Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 128 of 129
Found at i:22658198 original size:2 final size:2
Alignment explanation
Indices: 22658191--22658218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22658181 TCTGTCTGTA
22658191 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22658219 GCAGAGACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22658823 original size:17 final size:18
Alignment explanation
Indices: 22658791--22658825 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22658781 CGTTATTTTT
*
22658791 ATATTTATTTTTTTTATC
1 ATATTTATTATTTTTATC
22658809 ATATTTA-TATTTTTATC
1 ATATTTATTATTTTTATC
22658826 GTGTAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
ATATTTATTATTTTTATC
Found at i:22664534 original size:11 final size:11
Alignment explanation
Indices: 22664518--22664553 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22664508 CTCATAAATT
*
22664518 ATTTAAATTTA
1 ATTTAAATTAA
*
22664529 ATTTAAATAAA
1 ATTTAAATTAA
22664540 ATTTAAATTAA
1 ATTTAAATTAA
22664551 ATT
1 ATT
22664554 ATATTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:22664543 original size:16 final size:16
Alignment explanation
Indices: 22664522--22664552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22664512 TAAATTATTT
*
22664522 AAATTTAATTTAAATA
1 AAATTTAAATTAAATA
22664538 AAATTTAAATTAAAT
1 AAATTTAAATTAAAT
22664553 TATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAAATTAAATA
Found at i:22664691 original size:20 final size:20
Alignment explanation
Indices: 22664642--22664714 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
22664632 AACTCATAAA
22664642 TTTAATTAAATTTTTA-TAT
1 TTTAATTAAATTTTTATTAT
*
22664661 TTTTATATAAATTTTTATTAT
1 TTTAAT-TAAATTTTTATTAT
**
22664682 TTTAATTAAA-AATTATTAT
1 TTTAATTAAATTTTTATTAT
*
22664701 TTTATTTTAAATTT
1 TTTA-ATTAAATTT
22664715 AAATTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 16 0.37
20 19 0.44
21 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATTAAATTTTTATTAT
Found at i:22670251 original size:6 final size:6
Alignment explanation
Indices: 22670242--22670267 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22670232 TATGTATATG
22670242 TACATA TACATA TACATA TACATA TA
1 TACATA TACATA TACATA TACATA TA
22670268 TGCGACAGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
TACATA
Found at i:22671199 original size:19 final size:19
Alignment explanation
Indices: 22671172--22671222 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
22671162 TATTATATTT
*
22671172 GATTTATATTTTTAAAAAA
1 GATTAATATTTTTAAAAAA
*
22671191 GATTAATA-TTATAAAAAA
1 GATTAATATTTTTAAAAAA
*
22671209 TATTAATATCTTTT
1 GATTAATAT-TTTT
22671223 TAGTATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 16 0.62
19 7 0.27
20 3 0.12
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (19 bp):
GATTAATATTTTTAAAAAA
Found at i:22671449 original size:27 final size:26
Alignment explanation
Indices: 22671409--22671462 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
22671399 AAATATGATG
*
22671409 ATATTATTTAATTTAATTTTATTTATA
1 ATATTATTTAATTTAATCTTA-TTATA
* *
22671436 ATATTATTTTATTTTATCTTATTATA
1 ATATTATTTAATTTAATCTTATTATA
22671462 A
1 A
22671463 CAAACATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
ATATTATTTAATTTAATCTTATTATA
Found at i:22679165 original size:144 final size:144
Alignment explanation
Indices: 22678901--22679177 Score: 419
Period size: 144 Copynumber: 1.9 Consensus size: 144
22678891 TACATAATTA
* * * **
22678901 GCAGGAAAGTTAAGTTAATGAAAGAGGAAAGGGAATATGACATAAATGAAAGAGATGCAGCCCCT
1 GCAGGAAAGTTAAGTTAACGAAAGAGGAAAGGAAATATCACATAAATGAAAGAGATAAAGCCCCT
* * *
22678966 CAAAGGATGAAATAATGTGTATGAAAATGCACATCAACGAAACATATGGTTATTTTAACAGCATG
66 CAAAGGATGAAATAATGTGTATGAAAATGCACATCAACGAAACATACGATCATTTTAACAGCATG
22679031 TAGTTAGTATATAT
131 TAGTTAGTATATAT
* * *
22679045 GCAGGACAGTTAAGTTAGCGAAAGAGGAAAGGAAATATCACATAAATTAAAGAGATAAAGCCCCT
1 GCAGGAAAGTTAAGTTAACGAAAGAGGAAAGGAAATATCACATAAATGAAAGAGATAAAGCCCCT
* * * *
22679110 CACAGGATGAAATAATGTGTATGAAAATGCACATGAACGAAATATACGATCATTTTAACTGCATG
