Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 53 of 133
Found at i:11031248 original size:31 final size:31
Alignment explanation
Indices: 11031210--11031268 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11031200 CAATGTCATC
* *
11031210 AACAATTTCATAATCTCATCAATAATTTCAA
1 AACAATTTCACAATCTCATCAACAATTTCAA
*
11031241 AACAATTTTACAATCTCATCAACAATTT
1 AACAATTTCACAATCTCATCAACAATTT
11031269 AGCAACTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (31 bp):
AACAATTTCACAATCTCATCAACAATTTCAA
Found at i:11031277 original size:19 final size:19
Alignment explanation
Indices: 11031241--11031292 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 19
11031231 ATAATTTCAA
11031241 AACAATTTTACAATCTCATC
1 AACAA-TTTACAATCTCATC
11031261 AACAATTTAGCAA-CTCATC
1 AACAATTTA-CAATCTCATC
11031280 AACAATTTCACAA
1 AACAATTT-ACAA
11031293 CAATTTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (19 bp):
AACAATTTACAATCTCATC
Found at i:11031366 original size:19 final size:20
Alignment explanation
Indices: 11031344--11031386 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
11031334 AAAAAGCTCT
11031344 AAAATA-AAA-TTGTAAAAAA
1 AAAATAGAAATTTG-AAAAAA
11031363 AAAA-AGAAATTTGAAAAAA
1 AAAATAGAAATTTGAAAAAA
11031382 AAAAT
1 AAAAT
11031387 CCCATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 17 0.81
20 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (20 bp):
AAAATAGAAATTTGAAAAAA
Found at i:11034383 original size:27 final size:27
Alignment explanation
Indices: 11034345--11034399 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11034335 GTAAGAAATG
11034345 ATGTTTAAGTTGATCATAAAATAGCTA
1 ATGTTTAAGTTGATCATAAAATAGCTA
11034372 ATGTTTAAGTTGATCATAAAATAGCTA
1 ATGTTTAAGTTGATCATAAAATAGCTA
11034399 A
1 A
11034400 GTGTCCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (27 bp):
ATGTTTAAGTTGATCATAAAATAGCTA
Found at i:11039171 original size:10 final size:10
Alignment explanation
Indices: 11039156--11039211 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
11039146 ACGATTGATT
11039156 ATTTATTAAA
1 ATTTATTAAA
11039166 ATTTATT---
1 ATTTATTAAA
* *
11039173 TTTTAATAAA
1 ATTTATTAAA
11039183 A-TT-TTAAA
1 ATTTATTAAA
*
11039191 ATTAATTAAA
1 ATTTATTAAA
11039201 ATTTATTAAA
1 ATTTATTAAA
11039211 A
1 A
11039212 AGATAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
7 5 0.14
8 5 0.14
9 3 0.09
10 22 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:11042213 original size:50 final size:48
Alignment explanation
Indices: 11042114--11042222 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 48
11042104 AACAATTTTT
* * * * *
11042114 CTTT-AAATAATTTGAAATGAAAACTCCTCTCATCAGAGGTTTCACAA
1 CTTTAAAATAAATTGAAATGAAAACTCCTATCATAAGAGGCTCCACAA
* *
11042161 CTTTTAAAAATAAATTGAAATTAAAACTCCTATCATAAGAGGCTCCATAA
1 C-TTT-AAAATAAATTGAAATGAAAACTCCTATCATAAGAGGCTCCACAA
11042211 CTTTAAAATAAA
1 CTTTAAAATAAA
11042223 CTAAAATTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.02
48 11 0.21
49 3 0.06
50 37 0.71
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (48 bp):
CTTTAAAATAAATTGAAATGAAAACTCCTATCATAAGAGGCTCCACAA
Found at i:11042805 original size:17 final size:17
Alignment explanation
Indices: 11042785--11042817 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11042775 TTTTTAATTT
11042785 ATTTTTA-AGATTTTTTA
1 ATTTTTAGA-ATTTTTTA
11042802 ATTTTTAGAATTTTTT
1 ATTTTTAGAATTTTTT
11042818 GACTCTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
ATTTTTAGAATTTTTTA
Found at i:11044541 original size:5 final size:5
Alignment explanation
Indices: 11044531--11044560 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
11044521 AAATGATGGG
*
11044531 AAAAT AAAAT AAAAT AAATT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
11044561 TATAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:11044567 original size:6 final size:6
Alignment explanation
Indices: 11044558--11044584 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11044548 ATTAAAATAA
11044558 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
11044585 AAAGCTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:11046363 original size:22 final size:22
Alignment explanation
Indices: 11046333--11046374 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11046323 ATCTATATAT
11046333 ATTTATATCCCTAAAATTAAGA
1 ATTTATATCCCTAAAATTAAGA
* * *
11046355 ATTTGTATCTCTAGAATTAA
1 ATTTATATCCCTAAAATTAA
11046375 TGATAGAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (22 bp):
ATTTATATCCCTAAAATTAAGA
Found at i:11048092 original size:19 final size:19
Alignment explanation
Indices: 11048065--11048103 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11048055 TTGTCTACTA
* *
11048065 ATCTGATATTTATACAAAG
1 ATCTAATATCTATACAAAG
11048084 ATCTAATATCTATACAAAG
1 ATCTAATATCTATACAAAG
11048103 A
1 A
11048104 CTTACTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (19 bp):
ATCTAATATCTATACAAAG
Found at i:11051725 original size:35 final size:35
Alignment explanation
Indices: 11051675--11051742 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
11051665 TTAAGATTTC
* *
11051675 AACCTAAAGGAAACTCAAAACTTGATCTCAACTTT
1 AACCTAAAGGAAACTCAAAACCTAATCTCAACTTT
*
11051710 AACCTAAAGGTAACTCAAAACCTAATCTCAACT
1 AACCTAAAGGAAACTCAAAACCTAATCTCAACT
11051743 CCACAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (35 bp):
AACCTAAAGGAAACTCAAAACCTAATCTCAACTTT
Found at i:11054258 original size:64 final size:64
Alignment explanation
Indices: 11054178--11054306 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
11054168 ATCTAATAAC
* * * *
11054178 TATCGGTGACCCAAGATTATTGTCGCATAAAATCACTGAATACTTATCAAACATAATAATCTAA
1 TATCGGTGACCCAAGATCATTGCCGCATAAAATCACTGAATACTTACCAAACACAATAATCTAA
* *
11054242 TATCGGTGACCTAAGATCATTGCCGCATAAAATTACTGAATACTTACCAAACACAATAATCTAA
1 TATCGGTGACCCAAGATCATTGCCGCATAAAATCACTGAATACTTACCAAACACAATAATCTAA
11054306 T
1 T
11054307 TACTATAGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (64 bp):
TATCGGTGACCCAAGATCATTGCCGCATAAAATCACTGAATACTTACCAAACACAATAATCTAA
Found at i:11057665 original size:145 final size:142
Alignment explanation
Indices: 11057464--11057855 Score: 351
Period size: 145 Copynumber: 2.7 Consensus size: 142
11057454 CCTCATTGGG
* * * * * * * *
11057464 GGGTATTTTCGTAATTTAACATTTTCGAGCTCGAACTTTCATGAAAATTTTCAGATCTTAATTTC
1 GGGTATTTTCGTAATTTGACCTTTCCAAGATCGGATTTTCAT-AAAATTTTAAGATCTTAATTTC
** * *
11057529 ATAATATTTCATGATTTTTTGTATATTCGAAATCATAGCAATA-CCTCAAGATGTGTGAAATTAC
65 ATAATATTTCATGATTTTTTGTAT-TT-GAAATCATAGCAATACCCTCAA-AAATATAAAATTAC
11057593 CAAAATA-CTCCTATAA
127 CAAAATATC-CCTATAA
* * * *
11057609 GGGTATTTTCGTAATTTGTCCTTTCCAAGGTCGGATTTTCATAAAATTTTTTAGATCCTAATTTC
1 GGGTATTTTCGTAATTTGACCTTTCCAAGATCGGATTTTCATAAAA-TTTTAAGATCTTAATTTC
** * * *
11057674 ATAATATTTCATGATAATTGCTGTATTTGAAATCATAGTAATACCCTGAAAAATATAAAATTACT
65 ATAATATTTCATGAT--TTTTTGTATTTGAAATCATAGCAATACCCTCAAAAATATAAAATTACC
11057739 AAAATATCCCTATAA
128 AAAATATCCCTATAA
* * * * * * * * *
11057754 GGGTATTCTT-ATAATTCGGCCTTCTCGAACAT-GGATTTTTATGAAACTTTCAAGATCTCAATT
1 GGGTATT-TTCGTAATTTGACCTT-TCCAAGATCGGATTTTCAT-AAAATTTTAAGATCTTAATT
* *
11057817 TTATAATATTTCATGATTTTTTTGTATTTTAAAATCATA
63 TCATAATATTTCATGA-TTTTTTGTA-TTTGAAATCATA
11057856 AAAATGAGCA
Statistics
Matches: 202, Mismatches: 35, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
144 10 0.05
145 166 0.82
146 19 0.09
147 7 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (142 bp):
GGGTATTTTCGTAATTTGACCTTTCCAAGATCGGATTTTCATAAAATTTTAAGATCTTAATTTCA
TAATATTTCATGATTTTTTGTATTTGAAATCATAGCAATACCCTCAAAAATATAAAATTACCAAA
ATATCCCTATAA
Found at i:11067594 original size:124 final size:125
Alignment explanation
Indices: 11067415--11067685 Score: 336
Period size: 124 Copynumber: 2.2 Consensus size: 125
11067405 AAAAAGAAAG
* * *
11067415 AAAAAAGAGCAAAAAAAGAAAAACATGCACCTCGAAGATGAGAGTCCGAGACAAAAAGTGAATGA
1 AAAAAAAAG-AAAAAAAGAAAAACATGCACCTCGAACATGAAAGTCCGAGACAAAAAGTGAATGA
*
11067480 AACTTTTA-AAAAATAG-ATTCAAGAAAGTTGATTGCTAAAGATGAAGTCAAATG-TTAAAAA
65 AAC-TTTAGAAAAATAGAATTCAAGAAA-TTGATTGCTAAAGATAAAGTCAAATGTTTAAAAA
* ** * * *
11067540 AAAAAAAAGAAAAAAAGAAAAACAT-CTACCTCGGACATGAAAGTTTGGGGCAAAATGTGAATGA
1 AAAAAAAAGAAAAAAAGAAAAACATGC-ACCTCGAACATGAAAGTCCGAGACAAAAAGTGAATGA
* *
11067604 ATCTTTAGAAAAATAGAATTCAAGAAATTGATTGCTAAAGATAAAGTCAAATGTTTTAAAA
65 AACTTTAGAAAAATAGAATTCAAGAAATTGATTGCTAAAGATAAAGTCAAATGTTTAAAAA
* * *
11067665 GAAATAAA-ACAAAAAGAAAAA
1 AAAAAAAAGAAAAAAAGAAAAA
11067686 AGAGGTGAAA
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
123 5 0.04
124 92 0.72
125 30 0.24
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (125 bp):
AAAAAAAAGAAAAAAAGAAAAACATGCACCTCGAACATGAAAGTCCGAGACAAAAAGTGAATGAA
ACTTTAGAAAAATAGAATTCAAGAAATTGATTGCTAAAGATAAAGTCAAATGTTTAAAAA
Found at i:11067849 original size:25 final size:25
Alignment explanation
Indices: 11067811--11067862 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
11067801 GAAGAATGCT
*
11067811 AAAATTAAAGTCAAATATTTCTAAAA
1 AAAATTAAAGTCAAAAATTT-TAAAA
11067837 AAAATTAAA-TCAAAAATTTTAAAA
1 AAAATTAAAGTCAAAAATTTTAAAA
11067861 AA
1 AA
11067863 TAGAAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.28
25 9 0.36
26 9 0.36
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATTAAAGTCAAAAATTTTAAAA
Found at i:11069749 original size:256 final size:249
Alignment explanation
Indices: 11069290--11070090 Score: 862
Period size: 256 Copynumber: 3.2 Consensus size: 249
11069280 TTTGCATTTA
* ** *
11069290 CATCATGAGAAAGACATTTAAATTCACATCTACATCACAAAAAAGACATTTGCATTGGCACTTGC
1 CATCATGAGAAAGACATATGCATTCACATCTACATCACAAAAAAGACATTTGCATTTGCACTTGC
* *** *
11069355 ATCTGTATCATAAGAAAAGGTATTTGCATTTGCATCACTCGTATTCATACTTGCATGTGCATTAT
66 ATCTGTATCATAA-AAAAGATATTTGCATTTGCATCACTTACATTCATACTTGCATGTGCATCAT
* * * * * *
11069420 AAGAAAGATATTTGCATTCATATCTACATCACAAAAAAGATATTTGTATTTGTATCACTTGTATC
130 AAGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATTTGTATCACTTGCATC
* **
11069485 AGCATCACAAAAAAAGATATTTGCATTTGCATCTGCATCATTTGCAATCATACTTATGTGTG
195 A-CATCACAAAAAAAG--A----CATTTGCATCTGCATCATTCGCAATCATACTTACATGTG
* *
11069547 CATCATGAGAAAGACATGTGCATTCACATCTACATCACAAAAAAGACATTTGCATTTGCACTTGT
1 CATCATGAGAAAGACATATGCATTCACATCTACATCACAAAAAAGACATTTGCATTTGCACTTGC
* * * * ***
11069612 ATCTGTATCACAAAAAAAAAAATTGCATTTGCATCACTTACATTCATACTTATGTGTGCATCATA
66 ATCTGTATCATAAAAAAGATATTTGCATTTGCATCACTTACATTCATACTTGCATGTGCATCATA
*
11069677 AGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATTTGTATCACTTACATCG
131 AGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATTTGTATCACTTGCATC-
* * * *
11069742 ACATCACAAAAAAAGACATTTGCATTTGCATCATTCGCATTCGTACTTGCATGTG
195 ACATCACAAAAAAAGACATTTGCATCTGCATCATTCGCAATCATACTTACATGTG
