Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 114 of 198
Found at i:36417700 original size:35 final size:35
Alignment explanation
Indices: 36417661--36417731 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
36417651 AAAATATTTT
36417661 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
1 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
36417696 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
1 ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
36417731 A
1 A
36417732 AGAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (35 bp):
ACTTGGGTCCACTGTTTGTATTGTTAAAATAAATA
Found at i:36419013 original size:99 final size:99
Alignment explanation
Indices: 36418910--36419119 Score: 280
Period size: 99 Copynumber: 2.1 Consensus size: 99
36418900 CAGGGAGCGC
* *
36418910 AGGGTTAACTCAGTTGAAGCAAATCAAT-TTAATAGTAATATTGGAAGTAGCCTCCTAGAAGATG
1 AGGGTTAACTCAGTTAAAGCAAAT-AATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATG
*
36418974 GAGTATATACAGCTCAACCGGTTTA-CTCAGAACGT
65 GAGTATATACAGCTAAACCGGTTTACCT-AGAACGT
* * * * *
36419009 AGGGTTAACTTAGTTAAAGCCAATAATCTCAATGGTCATGTTGGAAGTAGCCTCCTAGAAGATGG
1 AGGGTTAACTCAGTTAAAGCAAATAATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATGG
* * **
36419074 AGTTTATACAGCTAAATCGGTTTACCTAGAGTGT
66 AGTATATACAGCTAAACCGGTTTACCTAGAACGT
36419108 AGGGTTAACTCA
1 AGGGTTAACTCA
36419120 CTCCAAGAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
98 3 0.03
99 91 0.95
100 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (99 bp):
AGGGTTAACTCAGTTAAAGCAAATAATCTCAATAGTAATATTGGAAGTAGCCTCCTAGAAGATGG
AGTATATACAGCTAAACCGGTTTACCTAGAACGT
Found at i:36419139 original size:99 final size:99
Alignment explanation
Indices: 36418950--36419162 Score: 277
Period size: 99 Copynumber: 2.2 Consensus size: 99
36418940 AATAGTAATA
*
36418950 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTCAACCGGTTTACTCAGAACGTAGGGTT
1 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTCAGAACGTAGGGTT
* * * * * * *
36419015 AACTTAGTTAAAGCCAATAATCTCAATGGTCATG
66 AACTCACTCAAAGCAAAAAAACTCAACGGTCATG
* * **
36419049 TTGGAAGTAGCCTCCTAGAAGATGGAGTTTATACAGCTAAATCGGTTTAC-CTAGAGTGTAGGGT
1 TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTC-AGAACGTAGGGT
*
36419113 TAACTCACTCCAAG-AAAAAACACTCAACGGTCATG
65 TAACTCACTCAAAGCAAAAAA-ACTCAACGGTCATG
36419148 TTGGAAGTAGCCTCC
1 TTGGAAGTAGCCTCC
36419163 AAGATGAGCT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
98 5 0.05
99 94 0.95
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (99 bp):
TTGGAAGTAGCCTCCTAGAAGATGGAGTATATACAGCTAAACCGGTTTACTCAGAACGTAGGGTT
AACTCACTCAAAGCAAAAAAACTCAACGGTCATG
Found at i:36423079 original size:8 final size:8
Alignment explanation
Indices: 36423066--36423091 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36423056 GCGTGTATGA
36423066 TTAGGAAT
1 TTAGGAAT
36423074 TTAGGAAT
1 TTAGGAAT
36423082 TTAGGAAT
1 TTAGGAAT
36423090 TT
1 TT
36423092 GGTGCCACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (8 bp):
TTAGGAAT
Found at i:36426242 original size:16 final size:16
Alignment explanation
Indices: 36426221--36426251 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36426211 TAATGACATT
36426221 ATTAAAGATTTAATCC
1 ATTAAAGATTTAATCC
36426237 ATTAAAGATTTAATC
1 ATTAAAGATTTAATC
36426252 GATTGGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTAAAGATTTAATCC
Found at i:36436155 original size:335 final size:335
Alignment explanation
Indices: 36435536--36436414 Score: 936
Period size: 335 Copynumber: 2.7 Consensus size: 335
36435526 TCAATCATTA
* * * * * * *
36435536 TCCCCATTATTGATTCTGGTTCTGTTGAGGAAAGTGAAAAAAATTATGGGTGATTCGATGTAGTT
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
*
36435601 AATTCAAATATTTCGTTCTCTATATGTCATACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
66 AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
* ** * * *
36435666 TAAGAACGTGATGTTCGTTTTATATAGATATGATCGTAACCTTTACCTTAATTTTAATTCAATTA
131 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTA
* * * *
36435731 TGGATAAATTCTCTCCCTCTTCTTTAAAAAATGATTTAAAACAAGGAAGATAATCGATGTATCAT
196 GGGATAAATTCTCTCCCTCTTCTCTAAAAAATGATTAAAAACAAGAAAGATAATCGATGTATCAT
* * *
36435796 GCATCTATACAAAATTATGATTATATTGCTCAGATCTAAGAACGTGTCATATGTTGGGTAGTGGG
261 GCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGTGGG
36435861 AAAATTATTG
326 AAAATTATTG
* * *
36435871 TCCCCACTCTTGATTCTAGTTCTATTGAGGAAAATGAAAAAAGTTATAGGTGATCCGATATATTT
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
* * * ** **
36435936 AGTTCAAATATTTCTTTCTCTATATGTCACACTTTGTTTGAAATAATGATTATGTCTTTTTAATC
66 AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
*
36436001 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAGTTTTAATTC-ATAT
131 TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAAT-T
* * *
36436065 AGGGGTAGATTTTCTCCCTCTTCTCTAGAAGAAA-G-TTAAAAACAAGAAAGATAATCGATGTAT
195 AGGGATAAATTCTCTCCCTCTTCTCTA-AA-AAATGATTAAAAACAAGAAAGATAATCGATGTAT
* * * * * *
36436128 GATGTATTTGTACAAAATTATGATTATATCGCTCAGATCTAAGAATGTGCCATGTGTTGGATAGT
258 CATGCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGT
** *
36436193 GGGACCATTGTTG
323 GGGAAAATTATTG
* * * * *
36436206 TCCCCATTATTGA---T-G----A---AGG----TGAAAAAAAGTTAT-GACTGATTCAATGTAG
1 TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAA-TTATAG-GTGATCCGATATAG
* * * * * * * *** *
36436255 TTAATTTAAATCTTTCTTTTTCTATATGTCAGAATTTGTTTGAAATAACGGCTATGTCTTTCAGA
64 TTAATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAA
* ** * * *
36436320 TCTAAGAACGTG-CAATTTGTTCGATATAGATACGATTGTAACCTTTACCTTAATTTTAAGTCAA
129 TCTAAGAACATGAC-ATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAA
* *
36436384 TT-GTGGATAGATTTTCTCCCTCTTCTCTAAA
193 TTAG-GGATAAATTCTCTCCCTCTTCTCTAAA
36436415 GGGAAAAAAG
Statistics
Matches: 464, Mismatches: 72, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
320 13 0.03
321 144 0.31
322 2 0.00
324 3 0.01
327 1 0.00
331 1 0.00
332 1 0.00
334 2 0.00
335 291 0.63
336 3 0.01
337 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (335 bp):
TCCCCACTATTGATTCTAGTTCTATTGAGGAAAATGAAAAAAATTATAGGTGATCCGATATAGTT
AATTCAAATATTTCGTTCTCTATATGTCACACTTTGTTTAAAATAACAATTATGTCTTTCAAATC
TAAGAACATGACATTCATTTGATATAGATACGATCGTAACCTTTACCTTAATTTTAATTCAATTA
GGGATAAATTCTCTCCCTCTTCTCTAAAAAATGATTAAAAACAAGAAAGATAATCGATGTATCAT
GCATCTATACAAAATTATGATTATATCGCTCAGATCTAAGAACGTGCCATATGTTGGATAGTGGG
AAAATTATTG
Found at i:36440395 original size:27 final size:27
Alignment explanation
Indices: 36440278--36440402 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
36440268 ATAATGGGCC
* * *
36440278 TAAAATGATTGAAATACCCCCGAGGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* ** * * * *
36440305 TAAAATGGCCAAAATAACTTTGAAGAG
1 TAAAATGACTGAAATACCCTCGAAGGG
**
36440332 TAAAATGACCAAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
36440359 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
36440386 TAAAATGACTGAAATAC
1 TAAAATGACTGAAATAC
36440403 TCTCTTTTCT
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:36440401 original size:54 final size:54
Alignment explanation
Indices: 36440278--36440402 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
36440268 ATAATGGGCC
* * * *
36440278 TAAAATGATTGAAATACCCCCGAGGGGTAAAATGGCCAAAATAACTTTGAAGAG
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
** * ** * *
36440332 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
36440386 TAAAATGACTGAAATAC
1 TAAAATGACTGAAATAC
36440403 TCTCTTTTCT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (54 bp):
TAAAATGACTGAAATACCCCCGAAGGGTAAAATGACCAAAATAACCTTGAAGAG
Found at i:36444806 original size:16 final size:16
Alignment explanation
Indices: 36444785--36444817 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
36444775 AAGCACTCTC
36444785 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
36444801 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
36444817 T
1 T
36444818 TTAGAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTTACATTTCAT
Found at i:36448003 original size:30 final size:31
Alignment explanation
Indices: 36447946--36448008 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
36447936 GGCAATTTAC
36447946 AAGAGTAATTGAATCCTAATAAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAAACTCTTT
36447977 AAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAAACTCTTT
36448007 AA
1 AA
36448009 AATTATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:36453963 original size:31 final size:32
Alignment explanation
Indices: 36453927--36453991 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
36453917 CTTAGATAAT
36453927 TTTAAAGAG-TTTTATTAAGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAAGATTCAATTACTC
*
36453958 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAAGATTCAATTACTC
36453990 TT
1 TT
36453992 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAAGATTCAATTACTC
Found at i:36454589 original size:11 final size:12
Alignment explanation
Indices: 36454561--36454588 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36454551 AAGAAGAAGC
36454561 AAAAAGCGCAAA
1 AAAAAGCGCAAA
36454573 AAAAAGCGCAAA
1 AAAAAGCGCAAA
36454585 AAAA
1 AAAA
36454589 GAGTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:36456028 original size:99 final size:99
Alignment explanation
Indices: 36455842--36456076 Score: 244
Period size: 99 Copynumber: 2.4 Consensus size: 99
36455832 AGAAATGCTC
* * * * * *
36455842 CCAA-AAGATGGAGTGTATACAACTCAACTGGATTACTCAGAGCGTAGGATTAACTCAGTTGAAA
1 CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
* * *
36455906 CAAATCAATTTAACAGTCCTATTGGACGTAGCCT
66 CAAATCAATTCAACAGTCATATTGGAAGTAGCCT
* * *
36455940 CCTAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGGTTAACTTAGTT-AAA
1 CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
* **
36456004 GCCAAT-AATCTCAATGGTCATATTGGAAGTAGCCT
66 -CAAATCAAT-TCAACAGTCATATTGGAAGTAGCCT
* * * *
36456039 CCAAGAAGATGAAGTTTATATAGCT-AAATCAGTTTACT
1 CCAAGAAGATGGAGTATATACAGCTCAACT-AGTTTACT
36456077 TGGAGTGTAC
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
98 12 0.11
99 101 0.89
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (99 bp):
CCAAGAAGATGGAGTATATACAGCTCAACTAGTTTACTCAGAACATAGGATTAACTCAGTTGAAA
CAAATCAATTCAACAGTCATATTGGAAGTAGCCT
Found at i:36464712 original size:76 final size:76
Alignment explanation
Indices: 36464479--36464741 Score: 242
Period size: 76 Copynumber: 3.5 Consensus size: 76
36464469 AACAAGATCG
* * * *
36464479 ATTGTGTGCCCAGCACTAGTCAG-ATAAA-CTGACAATGTTTTGTGCCCAGCGCTAGTCGGATAA
1 ATTGTGTGCCCAGCACTACT-AGAATAAATC-GACAAAGATTTGCGCCCAGCGCTAGTCGGATAA
*
36464542 ACCGACGATGATA
64 ACTGACGATGATA
* * * * * * * * * * * * ***
36464555 ATCGTGTACCCAACACTAGTTGACTAAATTGATAAAGGTTTGCTCCCAACACTAGTTATATAAAC
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
36464620 TGACGATGATA
66 TGACGATGATA
* *
36464631 ATTGTGTGCTCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGTGCTAGTCGGATAAAC
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
*
36464696 TGACGATAATA
66 TGACGATGATA
* * * * *
36464707 CTTGTGTGTCGAGCACTACTCGAATAAATCAACAA
1 ATTGTGTGCCCAGCACTACTAGAATAAATCGACAA
