGAATTGCATATACGTGCCCCTGATTGTACTTCAGTACCCCTG
66 GTAATTCGGTACCCTTGAATTCCACATACGTGCCCCTGATTGTACTTCACTACCCCTG
* * * * *
9625620 AATTTCACAGATGTTCCCCTTATTATACTTCGGTA-CCTCTGCATTGCACATACGTGCCCCTGAT
1 AATTGCACAGATGTGCCCCTTATTATACTTCGATACCCT-TGAATTACACATACGTGCCCCTGAT
* * *
9625684 TGTAATTCGGTACCAC-TGAATTCCACATACGTGCCCTTGTTTGTACTTCACTACTCCTG
65 TGTAATTCGGTACC-CTTGAATTCCACATACGTGCCCCTGATTGTACTTCACTACCCCTG
9625743 AATTGCACA
1 AATTGCACA
9625752 TACGTGACCT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
122 3 0.03
123 107 0.96
124 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (123 bp):
AATTGCACAGATGTGCCCCTTATTATACTTCGATACCCTTGAATTACACATACGTGCCCCTGATT
GTAATTCGGTACCCTTGAATTCCACATACGTGCCCCTGATTGTACTTCACTACCCCTG
Found at i:9626741 original size:11 final size:11
Alignment explanation
Indices: 9626727--9626765 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9626717 GCAATTTTGT
9626727 AATTAAAGTGA
1 AATTAAAGTGA
**
9626738 AATTAAA-ACA
1 AATTAAAGTGA
9626748 AATTAAAGTGA
1 AATTAAAGTGA
9626759 AATTAAA
1 AATTAAA
9626766 ACACTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.26
Consensus pattern (11 bp):
AATTAAAGTGA
Found at i:9626774 original size:21 final size:21
Alignment explanation
Indices: 9626727--9626768 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9626717 GCAATTTTGT
9626727 AATTAAAGTGAAATTAAAACA
1 AATTAAAGTGAAATTAAAACA
9626748 AATTAAAGTGAAATTAAAACA
1 AATTAAAGTGAAATTAAAACA
9626769 CTTTAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
AATTAAAGTGAAATTAAAACA
Found at i:9627723 original size:21 final size:21
Alignment explanation
Indices: 9627697--9627783 Score: 102
Period size: 21 Copynumber: 4.1 Consensus size: 21
9627687 GATTTGGGTG
* *
9627697 GTTCAGCTCTTATGAGCTTTT
1 GTTCAGCTCTCATGAGCTTCT
*
9627718 GTTCAGCTCTCACGAGCTTCT
1 GTTCAGCTCTCATGAGCTTCT
* *
9627739 GTTCGGCTCTCATGAGCTTTT
1 GTTCAGCTCTCATGAGCTTCT
* * *
9627760 ATTTAGCTCTTATGAGCTTCT
1 GTTCAGCTCTCATGAGCTTCT
9627781 GTT
1 GTT
9627784 GACGTGTTCT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (21 bp):
GTTCAGCTCTCATGAGCTTCT
Found at i:9627768 original size:42 final size:42
Alignment explanation
Indices: 9627697--9627783 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 42
9627687 GATTTGGGTG
* *
9627697 GTTCAGCTCTTATGAGCTTTTGTTCAGCTCTCACGAGCTTCT
1 GTTCAGCTCTCATGAGCTTTTATTCAGCTCTCACGAGCTTCT
* * * *
9627739 GTTCGGCTCTCATGAGCTTTTATTTAGCTCTTATGAGCTTCT
1 GTTCAGCTCTCATGAGCTTTTATTCAGCTCTCACGAGCTTCT
9627781 GTT
1 GTT
9627784 GACGTGTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (42 bp):
GTTCAGCTCTCATGAGCTTTTATTCAGCTCTCACGAGCTTCT
Found at i:9647194 original size:19 final size:17
Alignment explanation
Indices: 9647162--9647197 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
9647152 TATATTGCGA
9647162 TAAAAAATAAAATAAAT
1 TAAAAAATAAAATAAAT
9647179 TAAAGAAATAAAAATAAAT
1 TAAA-AAAT-AAAATAAAT
9647198 AAACCAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:9647200 original size:18 final size:16
Alignment explanation
Indices: 9647161--9647200 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 16
9647151 CTATATTGCG
9647161 ATAAAAAATAAAATAA
1 ATAAAAAATAAAATAA
9647177 ATTAAAGAAATAAAAATAA
1 A-TAAA-AAAT-AAAATAA
9647196 ATAAA
1 ATAAA
9647201 CCAATCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 1 0.05
17 4 0.19
18 8 0.38
19 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
ATAAAAAATAAAATAA
Found at i:9647696 original size:22 final size:21
Alignment explanation
Indices: 9647671--9647720 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
9647661 ACAGAGTAGT
* * *
9647671 AAATATCTTGATTGGAATAAAG
1 AAATATATTGATTGCAA-AAAA
*
9647693 AAATAAATTGATTGCAAAAAA
1 AAATATATTGATTGCAAAAAA
9647714 AAATATA
1 AAATATA
9647721 AACTGGATGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (21 bp):
AAATATATTGATTGCAAAAAA
Found at i:9650108 original size:16 final size:17
Alignment explanation
Indices: 9650077--9650114 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
9650067 GGTAATTGAA
*
9650077 TAAATTCAATTAAAACC
1 TAAATTCAAATAAAACC
9650094 TAAATT-AAATAAAACC
1 TAAATTCAAATAAAACC
*
9650110 AAAAT
1 TAAAT
9650115 GGCTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATTCAAATAAAACC
Found at i:9653477 original size:17 final size:17
Alignment explanation
Indices: 9653450--9653483 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9653440 GCCCATTTTG
9653450 GGCTGTGTGGGCCACACA
1 GGCTGTGTGGGCC-CACA
9653468 GGCT-TGTGGGCCCACA
1 GGCTGTGTGGGCCCACA
9653484 TGGGTTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.15, C:0.29, G:0.38, T:0.18
Consensus pattern (17 bp):
GGCTGTGTGGGCCCACA
Found at i:9660890 original size:19 final size:20
Alignment explanation
Indices: 9660866--9660906 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
9660856 GTATGCCCTA
9660866 ATTTTATGCATG-ATAT-TAT
1 ATTTTA-GCATGCATATATAT
9660885 ATTTTAGCATGCATATATAT
1 ATTTTAGCATGCATATATAT
9660905 AT
1 AT
9660907 ATTGCATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 10 0.50
20 5 0.25
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (20 bp):
ATTTTAGCATGCATATATAT
Found at i:9664228 original size:36 final size:36
Alignment explanation
Indices: 9664180--9664248 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
9664170 TTGTATTTGT
*
9664180 TTTGAAGGTGGATTAAACGACGAGATCAAGCTACGC
1 TTTGAAGATGGATTAAACGACGAGATCAAGCTACGC
* *
9664216 TTTGAAGATGGATTAAATGATGAGATCAAGCTA
1 TTTGAAGATGGATTAAACGACGAGATCAAGCTA
9664249 TTAGTTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (36 bp):
TTTGAAGATGGATTAAACGACGAGATCAAGCTACGC
Found at i:9675326 original size:19 final size:19
Alignment explanation
Indices: 9675299--9675335 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9675289 CCATTTTCAT
*
9675299 TTAACTAAAAAATGAAAAA
1 TTAAATAAAAAATGAAAAA
*
9675318 TTAAATAAAAAATTAAAA
1 TTAAATAAAAAATGAAAA
9675336 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
TTAAATAAAAAATGAAAAA
Done.