* * *
11069797 CATCATGAGAAAGACATATGCATTCACATTTACATCA-AGAAAAGACATTTGTATTTGTATCACT
1 CATCATGAGAAAGACATATGCATTCACATCTACATCACAAAAAAGACATTTGCATTTG---CACT
* * * * * *
11069861 TACATTTGCATCATAAAAAAGGCTATTTGCATTTGCATCA-TTCACAATCATACTTGCATGTACA
63 TGCATCTGTATCATAAAAAA-GATATTTGCATTTGCATCACTT-ACATTCATACTTGCATGTGCA
* * * *
11069925 TCATGAGAAAGACATGTGCATTCACATCTATATCACAAAAAAGGCATTCGCATTTG---CACTTG
126 TCATAAGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATTTGTATCACTTG
* * * * * * ** *
11069987 CATCTACATCACAAAAAAAAAAAAATTCT-CAT-TGTATCACTCACATTCATACTTGTATATG
191 CATC-ACATCAC--AAAAAAAGACATT-TGCATCTGCATCATTCGCAATCATACTTACATGTG
* * * *
11070048 CATCATGTGAAAGACATTTGCCTT-ACATCTACATCATAAAAAA
1 CATCATGAGAAAGACATATGCATTCACATCTACATCACAAAAAA
11070091 AATTTCATAT
Statistics
Matches: 466, Mismatches: 68, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
249 18 0.04
250 94 0.20
251 49 0.11
252 35 0.08
253 84 0.18
254 1 0.00
256 112 0.24
257 73 0.16
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (249 bp):
CATCATGAGAAAGACATATGCATTCACATCTACATCACAAAAAAGACATTTGCATTTGCACTTGC
ATCTGTATCATAAAAAAGATATTTGCATTTGCATCACTTACATTCATACTTGCATGTGCATCATA
AGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATTTGTATCACTTGCATCA
CATCACAAAAAAAGACATTTGCATCTGCATCATTCGCAATCATACTTACATGTG
Found at i:11069880 original size:126 final size:127
Alignment explanation
Indices: 11069281--11070149 Score: 815
Period size: 126 Copynumber: 6.9 Consensus size: 127
11069271 AAAAAGACAT
* * ** *
11069281 TTGCATTTACATCATGAGAAAGACATTTAAATTCACATCTACATCACAAAAAAGACATTTGCA-T
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* * * * ** * *
11069345 TG--GCACTTGCATCTGTATCATAAGAAAAGGTATTTGCATTTGCATCACTCGTATTCATAC
66 TGTATCACTTGCATCTGCATCACAAAAAAAGACATTTGCATTTGCATCATTCGCATTCATAC
* * * * *
11069405 TTGCATGTGCATTATAAGAAAGATATTTGCATTCATATCTACATCACAAAAAAGATATTTGTATT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* * * * *
11069470 TGTATCACTTGTATCAGCATCACAAAAAAAGATATTTGCATTTGCATCTGCATCATTTGCAATCA
66 TGTATCACTTGCATCTGCATCACAAAAAAAG--A----CATTTGCATTTGCATCATTCGCATTCA
11069535 TAC
125 TAC
*** * *
11069538 TTATGTGTGCATCATGAGAAAGACATGTGCATTCACATCTACATCACAAAAAAGACATTTGCATT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* * * * *
11069603 TG---CACTTGTATCTGTATCACAAAAAAA-AAAATTGCATTTGCATCACTT-ACATTCATAC
66 TGTATCACTTGCATCTGCATCACAAAAAAAGACATTTGCATTTGCATCA-TTCGCATTCATAC
*** * * *
11069661 TTATGTGTGCATCATAAGAAAGACATTTGCATTCACATCTATATCACAAAAAAGACATTCGTATT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* *
11069726 TGTATCACTTACATC-GACATCACAAAAAAAGACATTTGCATTTGCATCATTCGCATTCGTAC
66 TGTATCACTTGCATCTG-CATCACAAAAAAAGACATTTGCATTTGCATCATTCGCATTCATAC
* * *
11069788 TTGCATGTGCATCATGAGAAAGACATATGCATTCACATTTACATCA-AGAAAAGACATTTGTATT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* * * * * *
11069852 TGTATCACTTACATTTGCATCA-TAAAAAAGGCTATTTGCATTTGCATCATTCACAATCATAC
66 TGTATCACTTGCATCTGCATCACAAAAAAAGAC-ATTTGCATTTGCATCATTCGCATTCATAC
* * * * * *
11069914 TTGCATGTACATCATGAGAAAGACATGTGCATTCACATCTATATCACAAAAAAGGCATTCGCATT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
* * * * * *
11069979 TG---CACTTGCATCTACATCACAAAAAAAAAAAAATTCT-CA-TTGTATCACTCACATTCATAC
66 TGTATCACTTGCATCTGCATCAC--AAAAAAAGACATT-TGCATTTGCATCATTCGCATTCATAC
* * * * * *
11070039 TTGTATATGCATCATGTGAAAGACATTTGCCTT-ACATCTACATCATAAAAAA-A-ATTTCATAT
1 TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTT-GTAT
* * ** * *
11070101 TTGTATCACTAGTATCTATATCAC-AAAAACGACATTTACATTTGCATCA
65 TTGTATCACTTGCATCTGCATCACAAAAAAAGACATTTGCATTTGCATCA
11070150 CTAGCATCTG
Statistics
Matches: 612, Mismatches: 104, Indels: 58
0.79 0.13 0.07
Matches are distributed among these distances:
122 4 0.01
123 100 0.16
124 93 0.15
125 57 0.09
126 145 0.24
127 109 0.18
130 23 0.04
133 81 0.13
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (127 bp):
TTGCATGTGCATCATGAGAAAGACATTTGCATTCACATCTACATCACAAAAAAGACATTTGTATT
TGTATCACTTGCATCTGCATCACAAAAAAAGACATTTGCATTTGCATCATTCGCATTCATAC
Found at i:11070150 original size:41 final size:41
Alignment explanation
Indices: 11070073--11070190 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 41
11070063 ATTTGCCTTA
* * * *
11070073 CATCTACATCAT-AAAAA-AAATTTCATATTTGTATCACTAG
1 CATCTATATCATCAAAAAGACATTT-ACATTTGCATCACTAG
*
11070113 TATCTATATCA-CAAAAACGACATTTACATTTGCATCACTAG
1 CATCTATATCATCAAAAA-GACATTTACATTTGCATCACTAG
* * * * *
11070154 CATCTGTATCATGAGAAAGACATTTGCATTTACATCA
1 CATCTATATCATCAAAAAGACATTTACATTTGCATCA
11070191 TCTACATTCT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
40 14 0.22
41 40 0.63
42 9 0.14
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (41 bp):
CATCTATATCATCAAAAAGACATTTACATTTGCATCACTAG
Found at i:11070931 original size:127 final size:125
Alignment explanation
Indices: 11070717--11071063 Score: 365
Period size: 127 Copynumber: 2.7 Consensus size: 125
11070707 ACCTTTGAGT
* * *
11070717 AAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTATTACGATAAGCATTTAAAGATTTTTGAGA
1 AAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTATTACGATGAGCATTCAAAGATTTTTGAGA
* * * * * ***
11070782 TTTATAAAACCTCTT-GGTATAATCTCTAAAACGTCCAAGCATAATTTTCAAGACATCTGGAC
66 TTT-TAAAA-CT-TTCAGAATAATCTCTAAAACCTCCAACCATAATTTTCAAAACATCCAAAC
*
11070844 AAAACATTTTAAATTTTCAAAGTTTCAACAG-CTCTATTACGATGAGCATTCAAAGATTTTTTAG
1 AAAACATTTTAAATTTTCAAAGTTTCAAC-GCCTCTATTACGATGAGCATTCAAAGATTTTTGAG
* * * * * *
11070908 ATTTGTAAAACTTTCAAGAATAATCTCTAAGACCTCCGACCATGATTTTTAAAACCTCCAAAT
65 ATTT-TAAAACTTTC-AGAATAATCTCTAAAACCTCCAACCATAATTTTCAAAACATCCAAAC
** * * ** *
11070971 AAAATGTTTTAAATTTTTACAGTTTCAACGCCTCTATTAAAATGAGCTTTCAAAGATTTTTGAGA
1 AAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTATTACGATGAGCATTCAAAGATTTTTGAGA
* * *
11071036 TTTTAAGACCTTCGAGCATAATCTCTAA
66 TTTTAAAACTTTC-AGAATAATCTCTAA
11071064 GTCTTTCAGG
Statistics
Matches: 185, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
125 2 0.01
126 24 0.13
127 158 0.85
128 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (125 bp):
AAAACATTTTAAATTTTCAAAGTTTCAACGCCTCTATTACGATGAGCATTCAAAGATTTTTGAGA
TTTTAAAACTTTCAGAATAATCTCTAAAACCTCCAACCATAATTTTCAAAACATCCAAAC
Found at i:11071399 original size:74 final size:74
Alignment explanation
Indices: 11071297--11071583 Score: 346
Period size: 74 Copynumber: 3.8 Consensus size: 74
11071287 CTTCTGTTAC
* * *
11071297 GGAAGAGCCTTTTTAAAAGTTTCAAAGCCTCTGTTTGAGGTGAGCCATCTTCAAAGTTTCAAAAC
1 GGAA-AGCCATTTTCAAAGTTTCAAAGCCTCTATTT-AGGTGAGCCATCTTCAAAGTTTCAAAAC
11071362 CTCTATTTAGA
64 CTCTATTTAGA
* * *
11071373 GG-AAGCCATTTTCAAAGTTTCAAAGCCTCTATTTAGGGAGAGCCTTTTTCAAAGTTTCAAAACC
1 GGAAAGCCATTTTCAAAGTTTCAAAGCCTCTATTTA-GGTGAGCCATCTTCAAAGTTTCAAAACC
11071437 TCTATTTAG-
65 TCTATTTAGA
* * * *
11071446 GGAAAGCCTTTTTCAAAGTTTCAAAGCTTC-AGTTTAAGGGGAGCCATCTTCAAAGTTTCAAAGC
1 GGAAAGCCATTTTCAAAGTTTCAAAGCCTCTA-TTT-AGGTGAGCCATCTTCAAAGTTTCAAAAC
* *
11071510 CTTTATCTAGA
64 CTCTATTTAGA
* * * * *
11071521 GGTAAGCCATTTTCAAAATTTCAAAACCTCTATTTAGGATGAGCTATTTTCAAAGTTTCAAAA
1 GGAAAGCCATTTTCAAAGTTTCAAAGCCTCTATTTAGG-TGAGCCATCTTCAAAGTTTCAAAA
11071584 TCCCTGTTCG
Statistics
Matches: 181, Mismatches: 23, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
73 4 0.02
74 124 0.69
75 50 0.28
76 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (74 bp):
GGAAAGCCATTTTCAAAGTTTCAAAGCCTCTATTTAGGTGAGCCATCTTCAAAGTTTCAAAACCT
CTATTTAGA
Found at i:11071491 original size:111 final size:110
Alignment explanation
Indices: 11071278--11071583 Score: 320
Period size: 111 Copynumber: 2.7 Consensus size: 110
11071268 AAAAAAAAAG
* * * * * *
11071278 GTTTCAAAGCTTCT-GTTACGGAAGAGCCTTTTTAAAAGTTTCAAAGCCTCTGTTTGAGGTG-AG
1 GTTTCAAAGCCTCTATTTA-GGGAGAGCCTTTTTCAAAGTTTCAAAACCTCTATTT-AGG-GAAG
* * *
11071341 CCATCTTCAAAGTTTCAAAACCTCTATTTAGAGGAAGCCATTTTCAAA
63 CCTTTTTCAAAGTTTCAAAACCTCTATTTAGAGGAAGCCATCTTCAAA
11071389 GTTTCAAAGCCTCTATTTAGGGAGAGCCTTTTTCAAAGTTTCAAAACCTCTATTTAGGGAAAGCC
1 GTTTCAAAGCCTCTATTTAGGGAGAGCCTTTTTCAAAGTTTCAAAACCTCTATTTAGGG-AAGCC
* * *
11071454 TTTTTCAAAGTTTCAAAGCTTC-AGTTTA-AGGGGAGCCATCTTCAAA
65 TTTTTCAAAGTTTCAAAACCTCTA-TTTAGA-GGAAGCCATCTTCAAA
* * * *
11071500 GTTTCAAAGCCTTTATCTAGAGGTA-AGCCATTTTCAAAATTTCAAAACCTCTATTTA-GGATGA
1 GTTTCAAAGCCTCTATTTAG-GG-AGAGCCTTTTTCAAAGTTTCAAAACCTCTATTTAGGGA--A
11071563 G-CTATTTTCAAAGTTTCAAAA
62 GCCT-TTTTCAAAGTTTCAAAA
11071584 TCCCTGTTCG
Statistics
Matches: 168, Mismatches: 17, Indels: 19
0.82 0.08 0.09
Matches are distributed among these distances:
109 1 0.01
110 6 0.04
111 107 0.64
112 53 0.32
113 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (110 bp):
GTTTCAAAGCCTCTATTTAGGGAGAGCCTTTTTCAAAGTTTCAAAACCTCTATTTAGGGAAGCCT
TTTTCAAAGTTTCAAAACCTCTATTTAGAGGAAGCCATCTTCAAA
Found at i:11071583 original size:37 final size:37
Alignment explanation
Indices: 11071301--11071583 Score: 272
Period size: 37 Copynumber: 7.6 Consensus size: 37
11071291 TGTTACGGAA
* * * *
11071301 GAGCCTTTTTAAAAGTTTCAAAGCCTCTGTTTGAGG-T
1 GAGCCATTTTCAAAGTTTCAAAACCTCTATTT-AGGAT
* *
11071338 GAGCCATCTTCAAAGTTTCAAAACCTCTATTTA-GAG
1 GAGCCATTTTCAAAGTTTCAAAACCTCTATTTAGGAT
*
11071374 GAAGCCATTTTCAAAGTTTCAAAGCCTCTATTTAGGGA-
1 G-AGCCATTTTCAAAGTTTCAAAACCTCTATTTA-GGAT
*
11071412 GAGCCTTTTTCAAAGTTTCAAAACCTCTATTTAGGGA-
1 GAGCCATTTTCAAAGTTTCAAAACCTCTATTTA-GGAT
* * * * *
11071449 AAGCCTTTTTCAAAGTTTCAAAGCTTC-AGTTTAAGG-G
1 GAGCCATTTTCAAAGTTTCAAAACCTCTA-TTT-AGGAT
* * * * *
11071486 GAGCCATCTTCAAAGTTTCAAAGCCTTTATCTAGAGGT
1 GAGCCATTTTCAAAGTTTCAAAACCTCTATTTAG-GAT
* *
11071524 AAGCCATTTTCAAAATTTCAAAACCTCTATTTAGGAT
1 GAGCCATTTTCAAAGTTTCAAAACCTCTATTTAGGAT
*
11071561 GAGCTATTTTCAAAGTTTCAAAA
1 GAGCCATTTTCAAAGTTTCAAAA
11071584 TCCCTGTTCG
Statistics
Matches: 206, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.00
36 5 0.02
37 167 0.81
38 31 0.15
39 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (37 bp):
GAGCCATTTTCAAAGTTTCAAAACCTCTATTTAGGAT
Found at i:11073925 original size:16 final size:16
Alignment explanation
Indices: 11073842--11073926 Score: 59
Period size: 16 Copynumber: 5.1 Consensus size: 16
11073832 TTTTATATAT
*
11073842 AATTGCAT-AAATTTA
1 AATTGCATAAAAATTA
*
11073857 AAGTGCATGAAAAA-TA
1 AATTGCAT-AAAAATTA
* *
11073873 AATTGCATCAAAAGTA
1 AATTGCATAAAAATTA
11073889 AATT-CAAATATGAAAATTTA
1 AATTGC--ATA--AAAA-TTA
11073909 AATTGCATAAAAATTA
1 AATTGCATAAAAATTA
11073925 AA
1 AA
11073927 ATAAAAATAG
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
15 12 0.22
16 20 0.36
17 9 0.16
19 7 0.13
20 6 0.11
21 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.29
Consensus pattern (16 bp):
AATTGCATAAAAATTA
Found at i:11078473 original size:18 final size:20
Alignment explanation