36464742 CACAAACATA
Statistics
Matches: 144, Mismatches: 41, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
75 1 0.01
76 143 0.99
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (76 bp):
ATTGTGTGCCCAGCACTACTAGAATAAATCGACAAAGATTTGCGCCCAGCGCTAGTCGGATAAAC
TGACGATGATA
Found at i:36465777 original size:12 final size:12
Alignment explanation
Indices: 36465760--36465785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36465750 CTAATAAACC
36465760 TCAATTCTTATA
1 TCAATTCTTATA
36465772 TCAATTCTTATA
1 TCAATTCTTATA
36465784 TC
1 TC
36465786 TTTTACACTT
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:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
TCAATTCTTATA
Found at i:36469336 original size:335 final size:334
Alignment explanation
Indices: 36468680--36469918 Score: 1457
Period size: 335 Copynumber: 3.7 Consensus size: 334
36468670 GGTTAAAATT
* * * * * *
36468680 CAATCATTGTGCCCATTACTGATTCTGGCTCTGTTCAGGAAAGTGAAAAAAGTTATGGATGATTC
1 CAATCATT-TTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTC
* * * *
36468745 GATGTAGTTAATTCAAATCTTTCTGTCTCTATATGTCATATTTTGTTTGAAATAATGATTATGTC
65 GATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTC
* * * * * * * *
36468810 TTTTAGATATAGGAATATGACATTCTTTCGATATAGATAGGATCTTAAACTTCACCTTAATTTTA
130 TTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTTA
* * * *
36468875 ATTCAATTGGGGACAGATTCTCTCCCTATTCTCTAAAGGATGATTTAAAACGAGGAAGATAATCG
195 ATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATTG
* * * * *
36468940 ATGTATGATGTATCTATACAGAATTATGATTATATCGCTAAGATTTGAAAACATTTCATGTGTTA
260 ATGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGTTG
*
36469005 AATAGTGGGA
325 GATAGTGGGA
* * * *
36469015 CAACCATTTTCCCCACTATTGATTTTGGTTCTGTTGACGAAAGTGAAAAAAGTTATGGGCGATTC
1 CAATCATTTT-CCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTC
* * * *
36469080 GATGTGGTTAATTCAAATATGTCTTTCTCTATACGTCATACTTTGTCTGAAATAACGATTATGTC
65 GATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTC
* * ** * *
36469145 TATT-AGATCTAAGAACATGCCATTCATTTGATATAGATACG-TCCATACCCTTTACATTAATTT
130 T-TTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGAT-CGTAAACTTCACCTTAATTT
* * * *
36469208 TAATTTAATTGGGTACAAATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGACAAT
193 TAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAAT
* * *
36469273 TGATGTATGATGCATTTATACAAAATTATGATTATATCACTTAGATTTGAGAACATGTCATGTGT
258 TGATGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGT
36469338 TGGATAGCT-GGA
323 TGGATAG-TGGGA
** * * * *
36469350 CAATTGTTTTTCCTATTATTGATTCTT-GTTTTGTTGAGGAAAGTGAAAAACGTAATGGGTGATT
1 CAA-TCATTTTCCCATTATTGATT-TTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATT
* * * * * *
36469414 CGATGTAGTTAATTCAAATATTTC-TTCTTTGTATGCCATAATTTGTTTGAAATAATGTTTATGT
64 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGT
* * * ** * * * *
36469478 CTTTCATATTTTAGAACGCGCCATTCATCCAATATAGATACCATCGTAACCTTCACCTTAATTTT
129 CTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTT
** *
36469543 AATTCAATTGGGAATGGATTCTCTCCCTCTTCTCTAAAGGATGACTTAAAACAAGGAAGATAA-T
194 AATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATT
* * *** * * *
36469607 CAGTGTATGATGTATTTGTACAAAATTCCAATTATATTGCTTGGATCTGAGAACATTTCATGTGT
259 GA-TGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGT
36469672 TGGATAGTGGGA
323 TGGATAGTGGGA
* * * * * *
36469684 CAATTGATGTTCCCATTTTTAATTTTAGTTCTGTTGAGAAAAGTGAAAAAAAGTTATGGGTGATT
1 CAA-TCATTTTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTG-AAAAAAGTTATGGGTGATT
* * * *
36469749 CGATGTAGTTAATTCAAATCTTTGTTTCTCTATATGTCATACTTTGTCTGAAATAATGAGTATAT
64 CGATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGT
* * * *
36469814 CTTTCAGATCTAAGAACGTGTCATTCATTCGATATAGATACGATCGT-AACTTTCGCCTTAATTG
129 CTTTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAAC-TTCACCTTAATTT
* *
36469878 TAATTCAATTGGGAATAGATTCTCTCCCTTTTCTCTAAAGG
193 TAATTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGG
36469919 GAAAAAAGTA
Statistics
Matches: 761, Mismatches: 129, Indels: 27
0.83 0.14 0.03
Matches are distributed among these distances:
333 7 0.01
334 234 0.31
335 390 0.51
336 130 0.17
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (334 bp):
CAATCATTTTCCCATTATTGATTTTGGTTCTGTTGAGGAAAGTGAAAAAAGTTATGGGTGATTCG
ATGTAGTTAATTCAAATATTTCTTTCTCTATATGTCATACTTTGTCTGAAATAATGATTATGTCT
TTCAGATCTAAGAACATGCCATTCATTCGATATAGATACGATCGTAAACTTCACCTTAATTTTAA
TTCAATTGGGAACAGATTCTCTCCCTCTTCTCTAAAGGATGATTTAAAACAAGGAAGATAATTGA
TGTATGATGTATTTATACAAAATTATGATTATATCGCTTAGATTTGAGAACATTTCATGTGTTGG
ATAGTGGGA
Found at i:36474363 original size:27 final size:28
Alignment explanation
Indices: 36474333--36474385 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
36474323 CTATTGCCAA
36474333 AAATATTATT-ATTTAATCAATTAAAAG
1 AAATATTATTAATTTAATCAATTAAAAG
* * *
36474360 AAATTTTATTAATTTACTTAATTAAA
1 AAATATTATTAATTTAATCAATTAAA
36474386 TTAATTTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (28 bp):
AAATATTATTAATTTAATCAATTAAAAG
Found at i:36474551 original size:22 final size:23
Alignment explanation
Indices: 36474524--36474574 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
36474514 TTGAAACTTC
36474524 AATTAATTAA-TTATAATAAATT-
1 AATTAATTAATTTA-AATAAATTA
36474546 AATTAA-TAATTTAAATAAATTA
1 AATTAATTAATTTAAATAAATTA
36474568 AATTAAT
1 AATTAAT
36474575 CATTAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTAATTAATTTAAATAAATTA
Found at i:36476048 original size:16 final size:16
Alignment explanation
Indices: 36476027--36476059 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
36476017 AAGCACTCTC
36476027 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
36476043 TATTTTTACATTTCAT
1 TATTTTTACATTTCAT
36476059 T
1 T
36476060 TTAGAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTTACATTTCAT
Found at i:36480014 original size:27 final size:27
Alignment explanation
Indices: 36479975--36480047 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
36479965 AACATGTTAG
* *
36479975 GAAATAAATGCCTTTG-GAGCGAATCAT
1 GAAAGAAAAGCCTTTGTG-GCGAATCAT
*
36480002 GAAAGAAAAGCCTTTGTGGTGAATCAT
1 GAAAGAAAAGCCTTTGTGGCGAATCAT
*
36480029 GAAAGAAAAGCCCTTGTGG
1 GAAAGAAAAGCCTTTGTGG
36480048 TGAGAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAATCAT
Found at i:36480048 original size:27 final size:27
Alignment explanation
Indices: 36479995--36480050 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
36479985 CCTTTGGAGC
*
36479995 GAATCATGAAAGAAAAGCCTTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
36480022 GAATCATGAAAGAAAAGCCCTTGTGGT
1 GAATCATGAAAGAAAAGCCCTTGTGGT
36480049 GA
1 GA
36480051 GAATTTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (27 bp):
GAATCATGAAAGAAAAGCCCTTGTGGT
Found at i:36488734 original size:50 final size:50
Alignment explanation
Indices: 36488675--36488775 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
36488665 TAGTAACTAA
36488675 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
1 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
36488725 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
1 TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
36488775 T
1 T
36488776 ATATATATTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.35
Consensus pattern (50 bp):
TTTCTAATTGATGATGGGCTGATTAGAAATCAAGGCTAATGTGTCAAAGT
Found at i:36501384 original size:146 final size:144
Alignment explanation
Indices: 36501187--36501633 Score: 522
Period size: 146 Copynumber: 3.0 Consensus size: 144
36501177 GGCCATGGCT
* * * * * ** *
36501187 AAAAATCATTACTTTTCTTAAAAATCAAA-ATTTTATTTCGAAATAGTTGAAAATGATCAAAATT
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
36501251 TTGTTTTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCT
66 TTGTTTT-AAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCT
36501316 AAATTTTCTCTTTTAA
129 AAATTTTCTCTTTTAA
36501332 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
* * * *
36501397 TTATTTTAAAAATTTAAACTTTCATTTTAAATGACTAAAAAAACATATTTTTATTTTCTAAAATC
66 TTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACT--AAAAACATATTTTTATTTT-AAAAATC
*
36501462 TAAAATTTCTCTTTTTTTCAA
128 T-AAATTT-TC-TCTTTT-AA
* * * * *
36501483 AAAAAATACTATTTTTCTTAAAGATTAAAGCTTTTATTTTCAAATAGTTAAAAAAAAATCAAAAG
1 AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTT-GAAAAAAATCAAAA-
* * * *** *
36501548 C-ATGTTTTAAAATTTTAAACTTCCCTTTAAAATGACT-AAATTTTTTTTTTATTTTTAAAAATC
64 CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAACATATTTTTA-TTTTAAAAATC
* *
36501611 TAAACTTTCTCTTTTTA
128 TAAATTTTCTCTTTTAA
36501628 AAAAAA
1 AAAAAA
36501634 TTAATTTTTT
Statistics
Matches: 259, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
144 15 0.06
145 45 0.17
146 60 0.23
147 9 0.03
148 11 0.04
149 19 0.07
150 9 0.03
151 47 0.18
152 43 0.17
153 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (144 bp):
AAAAAACATTATTTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAATCAAAACT
TTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTAAAAATCTAA
ATTTTCTCTTTTAA
Found at i:36501409 original size:20 final size:21
Alignment explanation
Indices: 36501384--36501427 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
36501374 AATAGTTGAA
36501384 AAAAATCAAAACTTT-ATTTT
1 AAAAATCAAAACTTTCATTTT
**
36501404 AAAAATTTAAACTTTCATTTT
1 AAAAATCAAAACTTTCATTTT
36501425 AAA
1 AAA
36501428 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATCAAAACTTTCATTTT
Found at i:36501964 original size:3 final size:3
Alignment explanation
Indices: 36501958--36502032 Score: 96
Period size: 3 Copynumber: 24.7 Consensus size: 3
36501948 AATGATGATG
*
36501958 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * *
36502004 ATA ATA GTA GTA GTA ATG ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
36502033 TTTGGTCCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 63 0.97
4 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:36502068 original size:10 final size:10
Alignment explanation
Indices: 36502053--36502087 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
36502043 AACAGGCCCA
36502053 AAAAGTAAAG
1 AAAAGTAAAG
36502063 AAAAGTAAAG
1 AAAAGTAAAG
36502073 AAAAGTAAAAG
1 AAAAGT-AAAG
36502084 AAAA
1 AAAA
36502088 AAATGGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (10 bp):
AAAAGTAAAG
Found at i:36502528 original size:42 final size:42
Alignment explanation
Indices: 36502476--36502780 Score: 349
Period size: 42 Copynumber: 7.3 Consensus size: 42
36502466 CTTCATATAC
* * *
36502476 AATGCAATGAACAGTAAATGGACCTCCACACCTAGGTCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * ** *
36502518 AATGTAATGAAAAGTTAATGGACCTTTACACTTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * * **
36502560 AATGCAACGAAAAGTCAATGAACCTCCACACCTAGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * **
36502602 AATGCAATTAAAAGTGAACAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* ** * *
36502644 ATTGCAATGAAAAGTAAACAGACCTCTACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
*
36502686 AATGCAATGAAAAGTAAATGGAGCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
* * * * * *
36502728 AATGAAATGAAAAGTAAATAGACCTCTACAGCTGGGGCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
36502770 AATGCAATGAA
1 AATGCAATGAA
36502781 TGTTTTCCTT
Statistics
Matches: 219, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 219 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
Found at i:36505333 original size:50 final size:50
Alignment explanation
Indices: 36505214--36505391 Score: 191
Period size: 50 Copynumber: 3.6 Consensus size: 50
36505204 CATACCAAAT
* *
36505214 CCATGTCCCAGACGTGGTCTTACATGGGATGTT-TCCTATAC--TGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAATG
** * * * *
36505263 TTATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTACCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
* ** *
36505313 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
* *
36505363 CCATGTCTCAGACATGGTCTTACGTGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
36505392 CCTCTTATAA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 4 0.04
49 29 0.28
50 72 0.69
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.29
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATG
Found at i:36507328 original size:148 final size:148
Alignment explanation
Indices: 36507105--36507438 Score: 469
Period size: 148 Copynumber: 2.2 Consensus size: 148
36507095 AAATCAAAAC
* ** * * * *
36507105 TTTATTTCGAAATAGTTGAAAAAGTTCAAAATTTTATTTAAAAAAATTCAAACTTTTCCTTTAGA
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
* *
36507170 ATGACTAAAAAGCATATTTTTA-TTTTAAAAATCTAAACTCTCTTTTTTTTTAAAAAAA-ACTAT
66 ATGACTAAAAA-CATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTAT
*
36507233 TTTTCTTAAAGATTAAAGGT
130 TTTT-TTAAAGATTAAAGCT
* *
36507253 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTT-TAAAAATTTAAAC-TTCCCTTTAAA
1 TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
* *
36507316 ATGACTACAAAAACATATTTTTATTTTTTAAAATCTAAAATTTCTCTTTTTTTAAAAAAACACTA
66 ATGACT--AAAAACATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTA
36507381 TTTTTTTAAAGATTAAAGCT
129 TTTTTTTAAAGATTAAAGCT
36507401 TTTATTTTGAAATAGTTGAAAAAAAATCAAAACTTTGT
1 TTTATTTTGAAATAGTTG-AAAAAAATCAAAACTTTGT
36507439 GTTGACACCA
Statistics
Matches: 167, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
146 15 0.09
147 21 0.13
148 103 0.62
149 28 0.17
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (148 bp):
TTTATTTTGAAATAGTTGAAAAAAATCAAAACTTTGTTTAAAAAAATTCAAACTTTCCCTTTAAA
ATGACTAAAAACATATTTTTATTTTTAAAAATCTAAAATCTCTCTTTTTTTAAAAAAACACTATT
TTTTTAAAGATTAAAGCT
Found at i:36508008 original size:106 final size:106
Alignment explanation
Indices: 36507812--36508088 Score: 310
Period size: 106 Copynumber: 2.6 Consensus size: 106
36507802 ATTTAGTCGG
* * * * *
36507812 ACGAGACATCAAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCTAAACGCAAGACATTG-T
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTT-TCTCGAATTTCCAAACGCAAAATATTGCT
** *
36507876 CTCATTTTAAAATTTCGAAAGAATATTCGACTATTTGGCCAA
65 CTCATTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
* * *
36507918 ACGAGTAATCGAAACCCAACACGTTAGGGCCCGTATTCTCGAATTTCCAAACGCAAAATATTGCA
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGT-TTCTCGAATTTCCAAACGCAAAATATTGC-
* * * * *
36507983 T-TC-TTTTGAAAGTTTAAAAAG-ATATTTGGCCATTTGGTCGA
64 TCTCATTTT-AAAATTTAAAAAGAATATTCGACCATTTGGCCAA
* *
36508024 ACGAGAAATCGAAACCCAGCACGTTAGGGAACGTTTTCTCGAATTTTCCAAACGCGAAATATTGC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGAA-TTTCCAAACGCAAAATATTGC
36508089 CTTATTTAGG
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
106 109 0.76
107 34 0.24
108 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (106 bp):
ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAATATTGCTC
TCATTTTAAAATTTAAAAAGAATATTCGACCATTTGGCCAA
Found at i:36508316 original size:24 final size:22
Alignment explanation
Indices: 36508266--36508326 Score: 59
Period size: 24 Copynumber: 2.7 Consensus size: 22
36508256 AATGTCCTTT
*
36508266 TAAAATAATAATAAACATATAG
1 TAAAATAATAATAAACATAGAG
* *
36508288 GAAAATTAATAAATAAACATCGAG
1 TAAAA-TAAT-AATAAACATAGAG
* *
36508312 TAAAAGAAAAATAAA
1 TAAAATAATAATAAA
36508327 ATAAAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 10 0.32
23 6 0.19
24 15 0.48
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (22 bp):
TAAAATAATAATAAACATAGAG
Found at i:36509093 original size:3 final size:3
Alignment explanation
Indices: 36509085--36509142 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
36509075 TGTACATAGC
* * *
36509085 AAT AAT AAT AAT AAT AAT AAC AAC AAT AA- AACT AATT AAT -TT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT
36509130 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
36509143 CGGGACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
2 5 0.11
3 36 0.78
4 5 0.11
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:36509943 original size:22 final size:22
Alignment explanation
Indices: 36509917--36509960 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36509907 CCGACTACTA
*
36509917 TTTTTGTTCTTTGTTACTGTTTC
1 TTTTTGTT-TTTGTGACTGTTTC
36509940 TTTTTGTTTTTGTGACTGTTT
1 TTTTTGTTTTTGTGACTGTTT
36509961 GCAGGTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.05, C:0.09, G:0.16, T:0.70
Consensus pattern (22 bp):
TTTTTGTTTTTGTGACTGTTTC
Found at i:36510653 original size:44 final size:43
Alignment explanation
Indices: 36510605--36510827 Score: 124
Period size: 43 Copynumber: 5.2 Consensus size: 43
36510595 TTTTCAATCC
36510605 GCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCT
1 GCTCCACTGTAACTT-AGGGAGATAGGATTGGTTTCTTCTGTCT
* * * * *
36510649 GCTCCACTACT-GCTTAGGGAGATAAGACTT-G---ATGC-GATCT
1 GCTCCACT-GTAACTTAGGGAGATAGGA-TTGGTTTCTTCTG-TCT
* * * * **
36510689 GCTCTACTGTAACTTTAGAGAGATAAGATCTGTGGTT-TT-AATCT
1 GCTCCACTGTAAC-TTAGGGAGATAGGAT-TG-GTTTCTTCTGTCT
* *
36510733 GC-CCTATTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTTT
1 GCTCC-ACTGTAACTT-AGGGAGATAGGATTGGTTTCTTCTGTCT
* * * * *
36510777 ACTCTACTACT-GCTTAGGGAGATAGGATCGGTTTCTTCTGTCT
1 GCTCCACT-GTAACTTAGGGAGATAGGATTGGTTTCTTCTGTCT
36510820 GCTCCACT
1 GCTCCACT
36510828 ACTGCTTAAG
Statistics
Matches: 133, Mismatches: 28, Indels: 37
0.67 0.14 0.19
Matches are distributed among these distances:
39 2 0.02
40 14 0.11
41 14 0.11
42 3 0.02
43 52 0.39
44 44 0.33
45 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (43 bp):
GCTCCACTGTAACTTAGGGAGATAGGATTGGTTTCTTCTGTCT
Found at i:36510711 original size:128 final size:128
Alignment explanation
Indices: 36510536--36510800 Score: 383
Period size: 128 Copynumber: 2.1 Consensus size: 128
36510526 CTGTAACTTC
* * * *
36510536 AGGGAGATAAGGCTGGATGTGATCTGCTCTACTGCTACTTCAGAGAGATAATATCT-TTGTTTTC
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCTACTTCAGAGAGATAAGATCTGTGGTTTT-
*
36510600 AATCCGCTCC-ACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
65 AATCCGC-CCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
* *
36510664 AGGGAGATAAGACTTGATGCGATCTGCTCTACTG-TAACTTTAGAGAGATAAGATCTGTGGTTTT
1 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCT-ACTTCAGAGAGATAAGATCTGTGGTTTT
* * * *
36510728 AATCTGCCCTATTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTTTACTCTACTACTGCTT
65 AATCCGCCCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
36510792 AGGGAGATA
1 AGGGAGATA
36510801 GGATCGGTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
127 3 0.02
128 114 0.93
129 6 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (128 bp):
AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCTACTTCAGAGAGATAAGATCTGTGGTTTTA
ATCCGCCCTACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTT
Found at i:36510797 original size:43 final size:43
Alignment explanation
Indices: 36510749--36511127 Score: 158
Period size: 43 Copynumber: 9.2 Consensus size: 43
36510739 TTGTAACTTC
* * *
36510749 AGGGAGATAGGATTGGTTTCTTCTGTTTACTCTACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
*
36510792 AGGGAGATAGGATCGGTTTCTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
* ** * *
36510835 A-AGACTTA--AT--G---CGATCTG-CT-CT--ACTACTGATT
1 AGGGAGATAGGATCGGTTTC-TTCTGTCTACTCCACTACTGCTT
* *** * *
36510867 AGGGAGATAAGA-C--TTGATCTTCAACCTACTCCACTGCTGCTC
1 AGGGAGATAGGATCGGTT--TCTTCTGTCTACTCCACTACTGCTT
* * * *
36510909 AGGGAGATAGGTTTGGTTTCTTCTGTTTGCTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
* * ** *
36510952 AAGGAGATAAGA-C--TTGATGC-GATGC-ACTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTG-T-CTACTCCACTACTGCTT
* ** * *
36510992 AGGGAGATAAGA-C--TTGATGC-GATCTGCTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTG-TCTACTCCACTACTGCTT
* **** *** * *
36511032 AGGGAGATAAGATCTACAGTCTTCAACCTACTCCACTGCTGCTC
1 AGGGAGATAGGATC-GGTTTCTTCTGTCTACTCCACTACTGCTT
* *
36511076 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
1 AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
36511119 AGGGAGATA
1 AGGGAGATA
36511128 AGACTTGATG
Statistics
Matches: 250, Mismatches: 61, Indels: 50
0.69 0.17 0.14
Matches are distributed among these distances:
32 10 0.04
33 4 0.02
34 2 0.01
35 4 0.02
36 4 0.02
38 3 0.01
39 5 0.02
40 71 0.28
41 1 0.00
42 21 0.08
43 95 0.38
44 28 0.11
45 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
AGGGAGATAGGATCGGTTTCTTCTGTCTACTCCACTACTGCTT
Found at i:36510998 original size:40 final size:40
Alignment explanation
Indices: 36510834--36511170 Score: 243
Period size: 40 Copynumber: 8.1 Consensus size: 40
36510824 CACTACTGCT
* * *
36510834 TAAGACTTAATGCGATCTGCTCTACTACTGATTAGGGAGA
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * * *
36510874 TAAGACTTGATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 TAAGACTTGA--TGCGATCTGCTCCACTACTGCTTAGGGAGA
** * * * *
36510916 T-AGGTTTGGTTTCTTCTG-TTTGCTCCACTACTGCTTAAGGAGA
1 TAAGACTT-G---ATGC-GATCTGCTCCACTACTGCTTAGGGAGA
*
36510959 TAAGACTTGATGCGATGC-ACTCCACTACTGCTTAGGGAGA
1 TAAGACTTGATGCGAT-CTGCTCCACTACTGCTTAGGGAGA
36510999 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * * * * * * *
36511039 TAAGATCTACAGTCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 TAAGA-CT--TG-ATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
36511083 TAGGA-TTGGTTTCTTCTG-TCTGCTCCACTACTGCTTAGGGAGA
1 TAAGACTT-G---ATGC-GATCTGCTCCACTACTGCTTAGGGAGA
36511126 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
36511166 TAAGA
1 TAAGA
36511171 TTTGCTTCTT
Statistics
Matches: 231, Mismatches: 45, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
39 3 0.01
40 106 0.46
41 7 0.03
42 25 0.11
43 56 0.24
44 34 0.15
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (40 bp):
TAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
Found at i:36511094 original size:167 final size:167
Alignment explanation
Indices: 36510647--36511170 Score: 607
Period size: 167 Copynumber: 3.2 Consensus size: 167
36510637 TTTCTTCTGT
*
36510647 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTGTAACT-TTAGAGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTAC--T-ACTGTTAGGGAG
*** * * * * *
36510711 ATAAGATCTGTGGT-TTTAATCTGC-CCTATTG-TAACTTCAGGGAGATAGGATTGGTTTCTTCT
63 ATAAGATCTACAGTCTTCAACCTACTCC-ACTGCT-GC-TCAGGGAGATAGGATTGGTTTCTTCT
* * * ** *