Indices: 11078428--11078473 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
11078418 ACTTTTGTGA
*
11078428 TTTTATTCTTCAAATATCAT
1 TTTTATTTTTCAAATATCAT
11078448 TTTT-TTTTTC-AAT-TCAT
1 TTTTATTTTTCAAATATCAT
11078465 TTTTATTTT
1 TTTTATTTT
11078474 GACATGCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 5 0.21
20 4 0.17
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATTTTTCAAATATCAT
Found at i:11082195 original size:182 final size:181
Alignment explanation
Indices: 11081987--11082353 Score: 689
Period size: 182 Copynumber: 2.0 Consensus size: 181
11081977 ATTTGTGTTT
* *
11081987 AAAAATGCTACTAAATGCTAAAAAATAATGGCATTTGTAGTAAAAATGCTACTAAATTTAACAGT
1 AAAAATGCTACTAAATGCTAAAAAATAACGACATTTGTAGTAAAAATGCTACTAAATTTAACAGT
*
11082052 GTTTTCTAATACAAATGTCACTAAATTCAGTATTTAGTGGCATTTTTAAATACAAATGCCACCAA
66 GTTTTCTAATACAAATGTCACTAAATTCAGTATGTAGTGGCATTTTTAAATACAAATGCCACCAA
11082117 ATAAAAAATTTTATTTTTTTAATTTTCTTTTAATATTTATTATAATTAAATA
131 AT-AAAAATTTTATTTTTTTAATTTTCTTTTAATATTTATTATAATTAAATA
*
11082169 AAAAATGCTGCTAAATGCTAAAAAATAACGACATTTGTAGTAAAAATGCTACTAAATTTAACAGT
1 AAAAATGCTACTAAATGCTAAAAAATAACGACATTTGTAGTAAAAATGCTACTAAATTTAACAGT
11082234 GTTTTCTAATACAAATGTCACTAAATTCAGTATGTAGTGGCATTTTTAAATACAAATGCCACCAA
66 GTTTTCTAATACAAATGTCACTAAATTCAGTATGTAGTGGCATTTTTAAATACAAATGCCACCAA
11082299 ATAAAAATTTTATTTTTTTAATTTTCTTTTAATATTTATTATAATTAAATA
131 ATAAAAATTTTATTTTTTTAATTTTCTTTTAATATTTATTATAATTAAATA
11082350 AAAA
1 AAAA
11082354 TTGTTAAAAG
Statistics
Matches: 181, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
181 53 0.29
182 128 0.71
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (181 bp):
AAAAATGCTACTAAATGCTAAAAAATAACGACATTTGTAGTAAAAATGCTACTAAATTTAACAGT
GTTTTCTAATACAAATGTCACTAAATTCAGTATGTAGTGGCATTTTTAAATACAAATGCCACCAA
ATAAAAATTTTATTTTTTTAATTTTCTTTTAATATTTATTATAATTAAATA
Found at i:11086506 original size:61 final size:62
Alignment explanation
Indices: 11086367--11086515 Score: 171
Period size: 63 Copynumber: 2.4 Consensus size: 62
11086357 CGTTTCAAGC
* * *
11086367 AAAAAATACCTTGAATAATCTACTCAAAAAAATAGAAGTAATTATTAAAGGTATTTTCTGTAA
1 AAAAAATACCTTCAATAATCTCCTCAAAAAAATAGAAG-AATTATTAAAGATATTTTCTGTAA
* *
11086430 AAAAAATACCTTCAATAATTCTCCT-AAAAAATTATAGAAG-ATTATTGAAGATATTTT-TG-AC
1 AAAAAATACCTTCAATAA-TCTCCTCAAAAAA--ATAGAAGAATTATTAAAGATATTTTCTGTAA
*
11086491 CAAAAATACCTTCAATAAATCTCCT
1 AAAAAATACCTTCAAT-AATCTCCT
11086516 TGTCAATAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
61 22 0.29
62 4 0.05
63 38 0.50
64 5 0.07
65 7 0.09
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.32
Consensus pattern (62 bp):
AAAAAATACCTTCAATAATCTCCTCAAAAAAATAGAAGAATTATTAAAGATATTTTCTGTAA
Found at i:11086977 original size:63 final size:64
Alignment explanation
Indices: 11086910--11087029 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 64
11086900 TTTATGAGTA
* * * ** *
11086910 GATTATTTAACTCATTTTTTTAC-CTGAAATGCCTTCAATAAT-CCCTTATAAAAAATTGGAGAG
1 GATTATTAAACGCATTTTTTTACAC-AAAACACCTTCAATAATCCCCTCATAAAAAATTGGAGAG
*
11086973 GATTATTAAAGGCATTTTTTTACACAAAACACCTTCAATAATCCCCTCATAAAAAAT
1 GATTATTAAACGCATTTTTTTACACAAAACACCTTCAATAATCCCCTCATAAAAAAT
11087030 GAAAGGGATT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
63 34 0.71
64 14 0.29
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (64 bp):
GATTATTAAACGCATTTTTTTACACAAAACACCTTCAATAATCCCCTCATAAAAAATTGGAGAG
Found at i:11089363 original size:16 final size:14
Alignment explanation
Indices: 11089334--11089382 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 14
11089324 ATTAAAAATA
*
11089334 TTTTTATTATTTTC
1 TTTTTATTTTTTTC
11089348 TATTTTATTTTCTTTC
1 T-TTTTATTTT-TTTC
11089364 TTTTTCATTTGTTTTC
1 TTTTT-ATTT-TTTTC
11089380 TTT
1 TTT
11089383 CTTTTTATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.03
15 12 0.40
16 16 0.53
17 1 0.03
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTTC
Found at i:11089565 original size:7 final size:7
Alignment explanation
Indices: 11089552--11089626 Score: 53
Period size: 7 Copynumber: 10.1 Consensus size: 7
11089542 TCGACAAGAG
11089552 AGAAAAA
1 AGAAAAA
*
11089559 GGAAAAA
1 AGAAAAA
11089566 A-AAAAA
1 AGAAAAA
11089572 AGAAAAA
1 AGAAAAA
11089579 AGAAAGAAA
1 AG-AA-AAA
*
11089588 AGTGAAAAG
1 A--GAAAAA
* *
11089597 AGAGAAG
1 AGAAAAA
11089604 AGAAAAA
1 AGAAAAA
11089611 ATGAAAAA
1 A-GAAAAA
*
11089619 TGAAAAA
1 AGAAAAA
11089626 A
1 A
11089627 CAAGAAGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 6 0.11
7 30 0.56
8 8 0.15
9 7 0.13
10 2 0.04
11 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (7 bp):
AGAAAAA
Found at i:11089594 original size:11 final size:11
Alignment explanation
Indices: 11089547--11089588 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
11089537 CCTTTTCGAC
*
11089547 AAGAGAGAAAA
1 AAGAAAGAAAA
*
11089558 AGGAAA-AAAA
1 AAGAAAGAAAA
11089568 AA-AAAGAAAA
1 AAGAAAGAAAA
11089578 AAGAAAGAAAA
1 AAGAAAGAAAA
11089589 GTGAAAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 3 0.12
10 11 0.42
11 12 0.46
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:11089604 original size:23 final size:22
Alignment explanation
Indices: 11089554--11089626 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
11089544 GACAAGAGAG
**
11089554 AAAAAG-GAAAAAAAAAAAAGA
1 AAAAAGAGAAAAAATGAAAAGA
11089575 AAAAAGA-AAGAAAAGTGAAAAGA
1 AAAAAGAGAA-AAAA-TGAAAAGA
* *
11089598 GAGAAGAGAAAAAATGAAAAATGA
1 AAAAAGAGAAAAAATG-AAAA-GA
11089622 AAAAA
1 AAAAA
11089627 CAAGAAGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 8 0.20
22 6 0.15
23 19 0.47
24 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (22 bp):
AAAAAGAGAAAAAATGAAAAGA
Found at i:11089611 original size:16 final size:16
Alignment explanation
Indices: 11089555--11089616 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
11089545 ACAAGAGAGA
*
11089555 AAAAGGAAAAA-AAA-
1 AAAAGAAAAAAGAAAG
11089569 AAAAGAAAAAAGAAAG
1 AAAAGAAAAAAGAAAG
** *
11089585 AAAAGTGAAAAGAGAG
1 AAAAGAAAAAAGAAAG
*
11089601 AAGAGAAAAAATGAAA
1 AAAAGAAAAAA-GAAA
11089617 AATGAAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
14 10 0.27
15 3 0.08
16 21 0.57
17 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAG
Found at i:11090361 original size:15 final size:15
Alignment explanation
Indices: 11090338--11090370 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11090328 ATTTTGGGTC
*
11090338 AATCTTTCAATTTCA
1 AATCATTCAATTTCA
11090353 AATCATTCAATTTCA
1 AATCATTCAATTTCA
11090368 AAT
1 AAT
11090371 TAAGATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (15 bp):
AATCATTCAATTTCA
Found at i:11091239 original size:19 final size:19
Alignment explanation
Indices: 11091215--11091257 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11091205 CATTAAATAT
* *
11091215 TTTAAA-ATTTTAGATATCA
1 TTTAAACATTTCA-ATATAA
11091234 TTTAAACATTTCAATATAA
1 TTTAAACATTTCAATATAA
11091253 TTTAA
1 TTTAA
11091258 GAACTATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTAAACATTTCAATATAA
Found at i:11093017 original size:419 final size:412
Alignment explanation
Indices: 11092198--11093022 Score: 1220
Period size: 419 Copynumber: 2.0 Consensus size: 412
11092188 AAACATCCAA
* * *
11092198 GCCAAAACACAAAAAAAAGAACAAGGAAACAATAAAAATATACACAGTCCTCCATAGAAGGAGGA
1 GCCAAAACAAAAAAAAAAGAACAAAGAAACAACAAAAATATACACAGTCCTCCATAGAAGGAGGA
* **
11092263 ATCCAGTGCTGTACAACACCTTACAAAAAATAAAGAGTCATATTCAATTGTACCAAAAAAAAGAA
66 ATCCAATGCCATACAACACCTTACAAAAAATAAAGAGTCATATTCAATTGTACCAAAAAAAAGAA
* ** * *
11092328 AGAATGGTGGTGGTGGTGGCTTCCTTTGGGCGATTGGTGACATTGGAAAAGGAGAGGAAAGAGAT
131 AGAACGGTGGTGGTGGCAGCTTCCTTTGGGCGATTGGTGACATTGGAAAAGAAGAGGAAAGAGAG
* * *
11092393 GAAAACATCATACTAAAAAATCATAAAGATTGAACAATGAACGAAGAAGTATTGATGATTTGAAA
196 GAAAACAACATACTAAAAAATCATAAAGATTGAACAACGAACAAAGAAGTATTGATGATTTGAAA
* * * *
11092458 GTTTCGGCTTTGGGTTCAGATCTAGTGTTTTTGAGGCATTTTAGTGAAAAATCAAGCTTGGATTT
261 GTTTCAGCTTTAGGTTCAAATCTAGTGTTTTTGAGGCATTTTAGTGAAAAATCAAGCTTGGATTC
* * *
11092523 GTGAATAGAAGGTGGAGGAAAAATTTAGGGTAAAATTTAGGCTGGAAAAGAAACCAGCCAACGGC
326 ATGAAGAGAAGGTGGAGGAAAAATTTAGGGCAAAATTTAGGCTGGAAAAGAAACCAGCCAACGGC
11092588 GACACCAATGATAGAACATTTT
391 GACACCAATGATAGAACATTTT
* *
11092610 GCCAAAACATAAAAGAAAAAGGAATAAAGAAACAACAAAAATATACACAGTCCTCCCTAGAAGGA
1 GCCAAAACA-AAAA-AAAAA-GAACAAAGAAACAACAAAAATATACACAGTCCTCCATAGAAGGA
* * *
11092675 GGAATCTAATGCCATACAACACCTTACAAAAAATAAAGAGTCATATTTAGTTGTACCAAAAAAAA
63 GGAATCCAATGCCATACAACACCTTACAAAAAATAAAGAGTCATATTCAATTGTACC---AAAAA
*
11092740 AAAGAAAGAACGGTGGTGGTGGCAGCTTCCTTTGGGTGATTGGTGACATTGGAAAAGAAGAGGAA
125 AAAGAAAGAACGGTGGTGGTGGCAGCTTCCTTTGGGCGATTGGTGACATTGGAAAAGAAGAGGAA
* *
11092805 AGAGAGGAGAACAACATACTAAAAAAATCATAAAGATCT-AACAACGAACAAAGAAGTATTGGTG
190 AGAGAGGAAAACAACATACT-AAAAAATCATAAAGAT-TGAACAACGAACAAAGAAGTATTGATG
*
11092869 ATTTGAAAGTTTCAGTTTTAGGTTCAAATCTAGTGTTTTTGAGGCATTTTAGTGAAAAATCAAGC
253 ATTTGAAAGTTTCAGCTTTAGGTTCAAATCTAGTGTTTTTGAGGCATTTTAGTGAAAAATCAAGC
* * * * * *
11092934 TTGGATTCATGAAGAGAAGGTGTAGGAGAAGTTTAGGGCAAAATTTGGGCTGGAAAAGAAGCTAG
318 TTGGATTCATGAAGAGAAGGTGGAGGAAAAATTTAGGGCAAAATTTAGGCTGGAAAAGAAACCAG
* **
11092999 CCAATGGCGATGCCAATGATAGAA
383 CCAACGGCGACACCAATGATAGAA
11093023 TGGCAGTGGT
Statistics
Matches: 366, Mismatches: 39, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
412 9 0.02
413 3 0.01
414 5 0.01
415 91 0.25
418 82 0.22
419 175 0.48
420 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (412 bp):
GCCAAAACAAAAAAAAAAGAACAAAGAAACAACAAAAATATACACAGTCCTCCATAGAAGGAGGA
ATCCAATGCCATACAACACCTTACAAAAAATAAAGAGTCATATTCAATTGTACCAAAAAAAAGAA
AGAACGGTGGTGGTGGCAGCTTCCTTTGGGCGATTGGTGACATTGGAAAAGAAGAGGAAAGAGAG
GAAAACAACATACTAAAAAATCATAAAGATTGAACAACGAACAAAGAAGTATTGATGATTTGAAA
GTTTCAGCTTTAGGTTCAAATCTAGTGTTTTTGAGGCATTTTAGTGAAAAATCAAGCTTGGATTC
ATGAAGAGAAGGTGGAGGAAAAATTTAGGGCAAAATTTAGGCTGGAAAAGAAACCAGCCAACGGC
GACACCAATGATAGAACATTTT
Found at i:11093497 original size:26 final size:27
Alignment explanation
Indices: 11093449--11093499 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
11093439 TTAGGACATG
11093449 TAAAACAAATATAATAATGATAAAAAA
1 TAAAACAAATATAATAATGATAAAAAA
* * *
11093476 TAAAATAAA-ATAATAGTTATAAAA
1 TAAAACAAATATAATAATGATAAAA
11093500 TTTATAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAAACAAATATAATAATGATAAAAAA
Found at i:11093760 original size:12 final size:11
Alignment explanation
Indices: 11093721--11093760 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
11093711 AATAAAAACA
*
11093721 AAAAAAAAGTCT
1 AAAAAAAA-TTT
11093733 AAAAAAAATTT
1 AAAAAAAATTT
*
11093744 TAAAAAAATTT
1 AAAAAAAATTT
11093755 AAAAAA
1 AAAAAA
11093761 TGATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AAAAAAAATTT