36510773 GTTTACTCTACTACTGCTTAGGGAGATAGGATCGGTTTCTTC--TG
125 GTTTGCTCCACTACTGCTTAGGGAGATAAGA-C--TTGATGCGATG
*
36510817 TCTGCTCCACTACTGC-T-------TAAGACTTAATGCGATCTGCTCTACTACTGATTAGGGAGA
1 -CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTACTG-TTAGGGAGA
** *
36510874 TAAGA-CTTGA-TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGTTTGGTTTCTTCTGTTT
64 TAAGATCTACAGTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTTTCTTCTGTTT
*
36510937 GCTCCACTACTGCTTAAGGAGATAAGACTTGATGCGATG
129 GCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATG
* *
36510976 C-ACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTACTG-TTAGGGAGAT
*
36511040 AAGATCTACAGTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTTTCTTCTGTCTG
65 AAGATCTACAGTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTTTCTTCTGTTTG
36511105 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGAT-
130 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATG
36511142 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
36511171 TTTGCTTCTT
Statistics
Matches: 307, Mismatches: 28, Indels: 40
0.82 0.07 0.11
Matches are distributed among these distances:
157 16 0.05
158 2 0.01
159 3 0.01
160 56 0.18
161 14 0.05
162 16 0.05
163 24 0.08
165 42 0.14
166 4 0.01
167 114 0.37
170 1 0.00
171 15 0.05
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (167 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCTACTACTGTTAGGGAGATA
AGATCTACAGTCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTTTCTTCTGTTTGC
TCCACTACTGCTTAGGGAGATAAGACTTGATGCGATG
Found at i:36511296 original size:43 final size:43
Alignment explanation
Indices: 36511167--36511298 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
36511157 TTAGGGAGAT
*
36511167 AAGATTTGCTTCTTTAACTAGCTCCACTGCAACCGATGGAGGC
1 AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
* ** * * * * *
36511210 AAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAA-CGCA-GGAAGGC
1 AA-GATTTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG-AGGC
*
36511253 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
1 AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
36511296 AAG
1 AAG
36511299 GCTTTGTCTT
Statistics
Matches: 63, Mismatches: 18, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 18 0.29
43 25 0.40
44 20 0.32
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (43 bp):
AAGATTTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGC
Found at i:36511311 original size:42 final size:42
Alignment explanation
Indices: 36511177--36511311 Score: 107
Period size: 42 Copynumber: 3.2 Consensus size: 42
36511167 AAGATTTGCT
*
36511177 TCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
1 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
* * * * * * * *
36511219 T-TTTCGATCTGCTTCGCTGTTAA-CGCA-GGAAGGCAA-GATCTG
1 TCTTT-AACCAGCTCCACTG-CAACCG-ATGG-AGGCAAGGCTTTG
36511261 CTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
1 --TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
36511305 TCTTTAA
1 TCTTTAA
36511312 TCTTCACTGA
Statistics
Matches: 66, Mismatches: 17, Indels: 20
0.64 0.17 0.19
Matches are distributed among these distances:
41 3 0.05
42 24 0.36
43 18 0.27
44 18 0.27
45 3 0.05
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (42 bp):
TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG
Found at i:36512590 original size:7 final size:6
Alignment explanation
Indices: 36512555--36512589 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
36512545 TCCATTTTAC
36512555 TTTTCA TTTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTT
36512590 TTACCTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:36513827 original size:25 final size:25
Alignment explanation
Indices: 36513771--36513827 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
36513761 TGAAAGAAAA
*
36513771 TCCAAAAGAATGAAAGAATAATTAT
1 TCCAAAAGAATGAAAGAATAATTAC
*
36513796 TCAAAAAGAATGAAAGAAT-ATTAGC
1 TCCAAAAGAATGAAAGAATAATTA-C
36513821 TCCAAAA
1 TCCAAAA
36513828 ATGAATGCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.56, C:0.11, G:0.12, T:0.21
Consensus pattern (25 bp):
TCCAAAAGAATGAAAGAATAATTAC
Found at i:36517117 original size:106 final size:104
Alignment explanation
Indices: 36516948--36517226 Score: 308
Period size: 106 Copynumber: 2.6 Consensus size: 104
36516938 ATTTAGTCGG
* * * *
36516948 ACGAGACATCAAAACCCAGCACGTTAGGGCACGTTCTCTCGAATTTCTAAACGCAAGACATTGCC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTT-TCTCGAATTTCTAAACGCAAAATATTGCC
** *
36517013 TCGTTTT-AAAATTTCGAAAGAATATTCGACTATTTGGCCAA
65 TC-TTTTGAAAATTTAAAAAG-ATATTCGACCATTTGGCCAA
* * *
36517054 ACGAGTAATCGAAACCCAACACGTTAGGGCCCGTATTCTCGAATTTCTAAACGCAAAATATTGCA
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACGT-TTCTCGAATTTCTAAACGCAAAATATTGC-
* * * * * *
36517119 TTCTTTTGAAAGTTTAAAAAGATATTTGGCCATTTGGTCGA
64 CTCTTTTGAAAATTTAAAAAGATATTCGACCATTTGGCCAA
* * * *
36517160 ATGAGAAATCGAAACCCAGCACGTTAGGGAACGTTTTCTCGAATTTTCCAAACGCGAAATATTGC
1 ACGAGAAATCGAAACCCAGCACGTTAGGGCACG-TTTCTCGAA-TTTCTAAACGCAAAATATTGC
36517225 CT
64 CT
36517227 TATTTAGGAA
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
106 111 0.77
107 33 0.23
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (104 bp):
ACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCTCGAATTTCTAAACGCAAAATATTGCCT
CTTTTGAAAATTTAAAAAGATATTCGACCATTTGGCCAA
Found at i:36519122 original size:22 final size:22
Alignment explanation
Indices: 36519096--36519139 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36519086 CCGACTACTA
*
36519096 TTTTTGTTCTCTGTTACTGTTTC
1 TTTTTGTT-TCTGTGACTGTTTC
*
36519119 TTTTTGTTTTTGTGACTGTTT
1 TTTTTGTTTCTGTGACTGTTT
36519140 GCAGGTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.05, C:0.11, G:0.16, T:0.68
Consensus pattern (22 bp):
TTTTTGTTTCTGTGACTGTTTC
Found at i:36519870 original size:3 final size:3
Alignment explanation
Indices: 36519862--36519918 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
36519852 GTAAAAAATG
* * * * * *
36519862 ATA ATA ATA ATA ATA ATA ATA TTTA ATA ATA GTA GTA GTA GTA ATG
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
36519908 ATA ATA ATA AT
1 ATA ATA ATA AT
36519919 TTGGGCCCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:36526148 original size:44 final size:44
Alignment explanation
Indices: 36526085--36526170 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
36526075 ATCCCTTTAA
36526085 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
1 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
*
36526129 TCACCCCGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTA
1 TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTA
36526171 AGTAAGTTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.14
Consensus pattern (44 bp):
TCACCACGCTTAACCTAAGAACCTAAAAGGAAGAAGAAACTAGG
Found at i:36527241 original size:26 final size:26
Alignment explanation
Indices: 36527212--36527261 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
36527202 CTTTCTAAAG
*
36527212 TTAGTTTCTACCTATTTGGTAAAACT
1 TTAGTTTCTAACTATTTGGTAAAACT
36527238 TTAGTTTCTAACTATTTGGTAAAA
1 TTAGTTTCTAACTATTTGGTAAAA
36527262 ATTAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (26 bp):
TTAGTTTCTAACTATTTGGTAAAACT
Found at i:36533432 original size:21 final size:21
Alignment explanation
Indices: 36533382--36533443 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
36533372 GTAAGTTATG
*
36533382 AAAATATGTATATGTATACACT
1 AAAATATGTATATATATA-ACT
*
36533404 AAAATATGTATATATATAAGT
1 AAAATATGTATATATATAACT
*
36533425 ATAATATGTATATATATAA
1 AAAATATGTATATATATAA
36533444 AAAAGACATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (21 bp):
AAAATATGTATATATATAACT
Found at i:36533454 original size:23 final size:21
Alignment explanation
Indices: 36533384--36533455 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
36533374 AAGTTATGAA
* *
36533384 AATATGTATATGTATACACTAA-
1 AATATGTATATATATA-A-AAAG
** *
36533406 AATATGTATATATATAAGTAT
1 AATATGTATATATATAAAAAG
36533427 AATATGTATATATATAAAAAAG
1 AATATGTATATATAT-AAAAAG
36533449 ACATATG
1 A-ATATG
36533456 CAACAATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 16 0.39
22 19 0.46
23 5 0.12
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (21 bp):
AATATGTATATATATAAAAAG
Found at i:36533466 original size:2 final size:2
Alignment explanation
Indices: 36533461--36533486 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36533451 ATATGCAACA
36533461 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
36533487 TTATTTACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36535772 original size:14 final size:15
Alignment explanation
Indices: 36535739--36535779 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
36535729 TCTTAAATTG
*
36535739 ATTTTTTCATTTTAA
1 ATTTTTTTATTTTAA
36535754 ATTTTTTTATTTT--
1 ATTTTTTTATTTTAA
36535767 ATTTTTTATATTT
1 ATTTTTT-TATTT
36535780 CCTTATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 12 0.50
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTTATTTTAA
Found at i:36535826 original size:6 final size:6
Alignment explanation
Indices: 36535815--36535842 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
36535805 TAAATCCCTC
36535815 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
36535843 CCAGCATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:36542350 original size:102 final size:103
Alignment explanation
Indices: 36542165--36542351 Score: 225
Period size: 102 Copynumber: 1.8 Consensus size: 103
36542155 AAATGTGAAA
* * * * *
36542165 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCATTTCGCGTCAAAAGATTTGATTATGTC
1 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
*****
36542230 TCGAATTTGTTAAAAATAAATAAAGAGAACGTGTCGGG
66 TCGAAAAAAATAAAAATAAATAAAGAGAACGTGTCGGG
* * *
36542268 TTGAGTACCCGGGGTGAGGTGCTT-GGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGT-
1 TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
*
36542331 TTGAAAAAAATAAACAATAAA
66 TCGAAAAAAATAAA-AATAAA
36542352 CAAAAAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
101 8 0.12
102 40 0.58
103 21 0.30
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (103 bp):
TTGAGTAACCGGGATAAGGTGCTTGGGTTGTCATCTCACTTCACGTCAAAAGACTTGACTACGTC
TCGAAAAAAATAAAAATAAATAAAGAGAACGTGTCGGG
Found at i:36542956 original size:13 final size:13
Alignment explanation
Indices: 36542938--36542993 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
36542928 AATTTTGAAT
36542938 TATTTAGTGATAA
1 TATTTAGTGATAA
*
36542951 TATTTA--GA-AT
1 TATTTAGTGATAA
*
36542961 TATTTGGTGATAA
1 TATTTAGTGATAA
36542974 TATTTAGTGATAA
1 TATTTAGTGATAA
36542987 TATTTAG
1 TATTTAG
36542994 GAAAAATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 26 0.72
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:36542960 original size:23 final size:23
Alignment explanation
Indices: 36542929--36542980 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
36542919 GATTTTTTAA
*
36542929 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
36542952 ATTTAGAATTATTTGGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
36542975 ATTTAG
1 ATTTAG
36542981 TGATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:36543812 original size:22 final size:22
Alignment explanation
Indices: 36543765--36543814 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
36543755 GCTTAAAAAA
* *
36543765 TATTTTATTTATCTATTTGTTT
1 TATTTTATTAATCTATTTGTTG
*
36543787 TATTTTATTAAATTTATTT-TTG
1 TATTTTATT-AATCTATTTGTTG
36543809 TATTTT
1 TATTTT
36543815 CAAATCTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TATTTTATTAATCTATTTGTTG
Found at i:36548777 original size:17 final size:17
Alignment explanation
Indices: 36548752--36548785 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36548742 AACTCACCTC
*
36548752 AATACCATATTATGCAA
1 AATACCATAATATGCAA
*
36548769 AATATCATAATATGCAA
1 AATACCATAATATGCAA
36548786 TAATTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
AATACCATAATATGCAA
Found at i:36549517 original size:20 final size:18
Alignment explanation
Indices: 36549492--36549550 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 18
36549482 ATTAACATGT
36549492 TTAATCATAATTAATTAA
1 TTAATCATAATTAATTAA
*
36549510 TCTTAATCATGATTTAACTTAA
1 --TTAATCAT-AATTAA-TTAA
36549532 TTAATCTATATATTAATTA
1 TTAATC-ATA-ATTAATTA
36549551 GTCTAATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 18 0.55
21 11 0.33
22 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATCATAATTAATTAA
Found at i:36551928 original size:22 final size:22
Alignment explanation
Indices: 36551892--36551974 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
36551882 TGCTGAAATT
**
36551892 CGTACTAAGCTCTCATGTTTAA
1 CGTACTAAGCTCTCATGGCTAA
* * *
36551914 CGAACTAAACCCTCATGGCTAA
1 CGTACTAAGCTCTCATGGCTAA
36551936 CGTACTAAGCTCTCATGGCTAA
1 CGTACTAAGCTCTCATGGCTAA
36551958 CGTACTAAGCTCTCATG
1 CGTACTAAGCTCTCATG
36551975 TATACTATGG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (22 bp):
CGTACTAAGCTCTCATGGCTAA
Found at i:36553690 original size:47 final size:47
Alignment explanation
Indices: 36553616--36553711 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
36553606 GTAACAGAAC
**
36553616 ACGCACCGATACAAGTTCGTAAGAATTTAGTGCGGAAAACATCATTT
1 ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
*
36553663 ACGCGCCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
1 ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
36553710 AC
1 AC
36553712 ATGTGTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (47 bp):
ACGCACCGATACAAGTTCGTAAGAATTTAGTGAAGAAAACATCATTT
Found at i:36563832 original size:2 final size:2
Alignment explanation
Indices: 36563825--36563867 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
36563815 TAACATAAAT
36563825 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36563867 A
1 A
36563868 TTTGTTTAGC
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36568219 original size:26 final size:26
Alignment explanation
Indices: 36568190--36568246 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
36568180 AAATTACAAC
*
36568190 CAAGACCTTAAATTCATCATTAACAT
1 CAAGACCTTAAACTCATCATTAACAT
36568216 CAAGACCTTAAACTCATCATTAACAT
1 CAAGACCTTAAACTCATCATTAACAT
36568242 CAAGA
1 CAAGA
36568247 ACAATCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.26
Consensus pattern (26 bp):
CAAGACCTTAAACTCATCATTAACAT
Found at i:36568262 original size:29 final size:26
Alignment explanation
Indices: 36568190--36568263 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
36568180 AAATTACAAC
* *
36568190 CAAGACCTTAAATTCATCATTAACAT
1 CAAGACATCAAATTCATCATTAACAT
* * *
36568216 CAAGACCTTAAACTCATCATTAACAT
1 CAAGACATCAAATTCATCATTAACAT
36568242 CAAGAACAATCAATATTCATCA
1 CAAG-AC-ATCAA-ATTCATCA
36568264 ATGACAGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 29 0.71
27 2 0.05
28 3 0.07
29 7 0.17
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (26 bp):
CAAGACATCAAATTCATCATTAACAT
Found at i:36572385 original size:28 final size:28
Alignment explanation
Indices: 36572352--36572414 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
36572342 TTGAAATAAA
* *
36572352 TTAATTGTTCCCAACC-CTATTTTTGTAT
1 TTAATTATTCACAACCTC-ATTTTTGTAT
* *
36572380 TTAATTATTCATAATCTCATTTTTGTAT
1 TTAATTATTCACAACCTCATTTTTGTAT
36572408 TTAATTA
1 TTAATTA
36572415 ATTTTTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (28 bp):
TTAATTATTCACAACCTCATTTTTGTAT
Found at i:36574023 original size:74 final size:74
Alignment explanation
Indices: 36573900--36574046 Score: 249
Period size: 74 Copynumber: 2.0 Consensus size: 74
36573890 CAGAACGAAG
* *
36573900 GGAATCTGCATATCGCATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
1 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
36573965 AAGCTGAAT
66 AAGCTGAAT
** *
36573974 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCATTGTAACTGTAGAACGGCAAAAGCCGAA
1 GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
36574039 AAGCTGAA
66 AAGCTGAA
36574047 ATACGACGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (74 bp):
GGAATCTGCAAATCACATCAGGTGTGTAACTACCCCACGGTAACAGTAGAACGGCAAAAGCCGAA
AAGCTGAAT
Found at i:36574403 original size:27 final size:26
Alignment explanation
Indices: 36574370--36574880 Score: 464
Period size: 27 Copynumber: 19.0 Consensus size: 26
36574360 GCTATGATCG
* * *
36574370 AAATACCCCCATATGATAGAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
*
36574396 AAATTACCCTCATAGGGTAAAATGACC
1 AAA-TACCCCCATAGGGTAAAATGACC
* * * * *
36574423 AAAATAGCTCAATAGGGTAGAATGATCG
1 -AAATACCCCCATAGGGTAAAATGA-CC
* * *
36574451 AAATACCCCTATAGGATAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
36574478 AAATACCTCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGA-CC
* *
36574505 AATTACCCCTATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
* *
36574531 AAAATACCCCCATAGAGTAGAATGACC
1 -AAATACCCCCATAGGGTAAAATGACC
* *
36574558 GAAATACCCCCATAGGGTAGAATGATCG
1 -AAATACCCCCATAGGGTAAAATGA-CC
* * *
36574586 TAATACCCCCATAAGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* **
36574613 AAATACCCCTATAGGGTAAAATGATTA
1 AAATACCCCCATAGGGTAAAATGA-CC
* * * *
36574640 AAATACCCCCATAGGATAGAATAACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
36574667 AAATACCCCTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
*
36574694 AAATACCCCTATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
* * * * *
36574720 AAAATACCTCTATCGGATAGAATGACCC
1 -AAATACCCCCATAGGGTAAAATGA-CC
* *
36574748 AAATACCCTCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGAC-C
* *
36574775 AAATACCCCCATAGGATAGAATGACCC
1 AAATACCCCCATAGGGTAAAATGA-CC
36574802 AAATACCCCCATAGGGTAAAATGACC
1 AAATACCCCCATAGGGTAAAATGACC
*
36574828 GAAATACTCCCATAGGGTAAAATGACC
1 -AAATACCCCCATAGGGTAAAATGACC
*
36574855 GAAATACCCTCATAGGGTAAAATGAC
1 -AAATACCCCCATAGGGTAAAATGAC
36574881 TGTTATACCC
Statistics
Matches: 402, Mismatches: 68, Indels: 29
0.81 0.14 0.06
Matches are distributed among these distances:
26 9 0.02
27 384 0.96
28 9 0.02
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATACCCCCATAGGGTAAAATGACC
Found at i:36574458 original size:54 final size:53
Alignment explanation
Indices: 36574363--36574880 Score: 545
Period size: 54 Copynumber: 9.6 Consensus size: 53
36574353 TTACACTGCT
* * * * *
36574363 ATGATCGAAATACCCCCATATGATAGAATGACCAAATTA-CCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACGAAA-TACCCCT-ATAGGGTAAA
* * * * * *
36574417 ATGACCAAAATAGCTCAATAGGGTAGAATGATCGAAATACCCCTATAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * *
36574471 ATGACTGAAATACCTCCATAGGGTAAAATGATCGAATTACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * * * *
36574525 ATGACCAAAATACCCCCATAGAGTAGAATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * *
36574579 ATGATCGTAATACCCCCATAAGGTAAAATGACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
*** * * *
36574633 ATGATTAAAATACCCCCATAGGATAGAATAACTGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
* * * * * * *
36574687 ATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCTCTATCGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATACCCCTATAGGGTAAA
* * * * *
36574741 ATGACCCAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCATAGGATAGA
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC-GAAATACCCCTATAGGGTAAA
*
36574795 ATGACCCAAATACCCCCATAGGGTAAAATGACCGAAATACTCCC-ATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CGAAATAC-CCCTATAGGGTAAA
*
36574849 ATGACCGAAATACCCTCATAGGGTAAAATGAC
1 ATGACCGAAATACCCCCATAGGGTAAAATGAC
36574881 TGTTATACCC
Statistics
Matches: 393, Mismatches: 64, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
53 3 0.01
54 377 0.96
55 13 0.03
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (53 bp):
ATGACCGAAATACCCCCATAGGGTAAAATGACGAAATACCCCTATAGGGTAAA
Found at i:36574891 original size:81 final size:80
Alignment explanation
Indices: 36574363--36574880 Score: 545
Period size: 81 Copynumber: 6.4 Consensus size: 80
36574353 TTACACTGCT
* * * * * * *
36574363 ATGATCGAAATACCCCCATATGATAGAATGACC-AAATTACCCTCATAGGGTAAAATGACCAAAA
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAA-TACCCCCATAGGGTAAAATGACCGAAA
* * *
36574427 TAGCTCAATAGGGTAGA
65 TA-CCCCATAGGGTAAA
* * * * * *
36574444 ATGATCGAAATACCCCTATAGGATAAAATGACTGAAATACCTCCATAGGGTAAAATGATCGAATT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
36574509 ACCCCTATAGGGTAAA
66 ACCCC-ATAGGGTAAA
* * * * * * *
36574525 ATGACCAAAATACCCCCATAGAGTAGAATGACCGAAATACCCCCATAGGGTAGAATGATCGTAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
*
36574590 ACCCCCATAAGGTAAA
66 A-CCCCATAGGGTAAA
* *** * * * *
36574606 ATGACTGAAATACCCCTATAGGGTAAAATGATTAAAATACCCCCATAGGATAGAATAACTGAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
36574671 ACCCCTATAGGGTAAA
66 ACCCC-ATAGGGTAAA
* * * * * * * *
36574687 ATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCTCTATCGGATAGAATGACCCAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
36574752 ACCCTCATAGGGTAAA
66 ACCC-CATAGGGTAAA
* * * * *
36574768 ATGACTGAAATACCCCCATAGGATAGAATGACCCAAATACCCCCATAGGGTAAAATGACCGAAAT
1 ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
36574833 ACTCCCATAGGGTAAA
66 AC-CCCATAGGGTAAA
36574849 ATGACCGAAATA-CCCTCATAGGGTAAAATGAC
1 ATGACCGAAATACCCCT-ATAGGGTAAAATGAC
36574881 TGTTATACCC
Statistics
Matches: 370, Mismatches: 60, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
80 9 0.02
81 351 0.95
82 10 0.03
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (80 bp):
ATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT
ACCCCATAGGGTAAA
Found at i:36575150 original size:26 final size:26
Alignment explanation
Indices: 36575114--36575163 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
36575104 TTTGCCACAT
* *
36575114 ATACTGTTACTGGTAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGTG
36575140 ATACTATTACTGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
36575164 CAATATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGTG
Found at i:36575312 original size:28 final size:28
Alignment explanation
Indices: 36575275--36575441 Score: 237
Period size: 28 Copynumber: 6.0 Consensus size: 28
36575265 CATTGTACTG
*
36575275 ATTACTGTATTGGACTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