Found at i:11094285 original size:23 final size:22
Alignment explanation
Indices: 11094259--11094332 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
11094249 TTCAAAGCCA
* *
11094259 AAAATCCAAACCGTAAAACCCTT
1 AAAATCAAAACCCTAAAA-CCTT
*
11094282 AAAATCTAAACCCTTAAAACCTT
1 AAAATCAAAACCC-TAAAACCTT
*
11094305 AAAATTCAAAACCCTAAAATCTTT
1 AAAA-TCAAAACCCTAAAA-CCTT
11094329 AAAA
1 AAAA
11094333 CCCTTGAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 20 0.45
ACGTcount: A:0.51, C:0.24, G:0.01, T:0.23
Consensus pattern (22 bp):
AAAATCAAAACCCTAAAACCTT
Found at i:11094412 original size:17 final size:16
Alignment explanation
Indices: 11094357--11094449 Score: 62
Period size: 17 Copynumber: 5.7 Consensus size: 16
11094347 AGATTTCTAT
*
11094357 ACCCT-AAACCTCTAA
1 ACCCTAAAACCTTTAA
* * **
11094372 ATCCTAAACCCTCGAA
1 ACCCTAAAACCTTTAA
*
11094388 ACCTTAAAACCTTTAA
1 ACCCTAAAACCTTTAA
**
11094404 TACCCTAAAGTCTTTCAA
1 -ACCCTAAAACCTTT-AA
*
11094422 ACTCTAAAACCTTTTAA
1 ACCCTAAAACC-TTTAA
*
11094439 ACCTTAAAACC
1 ACCCTAAAACC
11094450 AAACCCTTAA
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
15 4 0.07
16 19 0.33
17 30 0.52
18 5 0.09
ACGTcount: A:0.40, C:0.31, G:0.02, T:0.27
Consensus pattern (16 bp):
ACCCTAAAACCTTTAA
Found at i:11094453 original size:22 final size:23
Alignment explanation
Indices: 11094435--11094477 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
11094425 CTAAAACCTT
11094435 TTAAAC-CTTAAAAC-CAAACCC
1 TTAAACTCTTAAAACTCAAACCC
11094456 TTAAACTCTTAAAACTCAAACC
1 TTAAACTCTTAAAACTCAAACC
11094478 AAAGCTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (23 bp):
TTAAACTCTTAAAACTCAAACCC
Found at i:11096595 original size:18 final size:18
Alignment explanation
Indices: 11096560--11096599 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11096550 AAGTTAGGAT
*
11096560 AAAAAAGAAATGAAAAAA
1 AAAAAAGAAATCAAAAAA
11096578 AAAAAAGAAA-CAAGAAAA
1 AAAAAAGAAATCAA-AAAA
11096596 AAAA
1 AAAA
11096600 TATTACGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAATCAAAAAA
Found at i:11099575 original size:11 final size:11
Alignment explanation
Indices: 11099559--11099598 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
11099549 ACCTTTTTAA
11099559 AAAAAAAAGGC
1 AAAAAAAAGGC
11099570 -AAAAAAAGG-
1 AAAAAAAAGGC
*
11099579 AAAAAAAAGAC
1 AAAAAAAAGGC
11099590 AAAAAAAAG
1 AAAAAAAAG
11099599 AAAAAGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGC
Found at i:11099584 original size:20 final size:20
Alignment explanation
Indices: 11099559--11099603 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
11099549 ACCTTTTTAA
* *
11099559 AAAAAAAAGGCAAAAAAAGG
1 AAAAAAAAGACAAAAAAAAG
11099579 AAAAAAAAGACAAAAAAAAG
1 AAAAAAAAGACAAAAAAAAG
11099599 AAAAA
1 AAAAA
11099604 GGAAAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGACAAAAAAAAG
Found at i:11099603 original size:10 final size:10
Alignment explanation
Indices: 11099558--11099603 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
11099548 TACCTTTTTA
11099558 AAAAAAAAAG
1 AAAAAAAAAG
**
11099568 GCAAAAAAAG
1 AAAAAAAAAG
*
11099578 GAAAAAAAAG
1 AAAAAAAAAG
11099588 ACAAAAAAAAG
1 A-AAAAAAAAG
11099599 AAAAA
1 AAAAA
11099604 GGAAAGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 21 0.68
11 10 0.32
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11100300 original size:9 final size:9
Alignment explanation
Indices: 11100260--11100309 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
11100250 GGGGGCATGT
11100260 AAAAAAAA-
1 AAAAAAAAG
11100268 AAAACAAAA-
1 AAAA-AAAAG
*
11100277 ACAAAAAAGG
1 A-AAAAAAAG
*
11100287 TAAAAAAAG
1 AAAAAAAAG
11100296 AAAAAAAAG
1 AAAAAAAAG
11100305 AAAAA
1 AAAAA
11100310 TGGTTATGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 28 0.80
10 3 0.09
ACGTcount: A:0.86, C:0.04, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:11101848 original size:22 final size:22
Alignment explanation
Indices: 11101820--11101866 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
11101810 CACCAATAGA
*
11101820 CACGTAAGTCCAGTTTAGCTAG
1 CACGTAAGGCCAGTTTAGCTAG
*
11101842 CACGTAAGGCCAGTTTAGCTGG
1 CACGTAAGGCCAGTTTAGCTAG
11101864 CAC
1 CAC
11101867 AATAACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (22 bp):
CACGTAAGGCCAGTTTAGCTAG
Found at i:11101883 original size:22 final size:22
Alignment explanation
Indices: 11101858--11101906 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11101848 AGGCCAGTTT
11101858 AGCTGGCACAATAA-CCTAAATC
1 AGCTGGCAC-ATAAGCCTAAATC
* * *
11101880 AGCTTGCACATAAGCCTAGATT
1 AGCTGGCACATAAGCCTAAATC
11101902 AGCTG
1 AGCTG
11101907 AAAAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (22 bp):
AGCTGGCACATAAGCCTAAATC
Found at i:11102193 original size:33 final size:31
Alignment explanation
Indices: 11102098--11102193 Score: 86
Period size: 33 Copynumber: 2.9 Consensus size: 31
11102088 CCTAATACCC
* *
11102098 AATTTTAAGCCTAGTTTATCTGACACTAA-AA
1 AATTTTAAGCCTAGTTTAT-TGGCACCAATAA
** *
11102129 AATTTTTAAGTTTAGTTTAGTTGGCCCCCAATAA
1 AA-TTTTAAGCCTAGTTTA-TTGG-CACCAATAA
11102163 AATTTTAAGCCTAGTTTACTTGGCATCCAAT
1 AATTTTAAGCCTAGTTTA-TTGGCA-CCAAT
11102194 TTTAAGCTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
31 2 0.04
32 17 0.33
33 28 0.55
34 4 0.08
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (31 bp):
AATTTTAAGCCTAGTTTATTGGCACCAATAA
Found at i:11102194 original size:28 final size:28
Alignment explanation
Indices: 11102163--11102262 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 28
11102153 CCCCCAATAA
*
11102163 AATTTTAAGCCTAGTTTACTTGGCATCC
1 AATTTTAAGCCTAGTTTACTTAGCATCC
*
11102191 AATTTTAAG-CTCAGTTTA-TCTAGCTTCC
1 AATTTTAAGCCT-AGTTTACT-TAGCATCC
* *
11102219 AAGGAAATTTTAAGCCTAGTTTACCTAGCACCC
1 -----AATTTTAAGCCTAGTTTACTTAGCATCC
11102252 AATTTTAAGCC
1 AATTTTAAGCC
11102263 CAAATTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
27 3 0.05
28 32 0.55
33 21 0.36
34 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (28 bp):
AATTTTAAGCCTAGTTTACTTAGCATCC
Found at i:11102227 original size:61 final size:60
Alignment explanation
Indices: 11102162--11102333 Score: 195
Period size: 61 Copynumber: 2.8 Consensus size: 60
11102152 GCCCCCAATA
* *
11102162 AAATTTTAAGCCTAGTTTACTTGGCATCCAATTTTAAGCTCAGTTTATCTAGCT-TCCAAGG
1 AAATTTTAAGCCTAGTTTACTTGGCA-CCAATTTTAAGCCCAATTTATCTAGCTCT-CAAGG
* * * * * * *
11102223 AAATTTTAAGCCTAGTTTACCTAGCACCCAATTTTAAGCCCAAATTATTTGGCTCTTAATG
1 AAATTTTAAGCCTAGTTTACTTGGCA-CCAATTTTAAGCCCAATTTATCTAGCTCTCAAGG
*
11102284 AAATTTTAAG-CTAAGTTTACTTGGCACCTAATTGTAAGCCCAATTTATCT
1 AAATTTTAAGCCT-AGTTTACTTGGCACC-AATTTTAAGCCCAATTTATCT
11102334 GACATTAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
60 4 0.04
61 88 0.95
62 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (60 bp):
AAATTTTAAGCCTAGTTTACTTGGCACCAATTTTAAGCCCAATTTATCTAGCTCTCAAGG
Found at i:11102468 original size:60 final size:61
Alignment explanation
Indices: 11102347--11102500 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 61
11102337 ATTAAAAAGT
* * * * * * * **
11102347 TTTTAAGCCTAGTTTAGCTGGCT-TCAGTAAAATTTTAGGCCTAGTTTACTTGGCATTCAA
1 TTTTAAGCCCAGATTATCTGGCTCTCAATGAAATTTTAAGCCTAGTTTACTTGACACCCAA
11102407 TTTTAAGCCCAGATTATCTGGCTCTCAATGAAATTTTAAGCCTAGTTTA-TTGACACCCAA
1 TTTTAAGCCCAGATTATCTGGCTCTCAATGAAATTTTAAGCCTAGTTTACTTGACACCCAA
* *
11102467 -TTTAAGCCCAGATTATTTGGCAC-CAATGAAATTT
1 TTTTAAGCCCAGATTATCTGGCTCTCAATGAAATTT
11102501 AAACCCAATT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 11 0.13
59 21 0.26
60 28 0.34
61 22 0.27
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (61 bp):
TTTTAAGCCCAGATTATCTGGCTCTCAATGAAATTTTAAGCCTAGTTTACTTGACACCCAA
Found at i:11102569 original size:214 final size:212
Alignment explanation
Indices: 11102160--11102576 Score: 494
Period size: 214 Copynumber: 1.9 Consensus size: 212
11102150 TGGCCCCCAA
* *
11102160 TAAAATTTTAAGCCTAGTTTACTTGGCATCCAATTTTAAGCTCAGTTTATCTAGCTTCCAAGGAA
1 TAAAATTTTAAGCCTAGTTTACTTGGCATCCAATTTTAAGCCCAGATTATCTAGCTTCCAAGGAA
* *
11102225 ATTTTAAGCCTAGTTTACCTAGCACCCAATTTTAAGCCCAAATTATTTGGCTCTTAATGAAATTT
66 ATTTTAAGCCTAGTTTACCTAGCACCCAATTTTAAGCCCAAATTATTTGGCACTCAATGAAATTT
* * * *
11102290 TAAGCTAAGTTTACTTGGCACCTAATTGTAAGCCCAATTTATCTGACATTAAAAAGTTTTTAAGC
131 AAACCCAAGTTTACTTGGCACCTAATTGTAAGCCCAATTTATCTGACACTAAAAAG--TTTAAGC
*
11102355 CTAGTTTAGCTGGCTTCAG
194 CCAGTTTAGCTGGCTTCAG
* * * *
11102374 TAAAATTTTAGGCCTAGTTTACTTGGCATTCAATTTTAAGCCCAGATTATCTGGC-TCTCAATGA
1 TAAAATTTTAAGCCTAGTTTACTTGGCATCCAATTTTAAGCCCAGATTATCTAGCTTC-CAAGGA
* *
11102438 AATTTTAAGCCTAGTTTA--TTGACACCCAA-TTTAAGCCCAGATTATTTGGCAC-CAATGAAAT
65 AATTTTAAGCCTAGTTTACCTAG-CACCCAATTTTAAGCCCAAATTATTTGGCACTCAATGAAAT
*
11102499 TTAAACCCAA-TTTAGC-TGGTC-CCTAGTAAAATTTTAAGCCCAATTTA-CTTGACACTAATGA
129 TTAAACCCAAGTTTA-CTTGG-CACC---T--AATTGTAAGCCCAATTTATC-TGACACTAA--A
11102560 AAG-TTAAGCCCAGTTTA
184 AAGTTTAAGCCCAGTTTA
11102577 TTTAGCCCTC
Statistics
Matches: 175, Mismatches: 16, Indels: 24
0.81 0.07 0.11
Matches are distributed among these distances:
210 9 0.05
211 17 0.10
212 23 0.13
213 10 0.06
214 87 0.50
215 25 0.14
217 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.35
Consensus pattern (212 bp):
TAAAATTTTAAGCCTAGTTTACTTGGCATCCAATTTTAAGCCCAGATTATCTAGCTTCCAAGGAA
ATTTTAAGCCTAGTTTACCTAGCACCCAATTTTAAGCCCAAATTATTTGGCACTCAATGAAATTT
AAACCCAAGTTTACTTGGCACCTAATTGTAAGCCCAATTTATCTGACACTAAAAAGTTTAAGCCC
AGTTTAGCTGGCTTCAG
Found at i:11102600 original size:64 final size:64
Alignment explanation
Indices: 11102527--11102699 Score: 201
Period size: 64 Copynumber: 2.7 Consensus size: 64
11102517 GTCCCTAGTA
* *
11102527 AAATTTTAAGCCCAATTTA-CTTGACA-C-TAATGAAAGTTAAGCCCAGTTTATTTAGCCCTCAA
1 AAATCTTAAGCCCAATTTATCTT-ACACCATAA--AAAGTTAAGCCCACTTTATTTAGCCCTCAA
11102589 AG
63 AG
* * * * *
11102591 AAATCTTAAGCCTAGTTTATCTTACACCATAAAAATTTAGGCCCACTTTATTTAGCCCTCAAGG
1 AAATCTTAAGCCCAATTTATCTTACACCATAAAAAGTTAAGCCCACTTTATTTAGCCCTCAAAG
* *
11102655 AAATCTTAAGCCCAATTTATC-TAGCACCATAAAAATTTAGGCCCA
1 AAATCTTAAGCCCAATTTATCTTA-CACCATAAAAAGTTAAGCCCA
11102700 GGTAATTTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
63 2 0.02
64 87 0.91
65 4 0.04
66 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (64 bp):
AAATCTTAAGCCCAATTTATCTTACACCATAAAAAGTTAAGCCCACTTTATTTAGCCCTCAAAG
Found at i:11102602 original size:33 final size:32
Alignment explanation
Indices: 11102558--11102778 Score: 132
Period size: 33 Copynumber: 6.8 Consensus size: 32
11102548 TGACACTAAT
*
11102558 GAAAGTTAAGCCCAGTTTATTTAGCCCTCAAA
1 GAAATTTAAGCCCAGTTTATTTAGCCCTCAAA
* *
11102590 GAAATCTTAAGCCTAGTTTATCTTA-CAC-CATAA
1 GAAAT-TTAAGCCCAGTTTAT-TTAGCCCTCA-AA
* * *
11102623 -AAATTTAGGCCCACTTTATTTAGCCCTCAAG
1 GAAATTTAAGCCCAGTTTATTTAGCCCTCAAA