36575303 ATTACTGTATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
*
36575331 GTTACT-TATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* *
36575358 GTTACTGTATTGGGCTAAGGCCCATATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* *
36575386 ATTACTGTAATGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* * * *
36575414 GTTACTGAAATAGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
36575442 GTACTATTAC
Statistics
Matches: 127, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
27 27 0.21
28 100 0.79
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACATT
Found at i:36575363 original size:55 final size:56
Alignment explanation
Indices: 36575276--36575443 Score: 248
Period size: 55 Copynumber: 3.0 Consensus size: 56
36575266 ATTGTACTGA
* *
36575276 TTACTGTATTGGACTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
* *
36575332 TTACT-TATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCATATTA
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
* * * * *
36575387 TTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAATAGGCTAAGGCCCACATTG
1 TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
36575443 T
1 T
36575444 ACTATTACTG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
55 51 0.51
56 49 0.49
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (56 bp):
TTACTGTATTGGGCTAAGGCCCACATTGTTACTGTATTGGGCTAAGGCCCACATTG
Found at i:36575417 original size:83 final size:84
Alignment explanation
Indices: 36575276--36575443 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 84
36575266 ATTGTACTGA
* * * *
36575276 TTACTGTATTGGACTAAGGCCCACATTATTACTGTATTGGGCTAAGGCCCACATTGTTACT-TAT
1 TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
*
36575340 TGGGCTAAGGCCCACATTG
66 TAGGCTAAGGCCCACATTG
* *
36575359 TTACTGTATTGGGCTAAGGCCCATATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
1 TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
36575424 TAGGCTAAGGCCCACATTG
66 TAGGCTAAGGCCCACATTG
36575443 T
1 T
36575444 ACTATTACTG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 57 0.74
84 20 0.26
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
TTACTGTATTGGACTAAGGCCCACATTATTACTGTAATGGGCTAAGGCCCACACTGTTACTGAAA
TAGGCTAAGGCCCACATTG
Found at i:36577534 original size:26 final size:26
Alignment explanation
Indices: 36577505--36577671 Score: 183
Period size: 26 Copynumber: 6.4 Consensus size: 26
36577495 ACCTGAATAG
*
36577505 CAGGCCTTAAGCCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
** * *
36577531 CAGGCCTTGAGCAAATGATTACTTAG
1 CAGGCCTTGAGCCGATGATTATTTAA
* * *
36577557 CA-GACTATGAGCCGGTGATTATTTAG
1 CAGGCCT-TGAGCCGATGATTATTTAA
* * *
36577583 TAGGCCTTGAGCAGGTGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
* *
36577609 CAGGCCTTGAGCCGGTGATTACTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
*
36577635 TAGGCCTTGAGCCGATGATTATTTAA
1 CAGGCCTTGAGCCGATGATTATTTAA
*
36577661 TAGGCCTTGAG
1 CAGGCCTTGAG
36577672 TCAGTAATTA
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 3 0.03
26 113 0.95
27 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (26 bp):
CAGGCCTTGAGCCGATGATTATTTAA
Found at i:36577646 original size:78 final size:78
Alignment explanation
Indices: 36577506--36577685 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 78
36577496 CCTGAATAGC
* * * *
36577506 AGGCCTTAAGCCGATGATTATTTAACAGGCCTTGAGCAAATGATTACTTAGCAGACTATGAGCCG
1 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACAGACTATGAGCCG
* *
36577571 GTGATTATTTAGT
66 ATGATTATTTAAT
*** * *
36577584 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCCGGTGATTACTTAATAGGCCT-TGAGCC
1 AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACA-GACTATGAGCC
36577648 GATGATTATTTAAT
65 GATGATTATTTAAT
*
36577662 AGGCCTTGAGTCA-GTAATTATTTA
1 AGGCCTTGAG-CAGGTGATTATTTA
36577686 GCAAATACTA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
78 83 0.94
79 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (78 bp):
AGGCCTTGAGCAGGTGATTATTTAACAGGCCTTGAGCAAATGATTACTTAACAGACTATGAGCCG
ATGATTATTTAAT
Found at i:36579693 original size:23 final size:23
Alignment explanation
Indices: 36579667--36579719 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
36579657 AATCAAAAAA
*
36579667 AGAAAAAGCGGTCC-AAAGTCAAT
1 AGAAAAAGCAGTCCAAAAG-CAAT
*
36579690 AGAAAAAAGTAGTCCAAAAGCAAT
1 AG-AAAAAGCAGTCCAAAAGCAAT
36579714 AGAAAA
1 AGAAAA
36579720 GTATGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.11
Consensus pattern (23 bp):
AGAAAAAGCAGTCCAAAAGCAAT
Found at i:36584474 original size:26 final size:26
Alignment explanation
Indices: 36584437--36584564 Score: 128
Period size: 26 Copynumber: 5.1 Consensus size: 26
36584427 ACACACCGCA
*
36584437 GCTCTT-TTGAGCGTCCTGATATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
*
36584462 GCTCTTCTTGAGCTTCCTGAT-TAAAG
1 GCTCTTCTTGAGCTTCCTGATAT-ATG
36584488 GCTCTT-TGTGAGCTTCCTGAT-TAATG
1 GCTCTTCT-TGAGCTTCCTGATAT-ATG
*
36584514 GCTCTTC-GGAGCTTCCTG--ATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
* *
36584537 GCTC-GCTTGAACTTCCTGATATATG
1 GCTCTTCTTGAGCTTCCTGATATATG
36584562 GCT
1 GCT
36584565 ATCCATAGCT
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.18
24 1 0.01
25 26 0.30
26 44 0.50
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
GCTCTTCTTGAGCTTCCTGATATATG
Found at i:36584529 original size:51 final size:51
Alignment explanation
Indices: 36584437--36584564 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 51
36584427 ACACACCGCA
*
36584437 GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTTGAGCTTCCTGATTAAAG
1 GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTGGAGCTTCCTGATTAAAG
* *
36584488 GCTCTTTGTGAGCTTCCTGAT-TAATGGCTCTTC-GGAGCTTCCTGA-T-ATG
1 GCTCTTT-TGAGCGTCCTGATAT-ATGGCTCTTCTGGAGCTTCCTGATTAAAG
** * *
36584537 GCTCGCTTGAACTTCCTGATATATGGCT
1 GCTCTTTTGAGCGTCCTGATATATGGCT
36584565 ATCCATAGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
48 18 0.26
49 8 0.12
50 1 0.01
51 19 0.28
52 22 0.32
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (51 bp):
GCTCTTTTGAGCGTCCTGATATATGGCTCTTCTGGAGCTTCCTGATTAAAG
Found at i:36587521 original size:2 final size:2
Alignment explanation
Indices: 36587514--36587546 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
36587504 AATGTTACTT
36587514 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36587547 TTCAAGAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36590350 original size:29 final size:30
Alignment explanation
Indices: 36590318--36590386 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
36590308 AAATTAAAAT
* *
36590318 TTCATGTATAAAATTGTACA-AAATCAAAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
* * *
36590347 TTCATGTATACAATTGCACATTAACCATAG
1 TTCATGTATAAAATTGCACATAAACCAAAG
36590377 TTCATGTATA
1 TTCATGTATA
36590387 GTTTTGAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (30 bp):
TTCATGTATAAAATTGCACATAAACCAAAG
Found at i:36590502 original size:10 final size:10
Alignment explanation
Indices: 36590487--36590559 Score: 52
Period size: 10 Copynumber: 7.9 Consensus size: 10
36590477 ATATATTTAG
36590487 ATTATAAAAA
1 ATTATAAAAA
*
36590497 ATTAT-AAAT
1 ATTATAAAAA
36590506 ATTAT--AAA
1 ATTATAAAAA
36590514 A-TAT--AAA
1 ATTATAAAAA
*
36590521 A-TATAATAA
1 ATTATAAAAA
* *
36590530 ATTCTAATAA
1 ATTATAAAAA
36590540 ATTATAAACAA
1 ATTATAAA-AA
36590551 ATTATAAAA
1 ATTATAAAA
36590560 TTAACTAAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 10 0.19
8 3 0.06
9 11 0.21
10 19 0.36
11 10 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:36590522 original size:17 final size:19
Alignment explanation
Indices: 36590487--36590562 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
36590477 ATATATTTAG
36590487 ATTATAAAAAATTATAAAT
1 ATTATAAAAAATTATAAAT
36590506 ATTAT--AAAA-TATAAA-
1 ATTATAAAAAATTATAAAT
* * *
36590521 A-TATAATAAATTCTAATAA
1 ATTATAAAAAATTATAA-AT
36590540 ATTATAAACAAATTATAAA-
1 ATTATAAA-AAATTATAAAT
36590559 ATTA
1 ATTA
36590563 ACTAAACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.07
15 1 0.02
16 9 0.20
17 8 0.17
18 1 0.02
19 10 0.22
20 6 0.13
21 8 0.17
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTATAAAAAATTATAAAT
Found at i:36590975 original size:19 final size:20
Alignment explanation
Indices: 36590937--36590982 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
36590927 CGACCAGTTT
36590937 AATTAAATGAAATATAAAAA
1 AATTAAATGAAATATAAAAA
* *
36590957 AATTAAAT-ATATATTAAAA
1 AATTAAATGAAATATAAAAA
36590976 AATTAAA
1 AATTAAA
36590983 AAAATTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTAAATGAAATATAAAAA
Found at i:36591120 original size:19 final size:19
Alignment explanation
Indices: 36591099--36591201 Score: 70
Period size: 19 Copynumber: 5.3 Consensus size: 19
36591089 CCAGTTCAAG
*
36591099 TTTTTATGATTTTTATAAG
1 TTTTTATGATTTTTATAAA
* * *
36591118 TTTATATCAATTTTA-AAA
1 TTTTTATGATTTTTATAAA
*
36591136 CTTTTAAT-ACTTTTT-TACAA
1 -TTTTTATGA-TTTTTATA-AA
36591156 TTTTTATGATTTTTATAGAA
1 TTTTTATGATTTTTATA-AA
36591176 TTTTAATATG-TTTTTATAAA
1 TTTT--TATGATTTTTATAAA
*
36591196 ATTTTA
1 TTTTTA
36591202 AATATTTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.08
19 33 0.50
20 16 0.24
21 8 0.12
22 4 0.06
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTTTATGATTTTTATAAA
Found at i:36591191 original size:21 final size:21
Alignment explanation
Indices: 36591131--36591202 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
36591121 ATATCAATTT
*
36591131 TAAAACTTTTAATA-CTTTTT-
1 TAAAA-TTTTAATATGTTTTTA
*
36591151 TACAATTTT--TATGATTTTTA
1 TAAAATTTTAATATG-TTTTTA
*
36591171 TAGAATTTTAATATGTTTTTA
1 TAAAATTTTAATATGTTTTTA
36591192 TAAAATTTTAA
1 TAAAATTTTAA
36591203 ATATTTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 2 0.05
19 9 0.21
20 12 0.28
21 16 0.37
22 4 0.09
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TAAAATTTTAATATGTTTTTA
Found at i:36591205 original size:22 final size:22
Alignment explanation
Indices: 36591160--36591209 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
36591150 TTACAATTTT
*
36591160 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
36591182 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
36591203 -AT-ATTTT
1 TATGATTTT
36591210 AATTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:36591228 original size:50 final size:49
Alignment explanation
Indices: 36591174--36591290 Score: 120
Period size: 50 Copynumber: 2.4 Consensus size: 49
36591164 ATTTTTATAG
*
36591174 AATTTTAATATGTTTTTATAAAATT-TTAAATATTTT-AATTATATTTTATT
1 AATTTT-ATATGTTTTTATAAAATTATT--ATATTTTGAATAATATTTTATT
* *
36591224 AATTTT-TATAGTTTTTTTATAAATTATTATATTTTGGATAATATTTTATT
1 AATTTTATAT-GTTTTTATA-AAATTATTATATTTTGAATAATATTTTATT
36591274 --TTTTATAT-TTTTTATAA
1 AATTTTATATGTTTTTATAA
36591291 GTTTATATCA
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
46 1 0.02
47 7 0.12
48 7 0.12
49 18 0.31
50 23 0.40
51 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (49 bp):
AATTTTATATGTTTTTATAAAATTATTATATTTTGAATAATATTTTATT
Found at i:36591241 original size:21 final size:20
Alignment explanation