* * *
11102654 GAAATCTTAAGCCCAATTTATCTAGCAC-CATAA
1 GAAAT-TTAAGCCCAGTTTATTTAGCCCTCA-AA
* * * * **
11102687 -AAATTTAGGCCCAGGTAATTTGGCACCT-AGT
1 GAAATTTAAGCCCAGTTTATTTAGC-CCTCAAA
* **
11102718 GCAAATTTAAGCCCTGTTTAGCTAGCTCCT-AAA
1 G-AAATTTAAGCCCAGTTTATTTAGC-CCTCAAA
* *
11102751 GAAATCTTAAGCCTAGTTTATCTAGCCC
1 GAAAT-TTAAGCCCAGTTTATTTAGCCC
11102779 ATAAGAAAAT
Statistics
Matches: 141, Mismatches: 35, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
30 3 0.02
31 29 0.21
32 30 0.21
33 76 0.54
34 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (32 bp):
GAAATTTAAGCCCAGTTTATTTAGCCCTCAAA
Found at i:11102743 original size:64 final size:63
Alignment explanation
Indices: 11102576--11102743 Score: 162
Period size: 64 Copynumber: 2.6 Consensus size: 63
11102566 AGCCCAGTTT
* * * * * *
11102576 ATTTAGCCCTCAAAGAAATCTTAAGCCTAGTTTATCTTA-CACCATAAAAATTTAGGCCCACTTT
1 ATTTAGCCCT-AAGGAAATCTTAAGCCCAATTTAGC-TAGCACCATAAAAATTTAGGCCCACGTA
* *
11102640 ATTTAGCCCTCAAGGAAATCTTAAGCCCAATTTATCTAGCACCATAAAAATTTAGGCCCAGGTA
1 ATTTAGCCCT-AAGGAAATCTTAAGCCCAATTTAGCTAGCACCATAAAAATTTAGGCCCACGTA
* **
11102704 ATTTGGCACCT-AGTGCAAAT-TTAAGCCCTGTTTAGCTAGC
1 ATTTAGC-CCTAAG-G-AAATCTTAAGCCCAATTTAGCTAGC
11102744 TCCTAAAGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
63 4 0.04
64 79 0.88
65 7 0.08
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (63 bp):
ATTTAGCCCTAAGGAAATCTTAAGCCCAATTTAGCTAGCACCATAAAAATTTAGGCCCACGTA
Found at i:11102842 original size:33 final size:33
Alignment explanation
Indices: 11102752--11103049 Score: 130
Period size: 33 Copynumber: 9.4 Consensus size: 33
11102742 GCTCCTAAAG
* *
11102752 AAATCTTAAGCCTAGTTTATCTAGCC-CATAAGA
1 AAATTTTAAGCCTAGTTTATCTGGCCTC-TAAGA
* *
11102785 AAATTTTAA-ACTAAATTTATCTGGCCTCTAAGA
1 AAATTTTAAGCCT-AGTTTATCTGGCCTCTAAGA
* *
11102818 AAATTTTAAGCCTAGTTTAACTGGCACT-AAAGA
1 AAATTTTAAGCCTAGTTTATCTGGC-CTCTAAGA
* * * * *
11102851 AGA-TTTAAACCTAGTTTACCTAGCAT-T--G-
1 AAATTTTAAGCCTAGTTTATCTGGCCTCTAAGA
* * * * *
11102879 -AATTTTATGCCTAGTTTATTTGGCTTTTAAGG
1 AAATTTTAAGCCTAGTTTATCTGGCCTCTAAGA
* * *
11102911 AAGTTTTAAACCCAGTTTAGT-TGGGCC-CT-AGTA
1 AAATTTTAAGCCTAGTTTA-TCT-GGCCTCTAAG-A
* * * *
11102944 AAATTTTAAGCCTGGTTTACCTAGCATCT----
1 AAATTTTAAGCCTAGTTTATCTGGCCTCTAAGA
* * * *
11102973 -AATTTTAAGCCTAGTTAACCTAGCCCCTAA-A
1 AAATTTTAAGCCTAGTTTATCTGGCCTCTAAGA
* *
11103004 GAAATTTTAAACCTAGTTTATCTGGCCCCT-AGTA
1 -AAATTTTAAGCCTAGTTTATCTGGCCTCTAAG-A
11103038 AAATTTTAAGCC
1 AAATTTTAAGCC
11103050 CAGCATAGGT
Statistics
Matches: 199, Mismatches: 44, Indels: 44
0.69 0.15 0.15
Matches are distributed among these distances:
27 1 0.01
28 41 0.21
29 2 0.01
31 2 0.01
32 25 0.13
33 118 0.59
34 10 0.05
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
AAATTTTAAGCCTAGTTTATCTGGCCTCTAAGA
Found at i:11102978 original size:94 final size:94
Alignment explanation
Indices: 11102854--11103049 Score: 234
Period size: 94 Copynumber: 2.1 Consensus size: 94
11102844 CTAAAGAAGA
* * * ** * *** * *
11102854 TTTAAACCTAGTTTACCTAGCATTGAATTTTATGCCTAGTTTATTTGGCTTTTAAGGAAGTTTTA
1 TTTAAGCCTAGTTTACCTAGCATTGAATTTTAAGCCTAGTTAACCTAGCCCCTAAAGAAATTTTA
*
11102919 AACCCAGTTTAGT-TGGGCCCTAGTAAAAT
66 AACCCAGTTTA-TCTGGCCCCTAGTAAAAT
*
11102948 TTTAAGCCTGGTTTACCTAGCATCT-AATTTTAAGCCTAGTTAACCTAGCCCCTAAAGAAATTTT
1 TTTAAGCCTAGTTTACCTAGCAT-TGAATTTTAAGCCTAGTTAACCTAGCCCCTAAAGAAATTTT
*
11103012 AAACCTAGTTTATCTGGCCCCTAGTAAAAT
65 AAACCCAGTTTATCTGGCCCCTAGTAAAAT
11103042 TTTAAGCC
1 TTTAAGCC
11103050 CAGCATAGGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
93 1 0.01
94 84 0.98
95 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (94 bp):
TTTAAGCCTAGTTTACCTAGCATTGAATTTTAAGCCTAGTTAACCTAGCCCCTAAAGAAATTTTA
AACCCAGTTTATCTGGCCCCTAGTAAAAT
Found at i:11103002 original size:28 final size:28
Alignment explanation
Indices: 11102945--11103002 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
11102935 GCCCTAGTAA
* * *
11102945 AATTTTAAGCCTGGTTTACCTAGCATCT
1 AATTTTAAGCCTAGTTAACCTAGCACCT
*
11102973 AATTTTAAGCCTAGTTAACCTAGCCCCT
1 AATTTTAAGCCTAGTTAACCTAGCACCT
11103001 AA
1 AA
11103003 AGAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (28 bp):
AATTTTAAGCCTAGTTAACCTAGCACCT
Found at i:11103381 original size:48 final size:48
Alignment explanation
Indices: 11103310--11103406 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
11103300 TGGTGTTATC
11103310 TCGGTTGATTCTTTATTTTTCAACTTATGGTGTTGTCCCAATAGTTCT
1 TCGGTTGATTCTTTATTTTTCAACTTATGGTGTTGTCCCAATAGTTCT
*
11103358 TCGGTTGATTCTTTATTTTTCAACTTATGGTGTTGTCCCAGTAGTTCT
1 TCGGTTGATTCTTTATTTTTCAACTTATGGTGTTGTCCCAATAGTTCT
11103406 T
1 T
11103407 TAATTTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.15, C:0.16, G:0.18, T:0.51
Consensus pattern (48 bp):
TCGGTTGATTCTTTATTTTTCAACTTATGGTGTTGTCCCAATAGTTCT
Found at i:11103675 original size:141 final size:141
Alignment explanation
Indices: 11103520--11103802 Score: 557
Period size: 141 Copynumber: 2.0 Consensus size: 141
11103510 TAAAAACAAA
11103520 AAAAAAAATTTGAAGAGTGATCGAGTTGGCTTTAGATTAAAATGTTGTCTTTATCTTTGCCCTAT
1 AAAAAAAATTTGAAGAGTGATCGAGTTGGCTTTAGATTAAAATGTTGTCTTTATCTTTGCCCTAT
*
11103585 TCTTGATTCTCAATAATGTGTAAAGAAAGGTAGCTATAGACACTAAATTTTATTTCAATCTATCA
66 TCTTGATTCTCAATAATGTGTAAAGAAAGGTAGCTATAGACACTAAATTTTATCTCAATCTATCA
11103650 TATGAAACCCT
131 TATGAAACCCT
11103661 AAAAAAAATTTGAAGAGTGATCGAGTTGGCTTTAGATTAAAATGTTGTCTTTATCTTTGCCCTAT
1 AAAAAAAATTTGAAGAGTGATCGAGTTGGCTTTAGATTAAAATGTTGTCTTTATCTTTGCCCTAT
11103726 TCTTGATTCTCAATAATGTGTAAAGAAAGGTAGCTATAGACACTAAATTTTATCTCAATCTATCA
66 TCTTGATTCTCAATAATGTGTAAAGAAAGGTAGCTATAGACACTAAATTTTATCTCAATCTATCA
11103791 TATGAAACCCT
131 TATGAAACCCT
11103802 A
1 A
11103803 TTTTTTTATT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (141 bp):
AAAAAAAATTTGAAGAGTGATCGAGTTGGCTTTAGATTAAAATGTTGTCTTTATCTTTGCCCTAT
TCTTGATTCTCAATAATGTGTAAAGAAAGGTAGCTATAGACACTAAATTTTATCTCAATCTATCA
TATGAAACCCT
Found at i:11105952 original size:13 final size:13
Alignment explanation
Indices: 11105934--11105960 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11105924 TTCAAACTCT
11105934 CTAAACCCTAAAA
1 CTAAACCCTAAAA
11105947 CTAAACCCTAAAA
1 CTAAACCCTAAAA
11105960 C
1 C
11105961 CCTTAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAAACCCTAAAA
Found at i:11105981 original size:21 final size:21
Alignment explanation
Indices: 11105864--11105976 Score: 77
Period size: 23 Copynumber: 4.9 Consensus size: 21
11105854 AAAATCTTTC
* *
11105864 AAACCTTAAAATCCAAACCCTA
1 AAACCCTAAAA-CTAAACCCTA
11105886 AAACCCTTAAAGTA-TAAACCCTTA
1 AAACCC-TAAA--ACTAAACCC-TA
11105910 AAACCCTAAAATCTTTCAAACTCTCT-
1 AAACCCTAAAA-C--T-AAAC-C-CTA
11105936 AAACCCTAAAACTAAACCCTA
1 AAACCCTAAAACTAAACCCTA
11105957 AAACCCTTAAAACTCAAACC
1 AAACCC-TAAAACT-AAACC
11105977 AAAACTCCAA
Statistics
Matches: 75, Mismatches: 2, Indels: 27
0.72 0.02 0.26
Matches are distributed among these distances:
20 2 0.03
21 8 0.11
22 16 0.21
23 20 0.27
24 8 0.11
25 3 0.04
26 15 0.20
27 2 0.03
28 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (21 bp):
AAACCCTAAAACTAAACCCTA
Found at i:11106006 original size:14 final size:14
Alignment explanation
Indices: 11105987--11106016 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11105977 AAAACTCCAA
*
11105987 AATCTTGAAACCCT
1 AATCTTAAAACCCT
11106001 AATCTTAAAACCCT
1 AATCTTAAAACCCT
11106015 AA
1 AA
11106017 AACGAGATCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (14 bp):
AATCTTAAAACCCT
Found at i:11109882 original size:19 final size:19
Alignment explanation
Indices: 11109858--11109920 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
11109848 AGATGCCAGA
*
11109858 TTGATCAAATAATTTAATG
1 TTGATCAAAGAATTTAATG
*
11109877 TTGATCAGAGAATTTAATG
1 TTGATCAAAGAATTTAATG
11109896 TTAATGTTATCAAAGAATTTAATG
1 -T--TG--ATCAAAGAATTTAATG
11109920 T
1 T
11109921 CGGGTTGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 17 0.47
20 1 0.03
22 2 0.06
23 1 0.03
24 15 0.42
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (19 bp):
TTGATCAAAGAATTTAATG
Found at i:11109907 original size:24 final size:25
Alignment explanation
Indices: 11109867--11109920 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
11109857 ATTGATCAAA
*
11109867 TAAT-TTAATGTTGATCAGAGAATT
1 TAATGTTAATGTTGATCAAAGAATT
11109891 TAATGTTAATGTT-ATCAAAGAATT
1 TAATGTTAATGTTGATCAAAGAATT
11109915 TAATGT
1 TAATGT
11109921 CGGGTTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (25 bp):
TAATGTTAATGTTGATCAAAGAATT
Found at i:11113826 original size:13 final size:12
Alignment explanation
Indices: 11113808--11113870 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 12
11113798 AAAATTAATT
11113808 TAAATAAAATGAA
1 TAAATAAAAT-AA
*
11113821 TAAATAAAAT-T
1 TAAATAAAATAA
*
11113832 TACATAAAATAAA
1 TAAATAAAAT-AA
11113845 TTAAAT-AAATAA
1 -TAAATAAAATAA
11113857 -AAATAAAA-AA
1 TAAATAAAATAA
11113867 TAAA
1 TAAA
11113871 AATTACAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 6 0.15
11 15 0.37
12 2 0.05
13 14 0.34
14 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (12 bp):
TAAATAAAATAA
Found at i:11113838 original size:24 final size:25
Alignment explanation
Indices: 11113804--11113853 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
11113794 AACAAAAATT
*
11113804 AATTTAAATAAAATGAA-TAAATAA
1 AATTTAAATAAAATAAATTAAATAA
*
11113828 AATTTACATAAAATAAATTAAATAA
1 AATTTAAATAAAATAAATTAAATAA
11113853 A
1 A
11113854 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AATTTAAATAAAATAAATTAAATAA
Found at i:11113854 original size:24 final size:23
Alignment explanation
Indices: 11113799--11113864 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
11113789 TTTTTAACAA
* *
11113799 AAATTAATTTAAATAAAATGAAT
1 AAATAAATTTAAATAAAATAAAT
*
11113822 AAATAAAATTTACATAAAATAAATT
1 AAAT-AAATTTAAATAAAATAAA-T
**
11113847 AAATAAATAAAAATAAAA
1 AAATAAATTTAAATAAAA
11113865 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 4 0.11
24 26 0.74
25 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATAAATTTAAATAAAATAAAT
Found at i:11113880 original size:14 final size:15
Alignment explanation
Indices: 11113797--11113875 Score: 69
Period size: 14 Copynumber: 5.5 Consensus size: 15
11113787 TATTTTTAAC
*
11113797 AAAAATTAATTTAAAT
1 AAAAATTAA-ATAAAT
*
11113813 -AAAA-TGAATAAAT
1 AAAAATTAAATAAAT
* *
11113826 AAAATTTACATAAA-
1 AAAAATTAAATAAAT
*
11113840 ATAAATTAAATAAAT
1 AAAAATTAAATAAAT
11113855 AAAAA-TAAA-AAAT
1 AAAAATTAAATAAAT
11113868 AAAAATTA
1 AAAAATTA
11113876 CAAAAAATGG
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
13 14 0.28
14 22 0.44
15 14 0.28
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (15 bp):
AAAAATTAAATAAAT
Found at i:11114604 original size:19 final size:19
Alignment explanation
Indices: 11114559--11114610 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
11114549 CAAAGTAAAG
*
11114559 ATAATTAAGAAATAAATAT
1 ATAAATAAGAAATAAATAT
*
11114578 ATATATAAGAAATAAAT-T
1 ATAAATAAGAAATAAATAT
11114596 AGTAAATAA-AAATAA
1 A-TAAATAAGAAATAA
11114611 CTAATTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
ATAAATAAGAAATAAATAT
Found at i:11114666 original size:16 final size:16
Alignment explanation
Indices: 11114637--11114677 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
11114627 ACCTATAAAG
11114637 ATAAATAAAAT-AAATA
1 ATAAA-AAAATAAAATA
11114653 ATAAAAAAATTAAAATA
1 ATAAAAAAA-TAAAATA
11114670 ATAAAAAA
1 ATAAAAAA
11114678 TTAGGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 13 0.57
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
ATAAAAAAATAAAATA
Found at i:11115092 original size:38 final size:35
Alignment explanation
Indices: 11115032--11115144 Score: 94
Period size: 33 Copynumber: 3.3 Consensus size: 35
11115022 AGTCAAAAAG
* *
11115032 AATGACTTGGA-TTGAACAAAAGTCAGAAAATAAGA
1 AATGACTTGGACTT-AGCTAAAGTCAGAAAATAAGA
11115067 TTACATGACTTGGACTTAGCTAAAGTCTA-AAAAT--GA
1 --A-ATGACTTGGACTTAGCTAAAGTC-AGAAAATAAGA
* * *
11115103 AATGACTTGGTCTTAGCTGAGGTCAGAAAAT-A-A
1 AATGACTTGGACTTAGCTAAAGTCAGAAAATAAGA
11115136 AATGACTTG
1 AATGACTTG
11115145 ATAAAATGAC
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
32 1 0.02
33 35 0.53
34 1 0.02
36 2 0.03
37 1 0.02
38 23 0.35
39 3 0.05
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.27
Consensus pattern (35 bp):
AATGACTTGGACTTAGCTAAAGTCAGAAAATAAGA
Found at i:11115118 original size:33 final size:33
Alignment explanation
Indices: 11115071--11115144 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
11115061 ATAAGATTAC
*
11115071 ATGACTTGGACTTAGCTAAAGTCTA-AAAATGAA
1 ATGACTTGGACTTAGCTAAAGTC-AGAAAATAAA
* * *
11115104 ATGACTTGGTCTTAGCTGAGGTCAGAAAATAAA
1 ATGACTTGGACTTAGCTAAAGTCAGAAAATAAA
11115137 ATGACTTG
1 ATGACTTG
11115145 ATAAAATGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (33 bp):
ATGACTTGGACTTAGCTAAAGTCAGAAAATAAA
Found at i:11115150 original size:13 final size:13
Alignment explanation
Indices: 11115132--11115156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11115122 AGGTCAGAAA
11115132 ATAAAATGACTTG
1 ATAAAATGACTTG
11115145 ATAAAATGACTT
1 ATAAAATGACTT
11115157 AGACTTAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
ATAAAATGACTTG
Found at i:11115223 original size:79 final size:79
Alignment explanation
Indices: 11115071--11115223 Score: 173
Period size: 79 Copynumber: 1.9 Consensus size: 79
11115061 ATAAGATTAC
* * * ** * * *
11115071 ATGACTTGGACTTAGCTAAAGTCTAAAAATGAAATGACTTGGTCTTAGCTGAGGTCAGAAAATAA
1 ATGACTTAGACTTAGCTAAAGTCTAAAAATGAAATGACTTGGACATAGCCAAAGTAAAAAAATAA
*
11115136 AATGACTTGATAAA
66 AATAACTTGATAAA
* * *
11115150 ATGACTTAGACTTAGCTGAAGT-TGAAAAATGATATGACTTGGACATAGCCAAAGTAAAAAAATG
1 ATGACTTAGACTTAGCTAAAGTCT-AAAAATGAAATGACTTGGACATAGCCAAAGTAAAAAAATA
*
11115214 ATATAACTTG
65 AAATAACTTG
11115224 GACTTAGCCA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
78 1 0.02
79 59 0.98
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (79 bp):
ATGACTTAGACTTAGCTAAAGTCTAAAAATGAAATGACTTGGACATAGCCAAAGTAAAAAAATAA
AATAACTTGATAAA
Found at i:11115275 original size:33 final size:33
Alignment explanation
Indices: 11115150--11115256 Score: 142
Period size: 33 Copynumber: 3.2 Consensus size: 33
11115140 ACTTGATAAA
* ** **
11115150 ATGACTTAGACTTAGCTGAAGTTGAAAAATGAT
1 ATGACTTGGACTTAGCCAAAGTCAAAAAATGAT
* *
11115183 ATGACTTGGACATAGCCAAAGTAAAAAAATGAT
1 ATGACTTGGACTTAGCCAAAGTCAAAAAATGAT
*
11115216 ATAACTTGGACTTAGCCAAAGTCAAAAAATGAT
1 ATGACTTGGACTTAGCCAAAGTCAAAAAATGAT
11115249 ATGACTTG
1 ATGACTTG
11115257 ATTTTAGCTG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (33 bp):
ATGACTTGGACTTAGCCAAAGTCAAAAAATGAT
Found at i:11115428 original size:32 final size:32
Alignment explanation
Indices: 11115347--11115439 Score: 116
Period size: 32 Copynumber: 2.9 Consensus size: 32
11115337 AGAATGAAGG
**
11115347 TGACCAAACTAAGCCAAAATAAAAAATAAAGA
1 TGACCAAACTAAGCCAAGGTAAAAAATAAAGA
*
11115379 TGACCAAACTAAGCCAAGGTTAAAAATGAAAG-
1 TGACCAAACTAAGCCAAGGTAAAAAAT-AAAGA
** *
11115411 TGGTCAAACTAAGCCAAGGTAATAAATAA
1 TGACCAAACTAAGCCAAGGTAAAAAATAA
11115440 TAAGTGATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.04
32 47 0.89
33 4 0.08
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.16
Consensus pattern (32 bp):
TGACCAAACTAAGCCAAGGTAAAAAATAAAGA
Found at i:11115459 original size:33 final size:31
Alignment explanation
Indices: 11115422--11115499 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
11115412 GGTCAAACTA
* *
11115422 AGCCAAGGTAATAAATAATAAGTGATTGGA-CTG
1 AGCCAAGGTAA-AAATAA-AAGTGATAGAATC-G
*
11115455 AGCCAAGATCAAAAATAAAAGTGATAGAATCG
1 AGCCAAGGT-AAAAATAAAAGTGATAGAATCG
11115487 AGCCAAGGTAAAA
1 AGCCAAGGTAAAA
11115500 GATGAAGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 4 0.10
32 18 0.46
33 15 0.38
34 2 0.05
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.18
Consensus pattern (31 bp):
AGCCAAGGTAAAAATAAAAGTGATAGAATCG
Found at i:11117732 original size:16 final size:16
Alignment explanation
Indices: 11117698--11117732 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11117688 ATACAAGCTC
**
11117698 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
11117714 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11117730 ATA
1 ATA
11117733 TGTTATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11122220 original size:17 final size:17
Alignment explanation
Indices: 11122198--11122230 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11122188 TAATGAATTG
11122198 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
11122215 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
11122231 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:11126472 original size:22 final size:20
Alignment explanation
Indices: 11126433--11126472 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11126423 GTTATTTTAT
*
11126433 AAAAAAAATGTTATAATTGG
1 AAAAAAAATGTAATAATTGG
11126453 AAAAAAAATGGTAATGAATT
1 AAAAAAAAT-GTAAT-AATT
11126473 ATTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (20 bp):
AAAAAAAATGTAATAATTGG
Found at i:11127376 original size:19 final size:20
Alignment explanation
Indices: 11127339--11127379 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11127329 AATTGGGATG
11127339 AATTTTTCGATAAAGGTTTA
1 AATTTTTCGATAAAGGTTTA
* *
11127359 AATTTTTCGATGAAGTTTTA
1 AATTTTTCGATAAAGGTTTA
11127379 A
1 A
11127380 GTGATTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTTTTCGATAAAGGTTTA
Found at i:11127745 original size:24 final size:23
Alignment explanation
Indices: 11127712--11127758 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
11127702 CGATCGCAGG
*
11127712 TTTTTTATTTTATTTTATTTTTA
1 TTTTTTATTTGATTTTATTTTTA
11127735 TTTTTTGATTTGATTTTATTTTTA
1 TTTTTT-ATTTGATTTTATTTTTA
11127759 ACCCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTTTTATTTGATTTTATTTTTA
Found at i:11137558 original size:45 final size:46
Alignment explanation
Indices: 11137437--11137588 Score: 157
Period size: 45 Copynumber: 3.2 Consensus size: 46
11137427 TTGCTTGATC
* *
11137437 CCAAAAAAAAAGGGAAGTTTAGGTTGAAAAC-CTGAAAGGAGGGCTTGAA
1 CCAAAAAAAAA---AAGTTTAAGTTGAAAACTC-GAAAGGATGGCTTGAA
* *
11137486 CCAAAAAAAAAAAGTTCAAGTTAAAAACTCGAAAAGG-TGGCTTGAA
1 CCAAAAAAAAAAAGTTTAAGTTGAAAACTCG-AAAGGATGGCTTGAA
* * *
11137532 CC-CAATAAAAAAGTTTAAGTTGAAAACTCGAAAGGATGGCTTGGA
1 CCAAAAAAAAAAAGTTTAAGTTGAAAACTCGAAAGGATGGCTTGAA
*
11137577 CTCAAAGAAAAA
1 C-CAAAAAAAAA
11137589 GGTTCGAGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.06
45 33 0.38
46 26 0.30
47 11 0.13
49 11 0.13
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.18
Consensus pattern (46 bp):
CCAAAAAAAAAAAGTTTAAGTTGAAAACTCGAAAGGATGGCTTGAA
Found at i:11138366 original size:115 final size:114
Alignment explanation
Indices: 11138212--11138742 Score: 414
Period size: 115 Copynumber: 4.6 Consensus size: 114
11138202 CTTAGTTCAG
* ** * * *
11138212 ATCATTTCTCATGATTTGTGATTTCATCCCAGTCATTTTTTACCTTGACTCGATCTTGATCACTT
1 ATCATTTCTCATGATTCGTGATTTCATCTGA-TCATTTTTTACCTCGACTAGATCTTGGTCACTT
* ** * *
11138277 CATTTTGACTCATGATTTTGTCTTAGTCATCTGATCTTGGCTCAATCTAG
65 CATTTCGACTCATGATTTCATCTTAGTCATCTGATCTTGGCTCAATCCAA
* * * * ***
11138327 ATTATTTCTCATGATTCGTGATTTTATCTGATCATTTTTTACCTCGATTAGGTCTTGGTTGTTTC
1 ATCATTTCTCATGATTCGTGATTTCATCTGATCATTTTTTACCTCGACTAGATCTTGGTCACTTC
* * * * * *
11138392 ATTTTGACTTATGGTTTCATCTCTA-TCATCTGATCATCGCTCAATCTAA
66 ATTTCGACTCATGATTTCATCT-TAGTCATCTGATCTTGGCTCAATCCAA
* * * * * *
11138441 ATCATTTCTCATGATTCATGGTTTTATCCAGATCATTTTTTACCTCGATTAGGTCTTGGTCACTT
1 ATCATTTCTCATGATTCGTGATTTCAT-CTGATCATTTTTTACCTCGACTAGATCTTGGTCACTT
* * * * **
11138506 TATTTCGACTCATGGTTTCATCCT-GATCA-CTTGATCTTAGCTCGGTCCAA
65 CATTTCGACTCATGATTTCATCTTAG-TCATC-TGATCTTGGCTCAATCCAA
* * * * * *
11138556 ATCATATCTCATGATTTGT-AGTTTCGTCTTGGTCATTTTTTATCTTGACTCAG-TCTTGGTCAC
1 ATCATTTCTCATGATTCGTGA-TTTCATC-TGATCATTTTTTACCTCGACT-AGATCTTGGTCAC
* * * *
11138619 TTCATTTCAACTTATGATTTCATCTTAGTCATTTGATCTTGG--CAATCCAT
63 TTCATTTCGACTCATGATTTCATCTTAGTCATCTGATCTTGGCTCAATCCAA
* * * * ** * *
11138669 ATCATTTCTCATGATTTGTGGTTTCGTCCCGATCA-TTTCGACCTTGACTTAG-TCTTGGTCGCT
1 ATCATTTCTCATGATTCGTGATTTCAT-CTGATCATTTTTTACCTCGAC-TAGATCTTGGTCACT
*
11138732 TCATTTTGACT
64 TCATTTCGACT
11138743 TGTGATTTTG
Statistics
Matches: 336, Mismatches: 67, Indels: 29
0.78 0.16 0.07
Matches are distributed among these distances:
112 31 0.09
113 34 0.10
114 93 0.28
115 175 0.52
116 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (114 bp):
ATCATTTCTCATGATTCGTGATTTCATCTGATCATTTTTTACCTCGACTAGATCTTGGTCACTTC
ATTTCGACTCATGATTTCATCTTAGTCATCTGATCTTGGCTCAATCCAA
Found at i:11139174 original size:19 final size:19
Alignment explanation
Indices: 11139133--11139173 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11139123 ATTATTATTA
11139133 TTTTCATTTTATTTTCATT
1 TTTTCATTTTATTTTCATT
* *
11139152 TTTTCCTTTTCTTTTC-TT
1 TTTTCATTTTATTTTCATT
11139170 TTTT
1 TTTT
11139174 TTTTTTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCATTTTATTTTCATT
Found at i:11139907 original size:7 final size:6
Alignment explanation
Indices: 11139892--11139941 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
11139882 TCTTTTTTCA
*
11139892 TTTTAT TTTTAT TTTTAT TTTT-T ATTTTA- TTTGA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT
11139937 TTTTA
1 TTTTA
11139942 ACCCATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 14 0.36
6 25 0.64