Indices: 36591217--36591258 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
36591207 TTTAATTATA
* *
36591217 TTTTATTAATTTTTATAGTTT
1 TTTTATAAATTATTATA-TTT
36591238 TTTTATAAATTATTATATTT
1 TTTTATAAATTATTATATTT
36591258 T
1 T
36591259 GGATAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATAAATTATTATATTT
Found at i:36591258 original size:19 final size:19
Alignment explanation
Indices: 36591217--36591280 Score: 51
Period size: 21 Copynumber: 3.4 Consensus size: 19
36591207 TTTAATTATA
* *
36591217 TTTTATTAATTTTTATAGTTT
1 TTTTATAAATTATTATA--TT
36591238 TTTTATAAATTATTATATT
1 TTTTATAAATTATTATATT
** *
36591257 TTGGAT-AA-TATTTTATT
1 TTTTATAAATTATTATATT
36591274 TTTTATA
1 TTTTATA
36591281 TTTTTTATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 12 0.34
18 2 0.06
19 6 0.17
21 15 0.43
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTATAAATTATTATATT
Found at i:36595209 original size:7 final size:6
Alignment explanation
Indices: 36595165--36595207 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 6
36595155 TATTTTCTGG
*
36595165 AAATGA AAATGA AACTGA AAATTGA AAATTGA AAATAGA AAAT
1 AAATGA AAATGA AAATGA AAA-TGA AAA-TGA AAAT-GA AAAT
36595208 AGTTTTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 14 0.42
7 19 0.58
ACGTcount: A:0.63, C:0.02, G:0.14, T:0.21
Consensus pattern (6 bp):
AAATGA
Found at i:36595508 original size:3 final size:3
Alignment explanation
Indices: 36595500--36595573 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
36595490 GCCCCCTGAA
*
36595500 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT TGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
*
36595548 GGT GGT GGT GGT GGT TGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GG
36595574 AGGAGAAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GGT
Found at i:36595822 original size:43 final size:43
Alignment explanation
Indices: 36595761--36595843 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
36595751 ATATCATATA
* * *
36595761 ATAATATCCTATAATATCCCATTAGGAATTAAATTTCTAAGAG
1 ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAAGAG
*
36595804 ATAATATCCTATAATATCCCTTTAGAAATCAAATTGCTAA
1 ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAA
36595844 AATATACTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (43 bp):
ATAATATCCTATAATATCCCATTAGAAATCAAATTGCTAAGAG
Found at i:36597723 original size:16 final size:16
Alignment explanation
Indices: 36597666--36597730 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
36597656 CTAATGCAAC
* *
36597666 AACTCTTGTTTAAAAT
1 AACTATTGTTCAAAAT
** * **
36597682 AGTTATTGTTCAGAGC
1 AACTATTGTTCAAAAT
36597698 AACTATTGTTCGAAAAT
1 AACTATTGTTC-AAAAT
36597715 AACTA-TGTTCAAAAT
1 AACTATTGTTCAAAAT
36597730 A
1 A
36597731 GGGCTTCAGT
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
15 6 0.17
16 23 0.64
17 7 0.19
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
AACTATTGTTCAAAAT
Found at i:36597730 original size:15 final size:17
Alignment explanation
Indices: 36597698--36597730 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
36597688 TGTTCAGAGC
36597698 AACTATTGTTCGAAAAT
1 AACTATTGTTCGAAAAT
36597715 AACTA-TGTTC-AAAAT
1 AACTATTGTTCGAAAAT
36597730 A
1 A
36597731 GGGCTTCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
AACTATTGTTCGAAAAT
Found at i:36600138 original size:24 final size:25
Alignment explanation
Indices: 36600109--36600163 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
36600099 GAGTTACCTG
*
36600109 TTAAGCTCACATGAGCTTTCTGTT-
1 TTAAGCTCACATGAGCTTCCTGTTA
**
36600133 TTAAGCTCTTATGAGCTTCCTGTTA
1 TTAAGCTCACATGAGCTTCCTGTTA
36600158 TTAAGC
1 TTAAGC
36600164 CCGAAAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (25 bp):
TTAAGCTCACATGAGCTTCCTGTTA
Found at i:36607285 original size:24 final size:25
Alignment explanation
Indices: 36607255--36607312 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
36607245 CAGAGTTACC
*
36607255 TATTAAGCTCACATGAGCTTTCTAT
1 TATTAAGCTCACATGAGCTTCCTAT
* ** *
36607280 T-TTAAGATCTTATGAGCTTCCTGT
1 TATTAAGCTCACATGAGCTTCCTAT
36607304 TATTAAGCT
1 TATTAAGCT
36607313 TGGATAAGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (25 bp):
TATTAAGCTCACATGAGCTTCCTAT
Found at i:36616519 original size:21 final size:21
Alignment explanation
Indices: 36616493--36616535 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36616483 AGTATAATTT
36616493 TTTTAAAA-ACTGTAAAAGTTG
1 TTTTAAAATA-TGTAAAAGTTG
*
36616514 TTTTAAAATATTTAAAAGTTG
1 TTTTAAAATATGTAAAAGTTG
36616535 T
1 T
36616536 AAAAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (21 bp):
TTTTAAAATATGTAAAAGTTG
Found at i:36616638 original size:28 final size:27
Alignment explanation
Indices: 36616535--36616639 Score: 74
Period size: 26 Copynumber: 3.9 Consensus size: 27
36616525 TTAAAAGTTG
* *
36616535 TAAAAATTAT-TAAAAACATTAAATTT
1 TAAAAATTATAAAAAAATATTAAATTT
** * *
36616561 TGTAAGTATATATAAAAAAT-TATAATTTT
1 TAAAAAT-TATA-AAAAAATAT-TAAATTT
* *
36616590 TTAAAATGA-AAAAAAAT-TTAAATTAT
1 TAAAAATTATAAAAAAATATTAAATT-T
36616616 TAAAAATTATAAAAAAATATTAAA
1 TAAAAATTATAAAAAAATATTAAA
36616640 AAGTATTTTC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
25 5 0.08
26 20 0.34
27 12 0.20
28 7 0.12
29 15 0.25
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (27 bp):
TAAAAATTATAAAAAAATATTAAATTT
Found at i:36616665 original size:18 final size:20
Alignment explanation
Indices: 36616630--36616666 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36616620 AATTATAAAA
*
36616630 AAATATTAAAAAGTATTTTC
1 AAATATTAAAAAGAATTTTC
36616650 AAAT-TTAAAAA-AATTTT
1 AAATATTAAAAAGAATTTT
36616667 AAAAAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (20 bp):
AAATATTAAAAAGAATTTTC
Found at i:36616940 original size:20 final size:20
Alignment explanation
Indices: 36616895--36616978 Score: 64
Period size: 20 Copynumber: 4.2 Consensus size: 20
36616885 ATTAATTATC
*
36616895 AATTTTTTA-ATATTTTAA-
1 AATTTTTTACAAATTTTAAT
* * *
36616913 ATTATTTTTACAGATTTTTAT
1 AAT-TTTTTACAAATTTTAAT
* * *
36616934 AGTTTTTAATAAATTTTAAT
1 AATTTTTTACAAATTTTAAT
*
36616954 AATTTTTTACAACTTTTAAT
1 AATTTTTTACAAATTTTAAT
*
36616974 GATTT
1 AATTT
36616979 GTCCTATCAA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
18 2 0.04
19 6 0.12
20 40 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTTTACAAATTTTAAT
Found at i:36616960 original size:10 final size:10
Alignment explanation
Indices: 36616898--36616960 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
36616888 AATTATCAAT
36616898 TTTTTAAT-A
1 TTTTTAATAA
* *
36616907 TTTTAAATTA
1 TTTTTAATAA
*
36616917 TTTTTACA-GA
1 TTTTTA-ATAA
*
36616927 TTTTT-ATAG
1 TTTTTAATAA
36616936 TTTTTAATAA
1 TTTTTAATAA
*
36616946 ATTTTAATAA
1 TTTTTAATAA
36616956 TTTTT
1 TTTTT
36616961 TACAACTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 12 0.29
10 28 0.67
11 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:36617062 original size:20 final size:20
Alignment explanation
Indices: 36617005--36617048 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
36616995 ATCAACACAA
* *
36617005 TCAACATACCACGTCATCAG
1 TCAACATGCCACATCATCAG
36617025 TCAACATGCCACATCATCAG
1 TCAACATGCCACATCATCAG
36617045 TCAA
1 TCAA
36617049 TGTGCCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.34, G:0.09, T:0.20
Consensus pattern (20 bp):
TCAACATGCCACATCATCAG
Found at i:36617462 original size:2 final size:2
Alignment explanation
Indices: 36617455--36617484 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36617445 TTCATAATTA
36617455 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
36617485 TAGAGCCTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36623030 original size:16 final size:16
Alignment explanation
Indices: 36622991--36623037 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
36622981 ACACGAATAT
36622991 ATTAATTA--ATTATAA
1 ATTAATTATTATT-TAA
36623006 A-TAATTTATTATTTAA
1 ATTAA-TTATTATTTAA
36623022 ATTAATTATTATTTAA
1 ATTAATTATTATTTAA
36623038 TTAGTATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.11
15 4 0.14
16 15 0.54
17 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTAATTATTATTTAA
Found at i:36639042 original size:2 final size:2
Alignment explanation
Indices: 36639037--36639081 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
36639027 AAAGGTTACA
36639037 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
36639079 AT A
1 AT A
36639082 CATTGCTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36639568 original size:16 final size:16
Alignment explanation
Indices: 36639528--36639568 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 16
36639518 ATTGTTTTCT
36639528 ATTTGTGTTGTTCGCC
1 ATTTGTGTTGTTCGCC
*
36639544 A--TGTG-TGTTCTCC
1 ATTTGTGTTGTTCGCC
36639557 ATTTGTGTTGTT
1 ATTTGTGTTGTT
36639569 TGCAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 4 0.19
16 5 0.24
ACGTcount: A:0.07, C:0.15, G:0.24, T:0.54
Consensus pattern (16 bp):
ATTTGTGTTGTTCGCC
Found at i:36641017 original size:6 final size:5
Alignment explanation
Indices: 36641009--36641042 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
36640999 ATAATTTTGT
36641009 TTTTA TTTTA TTTTA TTTT- TGTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTT
36641043 CTTTATCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 25 0.93
6 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:36642331 original size:116 final size:116
Alignment explanation
Indices: 36642127--36642363 Score: 456
Period size: 116 Copynumber: 2.0 Consensus size: 116
36642117 AATCCTTGAG
*
36642127 GCTAATCTACATAGATCTCTTTCTTCAGATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
1 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
36642192 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
66 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
36642243 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
1 GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
36642308 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
66 TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
*
36642359 TCTAA
1 GCTAA
36642364 CCTTTCTACA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 119 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (116 bp):
GCTAATCTACATAGATCTCTTTCTTCAAATAACCATTCAAAAAAGTTGATTAAACATGCATTTGA
TGTATTTTCCAACCCTTTTGAGCTGCAAGTGTTAATAGCAGCCTTATGGTA
Found at i:36642896 original size:288 final size:288
Alignment explanation
Indices: 36642377--36642944 Score: 933
Period size: 288 Copynumber: 2.0 Consensus size: 288
36642367 TTCTACAGGG
* * * *
36642377 GCAAAGGTCTCAGTAAAATCCACACTAAATTGCTGACTATACCCCTTGATAACCAATCTGGCCTT
1 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
*
36642442 GTACTTATTGATAGAACCATCAAGTTTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
66 GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
* *
36642507 TCTTATGAATCAGTCTATCTACCAACTCCCAAGTCTTATTCTTGTTGATCATACTAATATCTTCC
131 TCTTATGAATCAGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTCC
**
36642572 TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAATTTAACTGGTTCCAACACTGC
196 TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACTGC
*
36642637 CAGATTACATATCTGATAAAATTTAGTA
261 CAGATTACACATCTGATAAAATTTAGTA
*
36642665 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCTCTTGATAACCAATCTAGCCAT
1 GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
* *
36642730 GTACTTGTTGATAGAACCATCAAGATTCATTTTGGTTCTGAACACCTATTTGACCCCAATAACTT
66 GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
* *
36642795 TCTTATGAA-CTGGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATCTCTTC
131 TCTTATGAATC-AGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTC
* * *
36642859 CTTCATAGCATCTCTTTATTCAAG-TTCTTGTGCTACCTCTTTAAAGGTAATTGGTTCCAACACT
195 CTTCATAGCATCTCTCTATTCAAGATT-TTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACT
*
36642923 GCCAGATTACACATTTGATAAA
259 GCCAGATTACACATCTGATAAA
36642945 CTTCAGTAAT
Statistics
Matches: 259, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
287 3 0.01
288 256 0.99
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (288 bp):
GCAAAGGTCTCAGTAAAATCAACACCAAATTGCTGACTATACCCCTTGATAACCAATCTAGCCAT
GTACTTATTGATAGAACCATCAAGATTCATTTTGGTTCTAAACACCTATTTGACCCCAATAACTT
TCTTATGAATCAGTCTATCTAACAACTCCCAAGTCTCATTCTTGTTGATCATACTAATATCTTCC
TTCATAGCATCTCTCTATTCAAGATTTTGGGCTACCTCTTTAAAGGTAACTGGTTCCAACACTGC
CAGATTACACATCTGATAAAATTTAGTA
Found at i:36647879 original size:164 final size:164
Alignment explanation
Indices: 36647601--36648095 Score: 859
Period size: 164 Copynumber: 3.0 Consensus size: 164
36647591 TTTTCTGTGT
36647601 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACA
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCAC-
* *
36647666 T-ACAATTAGATTACAGAACTATCACGATCAATCGGGTAACTTATTTCCTTATCTTTTTAGGGCT
65 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCT
36647730 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
130 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
* *
36647765 AGGAATCTTGCATGTTAGAAACATGTCATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
36647830 CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
66 CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
* *
36647895 CACATTAAGGACAATGTGTTATCTAAAGTGTGAG
131 CACATTGAGGACAATGTGTTATCTAAAGTGTGGG
* *
36647929 AGGAATCTTTCATGTTAGAAGCATGACATTTTTCAAGTTAACAACAAAAAATGGAATGGATG-AC
1 AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGA-GCAC
*
36647993 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTTCTTATCTTTTTAGGGCT
65 TCACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCT
**
36648058 ACATGTTGAGGACAATGTGTTATCTAAAGTGTGGG
130 ACACATTGAGGACAATGTGTTATCTAAAGTGTGGG
36648093 AGG
1 AGG
36648096 GTAACATAGG
Statistics
Matches: 314, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
163 1 0.00
164 312 0.99
165 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (164 bp):
AGGAATCTTGCATGTTAGAAGCATGACATTTTTCAAGTTAACAACGAAAAATGGAATGGAGCACT
CACCATTAGATTACAGAACTATCACGATCAATCGGGTAACTTCTTTCCTTATCTTTTTAGGGCTA
CACATTGAGGACAATGTGTTATCTAAAGTGTGGG
Found at i:36655813 original size:16 final size:16
Alignment explanation
Indices: 36655794--36655824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36655784 AACTGGACTA
*
36655794 TTCGCCATTTGTGTTG
1 TTCGCCATGTGTGTTG
36655810 TTCGCCATGTGTGTT
1 TTCGCCATGTGTGTT
36655825 CGCCAATGCA
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:0.06, C:0.19, G:0.26, T:0.48
Consensus pattern (16 bp):
TTCGCCATGTGTGTTG
Found at i:36668964 original size:17 final size:17
Alignment explanation
Indices: 36668936--36668980 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
36668926 CTATTAAGTC
*
36668936 TATATAAGATATTAGTTT
1 TATATAAAATATTA-TTT
36668954 T-TATAAAATATTATTT
1 TATATAAAATATTATTT
36668970 TAATATAAAAT
1 T-ATATAAAAT
36668981 GAACTTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATATAAAATATTATTT
Found at i:36674499 original size:161 final size:159
Alignment explanation
Indices: 36674098--36674516 Score: 495
Period size: 158 Copynumber: 2.6 Consensus size: 159
36674088 CACCCAAACA
* *
36674098 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAGGGGAAAGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
** * *
36674163 TGGGACATCGTTGTTATTGTTGTTG-TTTCAACGACAGCGATGGAGGGGGTTATCATCGTTGATT
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGACAACAATGGAGGGGGTTATCATCGTTGATT
36674227 GTGGAGACTAAATTAAAGCATCGTCATTG
131 GTGGAGACTAAATTAAAGCATCGTCATTG
* * * * * * * * * *
36674256 TTGTTATTGTTGTTGTTCTTACACTTCTGTGTTGTCTTTACTTTGGTTACAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* *
36674321 TGGGACATTGTCATTATTGTTGTTGTTTTCGAC-AGCAACAATGGA-GGGGTTATCATCGTTGAT
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGA-CAACAATGGAGGGGGTTATCATCGTTGAT
* **
36674384 TGTGGAGACTGAATTAGGGCATCACTGAT-ATTG
130 TGTGGAGACTAAATTAAAGCAT--C-G-TCATTG
* * * *
36674417 TTCTTCTTCTTCTTCTTCTTAGAATTTTTTTTTGTCTTCGCTTTGGTTGTAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* * * * *
36674482 TGGAACACCGACATTATTGTTATTGTTTTGAACGA
66 TGGGACATCGTCATTATTGTTGTTGTTTTCAACGA
36674517 AAGTGGCGGA
Statistics
Matches: 212, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
158 113 0.53
159 14 0.07
160 1 0.00
161 82 0.39
162 2 0.01
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (159 bp):
TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
TGGGACATCGTCATTATTGTTGTTGTTTTCAACGACAACAATGGAGGGGGTTATCATCGTTGATT
GTGGAGACTAAATTAAAGCATCGTCATTG
Found at i:36674534 original size:161 final size:156
Alignment explanation
Indices: 36674098--36674566 Score: 478
Period size: 161 Copynumber: 2.9 Consensus size: 156
36674088 CACCCAAACA
* *
36674098 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAGGGGAAAGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
** * * *
36674163 TGGGACATCGTTGTTATTGTTGTTG-TTTCAACGACAGCGATGGAGGGGGTTATCATCGTTGATT
66 TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGTG--GGA-GGGGTTATCATCGTTGATT
*
36674227 GTGGAGACTAAATTAAAGCATCGTCATTG
128 GTGGAGACTAAATTAAGGCATCGTCATTG
* * * * * * * * * *
36674256 TTGTTATTGTTGTTGTTCTTACACTTCTGTGTTGTCTTTACTTTGGTTACAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* *
36674321 TGGGACATTGTCATTATTGTTGTTGTTTTCG-ACAGCAACAAT-GGAGGGGTTATCATCGTTGAT
66 TGGGACATCGTCATTATTGTTGTTGTTTT-GAAC-G-AA-AGTGGGAGGGGTTATCATCGTTGAT
* *
36674384 TGTGGAGACTGAATTAGGGCATCACTGAT-ATTG
127 TGTGGAGACTAAATTAAGGCAT--C-G-TCATTG
* * * *
36674417 TTCTTCTTCTTCTTCTTCTTAGAATTTTTTTTTGTCTTCGCTTTGGTTGTAAGGGAAGGATTTGA
1 TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
* * * * * *** *
36674482 TGGAACACCGACATTATTGTTATTGTTTTGAACGAAAGTGGCGGAAGGGTTATCATTAATGATTA
66 TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGT-G-GGAGGGGTTATCATCGTTGATTG
36674547 TGGAGACTAAATTAAGGCAT
129 TGGAGACTAAATTAAGGCAT
36674567 TGGAAAGGAG
Statistics
Matches: 249, Mismatches: 49, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
158 114 0.46
159 10 0.04
160 4 0.02
161 119 0.48
162 2 0.01
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (156 bp):
TTCTTCTTCTTCTTCTTCTTAGACTTTTTTGTTGTCTTCACTTTGGTTGCAAGGGAAGGATTTGA
TGGGACATCGTCATTATTGTTGTTGTTTTGAACGAAAGTGGGAGGGGTTATCATCGTTGATTGTG
GAGACTAAATTAAGGCATCGTCATTG
Found at i:36678831 original size:35 final size:35
Alignment explanation
Indices: 36678790--36678859 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
36678780 CACGATGTGG
36678790 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
1 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
36678825 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
1 AACTAAGCCACTCAATAACCATATGCAAGTGAACT
36678860 GACATATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (35 bp):
AACTAAGCCACTCAATAACCATATGCAAGTGAACT
Found at i:36679533 original size:17 final size:15
Alignment explanation
Indices: 36679504--36679551 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36679494 GTCACACGAT
36679504 TGTGTGGACCACCCG
1 TGTGTGGACCACCCG
36679519 TGTGTGGCACACACCC-
1 TGTGTGG-AC-CACCCG
36679535 -GTGTGG-CCACCCG
1 TGTGTGGACCACCCG
36679548 TGTG
1 TGTG
36679552 GTCATGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 3 0.10
15 13 0.45
16 2 0.07
17 5 0.17
ACGTcount: A:0.12, C:0.33, G:0.33, T:0.21
Consensus pattern (15 bp):
TGTGTGGACCACCCG
Found at i:36687899 original size:19 final size:19
Alignment explanation
Indices: 36687847--36687901 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
36687837 ATACGCCAAT
**
36687847 AGAAGCTTGAAAGCGGAAC
1 AGAAGCTTGAAAGCTAAAC
*
36687866 AGAAGCTCGAAAGCTAAAC
1 AGAAGCTTGAAAGCTAAAC
36687885 AGAAGCTTGAAAGCTAA
1 AGAAGCTTGAAAGCTAA
36687902 TTAGAAGCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.25, T:0.13
Consensus pattern (19 bp):
AGAAGCTTGAAAGCTAAAC
Found at i:36687949 original size:21 final size:21
Alignment explanation
Indices: 36687856--36688037 Score: 124
Period size: 21 Copynumber: 8.9 Consensus size: 21
36687846 TAGAAGCTTG
* *
36687856 AAAGCGGAACAGAAGCTC--G
1 AAAGCTGAACAGAAGCTCATA
* *
36687875 AAAGCTAAACAGAAGCT--TG
1 AAAGCTGAACAGAAGCTCATA
*
36687894 AAAGCT-AATTAGAAGCTCATA
1 AAAGCTGAA-CAGAAGCTCATA
* *
36687915 AAAGCTTAATAGAAGCTCATA
1 AAAGCTGAACAGAAGCTCATA
** *
36687936 AAAGCTGAACAGAAATTAATA
1 AAAGCTGAACAGAAGCTCATA
* * *
36687957 AGAGTTGAACAGAAGCTCGTA
1 AAAGCTGAACAGAAGCTCATA
* *
36687978 AAAGCTTAACAGAAACTCATA
1 AAAGCTGAACAGAAGCTCATA
* * * *
36687999 AGA-CTTGAATAAAAGCTCGTA
1 AAAGC-TGAACAGAAGCTCATA
*
36688020 AGAGCTGAACAGAAGCTC
1 AAAGCTGAACAGAAGCTC
36688038 GAAAGAGCTA
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
18 2 0.02
19 29 0.23
20 1 0.01
21 93 0.73
22 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (21 bp):
AAAGCTGAACAGAAGCTCATA
Found at i:36687971 original size:42 final size:42
Alignment explanation
Indices: 36687925--36688033 Score: 146
Period size: 42 Copynumber: 2.6 Consensus size: 42
36687915 AAAGCTTAAT
* * *
36687925 AGAAGCTCATAAAAGCTGAACAGAAATTAATAAGAGTTGAAC
1 AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
* * *
36687967 AGAAGCTCGTAAAAGCTTAACAGAAACTCATAAGACTTGAAT
1 AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
* *
36688009 AAAAGCTCGTAAGAGCTGAACAGAA
1 AGAAGCTCGTAAAAGCTGAACAGAA
36688034 GCTCGAAAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (42 bp):
AGAAGCTCGTAAAAGCTGAACAGAAACTAATAAGACTTGAAC
Found at i:36688054 original size:21 final size:21
Alignment explanation
Indices: 36688006--36688054 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36687996 ATAAGACTTG
* * *
36688006 AATAAAAGCTCGTAAGAGCTG
1 AATAGAAGCTCGAAAGAGCTA
*
36688027 AACAGAAGCTCGAAAGAGCTA
1 AATAGAAGCTCGAAAGAGCTA
36688048 AATAGAA
1 AATAGAA
36688055 AGTAAAACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.14
Consensus pattern (21 bp):
AATAGAAGCTCGAAAGAGCTA
Found at i:36689327 original size:33 final size:33
Alignment explanation
Indices: 36689285--36689350 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
36689275 CTTCTAAGAG
36689285 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
1 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
36689318 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
1 ATGACAACACACGCGCCGATGCTTTGTCAAAGT
36689351 TAACATCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
ATGACAACACACGCGCCGATGCTTTGTCAAAGT
Done.