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:11139954 original size:5 final size:5
Alignment explanation
Indices: 11139886--11139939 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
11139876 GGTTTTTCTT
* *
11139886 TTTTCA TTTTA TTTTTA TTTT- TATT- TTTTA TTTTA TTTGA TTTTA TTTTA
1 TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11139936 TTTT
1 TTTT
11139940 TAACCCATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
4 6 0.14
5 27 0.64
6 9 0.21
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11140080 original size:15 final size:17
Alignment explanation
Indices: 11140060--11140094 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
11140050 AAAAAAAGAG
11140060 AAAATC-TTTTCAAA-A
1 AAAATCTTTTTCAAATA
11140075 AAAATCTTTTTCAAATA
1 AAAATCTTTTTCAAATA
11140092 AAA
1 AAA
11140095 GTCCTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATCTTTTTCAAATA
Found at i:11142062 original size:31 final size:31
Alignment explanation
Indices: 11142027--11142085 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11142017 TTTTGATCAA
*
11142027 TAATAAGAGAA-GTGTAATTTTCATAATTCAC
1 TAATAAGAGAAGGGGT-ATTTTCATAATTCAC
*
11142058 TAATAAGTGAAGGGGTATTTTCATAATT
1 TAATAAGAGAAGGGGTATTTTCATAATT
11142086 ATGACATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (31 bp):
TAATAAGAGAAGGGGTATTTTCATAATTCAC
Found at i:11142161 original size:55 final size:56
Alignment explanation
Indices: 11142073--11142258 Score: 177
Period size: 55 Copynumber: 3.4 Consensus size: 56
11142063 AGTGAAGGGG
* *
11142073 TATTTTCATAATTATGACATGA-AGGTATTATAGTTAATAATTATAAGAGAAAT-GA
1 TATTTTCATAATTATGATATGAGA-GTATTATAGTAAATAATTATAAGAGAAATAGA
* * * * * * *
11142128 TATTTTTATAATTATGATATGAGAGCATAATAGTCAAT--TT-TATGAAAAATAGG
1 TATTTTCATAATTATGATATGAGAGTATTATAGTAAATAATTATAAGAGAAATAGA
** * * * *
11142181 TATTTTTGTAATTATAATGTGAGATTATTATACTAAATAATTATAAGAG-AATAGA
1 TATTTTCATAATTATGATATGAGAGTATTATAGTAAATAATTATAAGAGAAATAGA
*
11142236 TATTTTCAAAATTATGATATGAG
1 TATTTTCATAATTATGATATGAG
11142259 GACAAAATAT
Statistics
Matches: 102, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
52 8 0.08
53 33 0.32
55 56 0.55
56 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (56 bp):
TATTTTCATAATTATGATATGAGAGTATTATAGTAAATAATTATAAGAGAAATAGA
Found at i:11142853 original size:188 final size:189
Alignment explanation
Indices: 11142506--11142874 Score: 618
Period size: 188 Copynumber: 2.0 Consensus size: 189
11142496 AATATATTTA
*
11142506 AATTGTATATGTATATATTGACAAATTTACGAAGGATTTGTTAAAATTAATTGTTTATATAACGT
1 AATTGTATATGTATATATTGACAAATTTACGAAGGATTTGTTAAAATTAATTGTTTATATAACAT
*
11142571 AGCACGAAAGCATTTTTAAAGTAAAATTAAAAGTAAACAACATGAAGATCATTAGTAGAATATTT
66 AGCACGAAAGCATTTTTAAAGTAAAAGTAAAAGTAAACAACATGAAGATCATTAGTAGAATATTT
* *
11142636 GTTTGGTTTGATTGAGATGATGAAACATTATATATCACAATTGGTAATTTTTTAAAATT
131 GTTTGGTGTGATTGAGATGATGAAACATTATATATCACAATTGGCAATTTTTTAAAATT
*
11142695 AATTGTATATGTATATATTGACAAATTTACTAAGGATTT-TTAAAAATTAATTGTTTATATAACA
1 AATTGTATATGTATATATTGACAAATTTACGAAGGATTTGTT-AAAATTAATTGTTTATATAACA
* * * *
11142759 TAGCAGGAAAGCA-TTTTGAAGTAAAAGTAAAAGTAAGCAACATGAAGATCATTGGTAGAATATT
65 TAGCACGAAAGCATTTTTAAAGTAAAAGTAAAAGTAAACAACATGAAGATCATTAGTAGAATATT
11142823 TGTTTGG-GTGAATTGAGATGATGAAACATTATATATCACAATTGGCAATTTT
130 TGTTTGGTGTG-ATTGAGATGATGAAACATTATATATCACAATTGGCAATTTT
11142875 AAATATGATA
Statistics
Matches: 169, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
187 2 0.01
188 96 0.57
189 71 0.42
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.37
Consensus pattern (189 bp):
AATTGTATATGTATATATTGACAAATTTACGAAGGATTTGTTAAAATTAATTGTTTATATAACAT
AGCACGAAAGCATTTTTAAAGTAAAAGTAAAAGTAAACAACATGAAGATCATTAGTAGAATATTT
GTTTGGTGTGATTGAGATGATGAAACATTATATATCACAATTGGCAATTTTTTAAAATT
Found at i:11162063 original size:16 final size:16
Alignment explanation
Indices: 11162042--11162076 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11162032 ATACAAGCTC
11162042 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11162058 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
11162074 ATA
1 ATA
11162077 TGTCATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:11183184 original size:21 final size:20
Alignment explanation
Indices: 11183156--11183194 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11183146 CTCACTTTGA
11183156 ACTTCTTA-ATTCAATTTTTT
1 ACTTCTTAGATTC-ATTTTTT
11183176 ACTTGCTTAGATTCATTTT
1 ACTT-CTTAGATTCATTTT
11183195 CTTGCCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.56
Consensus pattern (20 bp):
ACTTCTTAGATTCATTTTTT
Found at i:11184980 original size:50 final size:49
Alignment explanation
Indices: 11184903--11185201 Score: 265
Period size: 49 Copynumber: 6.2 Consensus size: 49
11184893 GTCTTTCAAA
* * *
11184903 ACTTTTCAAAAAGA-TATTTTAAAGTCACTTGCCTATATCTATAGAAGC
1 ACTTTTCAAAAAGAGTTTTTTAAAGTCACTTGCCTATGTCTATAGGAGC
** *
11184951 ACTTTTCAAATTGAGTTTTATTAAAGTCACTTGCCTACGTCTATAGGAGC
1 ACTTTTCAAAAAGAGTTTT-TTAAAGTCACTTGCCTATGTCTATAGGAGC
* * *
11185001 ACCCTTTCAAAAAGAGATATTTAAAGTCAC-T---TATGTCTATAGGAGC
1 A-CTTTTCAAAAAGAGTTTTTTAAAGTCACTTGCCTATGTCTATAGGAGC
* * * *
11185047 A-TCTTTCAAAAAGAGATTTTTT-AAGTCACTTACCTAGGTTTATTGGAGC
1 ACT-TTTCAAAAAGAG-TTTTTTAAAGTCACTTGCCTATGTCTATAGGAGC
* * ** *
11185096 ACTTTTTAAAAAAAAATTTTTAAAGTCACTTGCCTAT-ACTTATAGGAGC
1 ACTTTTCAAAAAGAGTTTTTTAAAGTCACTTGCCTATGTC-TATAGGAGC
** * ** *
11185145 ACTTTTCAAATTGAAATTTTTTAAAGTCACTTATCTATGTATATAGG-GC
1 ACTTTTCAAAAAG-AGTTTTTTAAAGTCACTTGCCTATGTCTATAGGAGC
11185194 ACTTTTCA
1 ACTTTTCA
11185202 TATTGAGATT
Statistics
Matches: 201, Mismatches: 36, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
45 19 0.09
46 20 0.10
48 17 0.08
49 66 0.33
50 66 0.33
51 13 0.06
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (49 bp):
ACTTTTCAAAAAGAGTTTTTTAAAGTCACTTGCCTATGTCTATAGGAGC
Found at i:11185061 original size:45 final size:46
Alignment explanation
Indices: 11184989--11185078 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 46
11184979 ACTTGCCTAC
11184989 GTCTATAGGAGCACCCTTTCAAAAAGAGATATTTAAAGTCACTTAT
1 GTCTATAGGAGCACCCTTTCAAAAAGAGATATTTAAAGTCACTTAT
* * *
11185035 GTCTATAGGAGCA-TCTTTCAAAAAGAGATTTTTTAAGTCACTTA
1 GTCTATAGGAGCACCCTTTCAAAAAGAGATATTTAAAGTCACTTA
11185079 CCTAGGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 28 0.68
46 13 0.32
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (46 bp):
GTCTATAGGAGCACCCTTTCAAAAAGAGATATTTAAAGTCACTTAT
Found at i:11189785 original size:83 final size:84
Alignment explanation
Indices: 11189615--11189787 Score: 197
Period size: 83 Copynumber: 2.1 Consensus size: 84
11189605 TATCCAAAGT
* * ** *
11189615 AGCATATGTTAAAAGATGAGTAAGATTTATAAGGCCTCTGAGCAAAATCTATAAAACTTTTAGGC
1 AGCATATGTTAAAAGATGAGTAAGATCTATAAGACCTCCAAGCAAAATCTATAAAACTTTTAGGA
* **
11189680 ATAATTTTAAAGTTCTCCA
66 ATAATCTTAAAGGCCTCCA
* * *
11189699 AGCATAT-TTAAAAGATGAGTAAGATCTATAAGACCTCCAAGCATAATCTATAAGA-TTTTCGAG
1 AGCATATGTTAAAAGATGAGTAAGATCTATAAGACCTCCAAGCAAAATCTATAAAACTTTTAG-G
* * *
11189762 AATAATCTTCATGGCCTCTA
65 AATAATCTTAAAGGCCTCCA
11189782 AGCATA
1 AGCATA
11189788 ATCTTTAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
82 5 0.07
83 62 0.84
84 7 0.09
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (84 bp):
AGCATATGTTAAAAGATGAGTAAGATCTATAAGACCTCCAAGCAAAATCTATAAAACTTTTAGGA
ATAATCTTAAAGGCCTCCA
Found at i:11190021 original size:32 final size:32
Alignment explanation
Indices: 11189971--11190059 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 32
11189961 CAATCACTTC
* *
11189971 TTATTTATGACCTTGGCTTAGTTTGACCA-CT
1 TTATTTTTAACCTTGGCTTAGTTTGACCATCT
**
11190002 TTCATTTTTAACCTTGGCTTAGTTTGGTCATCT
1 TT-ATTTTTAACCTTGGCTTAGTTTGACCATCT
* **
11190035 TTATTTTTTATTTTGGCTTAGTTTG
1 TTATTTTTAACCTTGGCTTAGTTTG
11190060 GTCACCTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 2 0.04
32 43 0.88
33 4 0.08
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.54
Consensus pattern (32 bp):
TTATTTTTAACCTTGGCTTAGTTTGACCATCT
Found at i:11190060 original size:32 final size:32
Alignment explanation
Indices: 11189980--11190071 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
11189970 CTTATTTATG
**
11189980 ACCTTGGCTTAGTTTGACCACTTTCATTTTTA
1 ACCTTGGCTTAGTTTGGTCACTTTCATTTTTA
*
11190012 ACCTTGGCTTAGTTTGGTCATCTTT-ATTTTTT
1 ACCTTGGCTTAGTTTGGTCA-CTTTCATTTTTA
** *
11190044 ATTTTGGCTTAGTTTGGTCACCTTCATT
1 ACCTTGGCTTAGTTTGGTCACTTTCATT
11190072 CTTGACCCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.06
32 45 0.87
33 4 0.08
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (32 bp):
ACCTTGGCTTAGTTTGGTCACTTTCATTTTTA
Found at i:11190173 original size:33 final size:33
Alignment explanation
Indices: 11190136--11190261 Score: 137
Period size: 33 Copynumber: 3.8 Consensus size: 33
11190126 CACTTTTATA
*
11190136 TTTTGACTTCAGCTAAAAT-CAAGTCATATCATT
1 TTTTGACTTCAGCT-AAGTCCAAGTCATATCATT
** *
11190169 TTTTGACTTTGGCTAAGTCCAAGTTATATCATT
1 TTTTGACTTCAGCTAAGTCCAAGTCATATCATT
* ** *
11190202 TTTTTACTTTGGCTATGTCCAAGTCATATCATT
1 TTTTGACTTCAGCTAAGTCCAAGTCATATCATT
** *
11190235 TTTCAACTTCAGCTAAGTCTAAGTCAT
1 TTTTGACTTCAGCTAAGTCCAAGTCAT
11190262 TTTATCAAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 3 0.04
33 76 0.96
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (33 bp):
TTTTGACTTCAGCTAAGTCCAAGTCATATCATT
Found at i:11190273 original size:13 final size:13
Alignment explanation
Indices: 11190255--11190279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11190245 AGCTAAGTCT
11190255 AAGTCATTTTATC
1 AAGTCATTTTATC
11190268 AAGTCATTTTAT
1 AAGTCATTTTAT
11190280 TTTCCAACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
AAGTCATTTTATC
Found at i:11190293 original size:46 final size:46
Alignment explanation
Indices: 11190221--11190309 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
11190211 TGGCTATGTC
* * * *
11190221 CAAGTCATATCATTTTTCAACTTCAGCTAAGTCTAAGTCATTTTAT
1 CAAGTCATATCATTTTCCAACCTCAGCTAAGACCAAGTCATTTTAT
* *
11190267 CAAGTCATTTTATTTTCCAACCTCAGCTAAGACCAAGTCATTT
1 CAAGTCATATCATTTTCCAACCTCAGCTAAGACCAAGTCATTT
11190310 CATTTTTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (46 bp):
CAAGTCATATCATTTTCCAACCTCAGCTAAGACCAAGTCATTTTAT
Found at i:11190509 original size:103 final size:103
Alignment explanation
Indices: 11190312--11190512 Score: 253
Period size: 103 Copynumber: 2.0 Consensus size: 103
11190302 AGTCATTTCA
* * **
11190312 TTTTTAGACTTTAGCTAAGTCCAAGTCATGTAATCTTATTTTCTGACTTTTGTTCAATCCAAGTC
1 TTTTTAGACTTTAGCTAAGTCCAAATCATGTAATCTTATTTTCTGACCTCGGTTCAATCCAAGTC
* *
11190377 ATTCTTTTTGACTTCGACTTTATACAAGTCATTTTTTT
66 ATTCTTTTTAACTTCGACTCTATACAAGTCATTTTTTT
* * * * *
11190415 TTTTTAGA-TTTCAGCTAAGTCTAAATCATGTCATTTTATTTTTTGACCTCGGTTTAATCCAAGT
1 TTTTTAGACTTT-AGCTAAGTCCAAATCATGTAATCTTATTTTCTGACCTCGGTTCAATCCAAGT
* *
11190479 CATTCTTTTTAACTTTGGCTCTAT-CGAAGTCATT
65 CATTCTTTTTAACTTCGACTCTATAC-AAGTCATT
11190513 CATTTTAAAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
102 4 0.05
103 79 0.95
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.48
Consensus pattern (103 bp):
TTTTTAGACTTTAGCTAAGTCCAAATCATGTAATCTTATTTTCTGACCTCGGTTCAATCCAAGTC
ATTCTTTTTAACTTCGACTCTATACAAGTCATTTTTTT
Found at i:11190773 original size:16 final size:16
Alignment explanation
Indices: 11190733--11190774 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
11190723 TAAAAACCTA
11190733 ATTTTTTTATTATTTT
1 ATTTTTTTATTATTTT
*
11190749 AATTTTTTATTA-TTT
1 ATTTTTTTATTATTTT
11190764 ATTTTATTTAT
1 ATTTT-TTTAT
11190775 CTTTATAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTATTATTTT
Found at i:11190803 original size:17 final size:17
Alignment explanation
Indices: 11190767--11190806 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11190757 ATTATTTATT
*
11190767 TTATTTATCTTTATAGG
1 TTATTTATCTTAATAGG
11190784 TTATTTATCTTAATTA-G
1 TTATTTATCTTAA-TAGG
11190801 TTATTT
1 TTATTT
11190807 TTATTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (17 bp):
TTATTTATCTTAATAGG
Found at i:11191575 original size:24 final size:24
Alignment explanation
Indices: 11191559--11191608 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
11191549 TTTATTTTTA
* *
11191559 TTTATTTAATTTATTTTATGTAAAT
1 TTTATTT-ATTCATTTTATTTAAAT
11191584 TTTATTTATTCATTTTATTTAAAT
1 TTTATTTATTCATTTTATTTAAAT
11191608 T
1 T
11191609 AATTTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTATTTATTCATTTTATTTAAAT
Found at i:11191588 original size:42 final size:43
Alignment explanation
Indices: 11191529--11191613 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
11191519 GCCATTGACC
* * * *
11191529 ATTTTTTGTAATTTTTATTT-TTTATTTTTATTT-ATTTAATTT
1 ATTTTATGTAAATTTTATTTATTCA-TTTTATTTAAATTAATTT
11191571 ATTTTATGTAAATTTTATTTATTCATTTTATTTAAATTAATTT
1 ATTTTATGTAAATTTTATTTATTCATTTTATTTAAATTAATTT
11191614 TTGTTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 26 0.70
43 11 0.30
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (43 bp):
ATTTTATGTAAATTTTATTTATTCATTTTATTTAAATTAATTT
Found at i:11191600 original size:13 final size:13
Alignment explanation
Indices: 11191541--11191604 Score: 58
Period size: 13 Copynumber: 4.7 Consensus size: 13
11191531 TTTTTGTAAT
11191541 TTTTATTT-TTTA
1 TTTTATTTATTTA
11191553 TTTTTATTTATTTA
1 -TTTTATTTATTTA
* *
11191567 ATTTATTTTATGTAAA
1 TTTTA-TTTAT-T-TA
*
11191583 TTTTATTTATTCA
1 TTTTATTTATTTA
11191596 TTTTATTTA
1 TTTTATTTA
11191605 AATTAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
13 22 0.51
14 10 0.23
15 6 0.14
16 5 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:11191615 original size:29 final size:29
Alignment explanation
Indices: 11191552--11191615 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
11191542 TTTATTTTTT
* *
11191552 ATTTTTATTTATTTAATTTATTTTATGTA
1 ATTTTTATTTATTCAATTTATTTAATGTA
* *
11191581 AATTTTATTTATTCATTTTATTTAAAT-TA
1 ATTTTTATTTATTCAATTTATTT-AATGTA
11191610 ATTTTT
1 ATTTTT
11191616 GTTAAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 27 0.93
30 2 0.07
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
ATTTTTATTTATTCAATTTATTTAATGTA
Found at i:11195517 original size:24 final size:25
Alignment explanation
Indices: 11195490--11195543 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
11195480 TATCAACCCG
*
11195490 ACATTAAATTCTTTGAT-AACATTA
1 ACATTAAATTCTCTGATCAACATTA
11195514 ACATTAAATTCTCTGATCAACATTA
1 ACATTAAATTCTCTGATCAACATTA
11195539 A-ATTA
1 ACATTA
11195544 TTTGATCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.39
Consensus pattern (25 bp):
ACATTAAATTCTCTGATCAACATTA
Found at i:11195537 original size:19 final size:19
Alignment explanation
Indices: 11195513--11195552 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11195503 TGATAACATT
*
11195513 AACATTAAATTCTCTGATC
1 AACATTAAATTATCTGATC
*
11195532 AACATTAAATTATTTGATC
1 AACATTAAATTATCTGATC
11195551 AA
1 AA
11195553 TCTGGCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
AACATTAAATTATCTGATC
Found at i:11199520 original size:13 final size:13
Alignment explanation
Indices: 11199502--11199528 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11199492 AATTTTAAGG
11199502 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
11199515 GTTTTAGGGTTTA
1 GTTTTAGGGTTTA
11199528 G
1 G
11199529 AGAGTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (13 bp):
GTTTTAGGGTTTA
Found at i:11202022 original size:37 final size:36
Alignment explanation
Indices: 11201981--11202102 Score: 102
Period size: 37 Copynumber: 3.3 Consensus size: 36
11201971 CTATTAAGAC
* *
11201981 AACACCATAAGTTGAAAAATAAAGAATCAACCGAGAT
1 AACACCACAAGTT-AAAAATAAAGAATCAATCGAGAT
* * * *
11202018 AACACCACAAGTTAAATAATAAATAAT-GATCAAGAC
1 AACACCACAAGTTAAA-AATAAAGAATCAATCGAGAT
*** * *
11202054 AACATTGCAAGTCAAAAAATAATGAATCAATCGAGAT
1 AACACCACAAGT-TAAAAATAAAGAATCAATCGAGAT
*
11202091 AACACCATAAGT
1 AACACCACAAGT
11202103 CGAATAGAAT
Statistics
Matches: 63, Mismatches: 19, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
36 25 0.40
37 38 0.60
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.19
Consensus pattern (36 bp):
AACACCACAAGTTAAAAATAAAGAATCAATCGAGAT
Found at i:11202470 original size:94 final size:94
Alignment explanation
Indices: 11202276--11202460 Score: 221
Period size: 94 Copynumber: 2.0 Consensus size: 94
11202266 GCTATGCTGG
* * * *** * ** *
11202276 GCTTAAAATTTTACTAGGGGCCAGATAAATTAGGTTTAAAATTTCTTTGGGGGCTAGGTTAACTA
1 GCTTAAAATTTTACTAGGGCCCAGATAAATTAGGTTTAAAACTTCCTTAAAGGCCAAATAAACTA
* *
11202341 GGCTTAAAATTAGATGCTAGGTAAACCAA
66 GGCATAAAATTAGATGCCAGGTAAACCAA
*
11202370 GCTTAAAATTTTACTAGGGCCCA-ACTAAATTGGGTTTAAAACTTCCTTAAAGGCCAAATAAACT
1 GCTTAAAATTTTACTAGGGCCCAGA-TAAATTAGGTTTAAAACTTCCTTAAAGGCCAAATAAACT
11202434 AGGCATAAAATTCA-ATGCCAGGTAAAC
65 AGGCATAAAATT-AGATGCCAGGTAAAC
11202461 TAGGTTTAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 1 0.01
94 74 0.97
95 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (94 bp):
GCTTAAAATTTTACTAGGGCCCAGATAAATTAGGTTTAAAACTTCCTTAAAGGCCAAATAAACTA
GGCATAAAATTAGATGCCAGGTAAACCAA
Found at i:11202519 original size:33 final size:33
Alignment explanation
Indices: 11202482--11202572 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
11202472 CTTCTTTGTT
*
11202482 GCCAGTTAAACTAAGCTTAAAATTTTCTTA-GAG
1 GCCAGATAAACTAAGCTTAAAATTTTCTTATG-G
*
11202515 GCCAGAT-AACTTTAGCTTAAAATTTTCTTATGG
1 GCCAGATAAAC-TAAGCTTAAAATTTTCTTATGG
* * *
11202548 GCTAGATAAACTAGGCTTAAGATTT
1 GCCAGATAAACTAAGCTTAAAATTT
11202573 CTTTAGGAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.06
33 42 0.86
34 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (33 bp):
GCCAGATAAACTAAGCTTAAAATTTTCTTATGG
Found at i:11202618 original size:33 final size:32
Alignment explanation
Indices: 11202551--11202860 Score: 100
Period size: 33 Copynumber: 9.6 Consensus size: 32
11202541 CTTATGGGCT
* **
11202551 AGATAAACTAGGCTTAAGATTTCTTTAGGAGCC
1 AGATAAACTGGGCTTAA-ATTTCACTAGGAGCC
* *
11202584 AGCTAAACTGGGCTTAAATTTGCACTAGGTGCC
1 AGATAAACTGGGCTTAAATTT-CACTAGGAGCC
* * * * * *
11202617 AGATTACCTGGGCCTAAATTT--TTATGGTGCT
1 AGATAAACTGGGCTTAAATTTCACTA-GGAGCC
*
11202648 AGATAAATTGGGCTTAAGATTTC-CTTGAGG-GCC
1 AGATAAACTGGGCTTAA-ATTTCAC-T-AGGAGCC
* * * * **
11202681 AAATAAACTGGGCCTAAATTT--TTATGGTGTA
1 AGATAAACTGGGCTTAAATTTCACTA-GGAGCC
* ** *
11202712 AGATAAACTAGGCTTAAGATTTCTTTAAGG-GCT
1 AGATAAACTGGGCTTAA-ATTTCACT-AGGAGCC
* * *
11202745 AAATAAACTGGGCTTAACTTTCACTA-GTGCC
1 AGATAAACTGGGCTTAAATTTCACTAGGAGCC
* ** * *
11202776 A-AGTAAATTAAGCTTAAAATTTTACTAAGGA-CT
1 AGA-TAAACTGGGCTT-AAATTTCACT-AGGAGCC
* * * * * *
11202809 AGCTAAATTGGGTTTAAATTTCATTGGGTGCC
1 AGATAAACTGGGCTTAAATTTCACTAGGAGCC
* *
11202841 AAATAATCTGGGCTTAAATT
1 AGATAAACTGGGCTTAAATT
11202861 GGGTGTCAAT
Statistics
Matches: 203, Mismatches: 55, Indels: 39
0.68 0.19 0.13
Matches are distributed among these distances:
29 1 0.00
30 7 0.03
31 48 0.24
32 53 0.26
33 84 0.41
34 8 0.04
35 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (32 bp):
AGATAAACTGGGCTTAAATTTCACTAGGAGCC
Found at i:11202663 original size:64 final size:64
Alignment explanation
Indices: 11202624--11202757 Score: 207
Period size: 64 Copynumber: 2.1 Consensus size: 64
11202614 GCCAGATTAC
*
11202624 CTGGGCCTAAATTTTTATGGTGCT-AGATAAATTGGGCTTAAGATTTCCTTGAGGGCCAAATAAA
1 CTGGGCCTAAATTTTTATGGTG-TAAGATAAACTGGGCTTAAGATTTCCTTGAGGGCCAAATAAA
* * * *
11202688 CTGGGCCTAAATTTTTATGGTGTAAGATAAACTAGGCTTAAGATTTCTTTAAGGGCTAAATAAA
1 CTGGGCCTAAATTTTTATGGTGTAAGATAAACTGGGCTTAAGATTTCCTTGAGGGCCAAATAAA
11202752 CTGGGC
1 CTGGGC
11202758 TTAACTTTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 1 0.02
64 63 0.98
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (64 bp):
CTGGGCCTAAATTTTTATGGTGTAAGATAAACTGGGCTTAAGATTTCCTTGAGGGCCAAATAAA
Found at i:11202720 original size:31 final size:32
Alignment explanation
Indices: 11202624--11202757 Score: 102
Period size: 33 Copynumber: 4.2 Consensus size: 32
11202614 GCCAGATTAC
11202624 CTGGGCCTAAATTTTTATGGTGCT-AGATAAA
1 CTGGGCCTAAATTTTTATGGTGCTAAGATAAA
* * *
11202655 TTGGGCTTAAGATTTCCTTGA-GG-GCCAA-ATAAA
1 CTGGGCCTAA-ATTT--TT-ATGGTGCTAAGATAAA
11202688 CTGGGCCTAAATTTTTATGGTG-TAAGATAAA
1 CTGGGCCTAAATTTTTATGGTGCTAAGATAAA
* * *
11202719 CTAGGCTTAAGATTTCTTTAAGG-GCTAA-ATAAA
1 CTGGGCCTAA-A-TT-TTTATGGTGCTAAGATAAA
11202752 CTGGGC
1 CTGGGC
11202758 TTAACTTTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
29 1 0.01
30 6 0.07
31 22 0.27
32 9 0.11
33 28 0.35
34 14 0.17
35 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (32 bp):
CTGGGCCTAAATTTTTATGGTGCTAAGATAAA
Found at i:11202791 original size:64 final size:64
Alignment explanation
Indices: 11202624--11202797 Score: 154
Period size: 64 Copynumber: 2.7 Consensus size: 64
11202614 GCCAGATTAC
* * * * * ** *
11202624 CTGGGCCTAAATTTTTATGGTGCTAGATAAATTGGGCTTAAGATTTCCTTGAGGGCCAAATAAA
1 CTGGGCCTAAACTTTCATAGTGCAAGATAAACTAAGCTTAAGATTTCCTTAAGGGCCAAATAAA
* * * * * * *
11202688 CTGGGCCTAAATTTTTATGGTGTAAGATAAACTAGGCTTAAGATTTCTTTAAGGGCTAAATAAA
1 CTGGGCCTAAACTTTCATAGTGCAAGATAAACTAAGCTTAAGATTTCCTTAAGGGCCAAATAAA
* * *
11202752 CTGGG-CTTAACTTTCACTAGTGCCAAG-TAAATTAAGCTTAAAATTT
1 CTGGGCCTAAACTTTCA-TAGTG-CAAGATAAACTAAGCTTAAGATTT
11202798 TACTAAGGAC
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
63 8 0.09
64 82 0.88
65 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (64 bp):
CTGGGCCTAAACTTTCATAGTGCAAGATAAACTAAGCTTAAGATTTCCTTAAGGGCCAAATAAA
Done.