66 CAAAGGATGAAATAATGTGTATGAAAATGCACATCAACGAAACATACGATCATTTTAACAGCATG
22679175 TAG
131 TAG
22679178 CATATATATT
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
144 118 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (144 bp):
GCAGGAAAGTTAAGTTAACGAAAGAGGAAAGGAAATATCACATAAATGAAAGAGATAAAGCCCCT
CAAAGGATGAAATAATGTGTATGAAAATGCACATCAACGAAACATACGATCATTTTAACAGCATG
TAGTTAGTATATAT
Found at i:22689824 original size:20 final size:20
Alignment explanation
Indices: 22689799--22689837 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22689789 AGTCGGCTGT
22689799 TAATAACTTGTTATGGTATA
1 TAATAACTTGTTATGGTATA
22689819 TAATAACTTGTTATGGTAT
1 TAATAACTTGTTATGGTAT
22689838 CTTAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
TAATAACTTGTTATGGTATA
Found at i:22694768 original size:25 final size:25
Alignment explanation
Indices: 22694740--22694789 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
22694730 GCCTGTAGAA
22694740 AATGAACATGAGTCTT-TCTGTTCCT
1 AATGAACATGAGTCTTCT-TGTTCCT
* *
22694765 AATGAACTTGGGTCTTCTTGTTCCT
1 AATGAACATGAGTCTTCTTGTTCCT
22694790 TCTTCTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (25 bp):
AATGAACATGAGTCTTCTTGTTCCT
Found at i:22698565 original size:20 final size:20
Alignment explanation
Indices: 22698540--22698585 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
22698530 AAAATTAAAT
*
22698540 TATATATT-TTTATTAATTTA
1 TATATATTATTT-TAAATTTA
*
22698560 TATATATTATTTTAAATTTG
1 TATATATTATTTTAAATTTA
22698580 TATATA
1 TATATA
22698586 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATTATTTTAAATTTA
Found at i:22698645 original size:24 final size:25
Alignment explanation
Indices: 22698610--22698657 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
22698600 TTTTCATTTA
*
22698610 AATATATTAAAATTATA-TTAAAAT
1 AATATATTAAAAATATATTTAAAAT
22698634 AATAT-TTAAAAAATATATTTAAAA
1 AATATATT-AAAAATATATTTAAAA
22698658 AAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.62
25 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATATTAAAAATATATTTAAAAT
Found at i:22698648 original size:11 final size:12
Alignment explanation
Indices: 22698609--22698659 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 12
22698599 TTTTTCATTT
22698609 AAATATATT-AA
1 AAATATATTAAA
*
22698620 AATTATATTAAA
1 AAATATATTAAA
22698632 ATAATAT-TTAAA
1 A-AATATATTAAA
22698644 AAATATATTTAAA
1 AAATATA-TTAAA
22698657 AAA
1 AAA
22698660 AATTAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 13 0.38
12 9 0.26
13 12 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATATTAAA
Found at i:22698648 original size:14 final size:13
Alignment explanation
Indices: 22698609--22698659 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
22698599 TTTTTCATTT
22698609 AAATATA-TT-AA
1 AAATATATTTAAA
*
22698620 AATTATA-TTAAA
1 AAATATATTTAAA
*
22698632 ATA-ATATTTAAA
1 AAATATATTTAAA
22698644 AAATATATTTAAA
1 AAATATATTTAAA
22698657 AAA
1 AAA
22698660 AATTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 11 0.33
12 10 0.30
13 12 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATATATTTAAA
Found at i:22699142 original size:32 final size:33
Alignment explanation
Indices: 22699093--22699155 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
22699083 AACACAGCCA
22699093 CCCTCAAGCAAACATTAATTAATATTATTAAAC
1 CCCTCAAGCAAACATTAATTAATATTATTAAAC
*
22699126 CCCT-AAGCAAAGATTAATTAATATTATTAA
1 CCCTCAAGCAAACATTAATTAATATTATTAA
22699156 CAAATGCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (33 bp):
CCCTCAAGCAAACATTAATTAATATTATTAAAC
Found at i:22708479 original size:2 final size:2
Alignment explanation
Indices: 22708436--22708464 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22708426 TTGCCGCACT
22708436 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22708465 TTTTTTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22721883 original size:32 final size:32
Alignment explanation
Indices: 22721847--22721940 Score: 74
Period size: 32 Copynumber: 3.1 Consensus size: 32
22721837 GAATAAGTTA
22721847 ATAAAGATTGAAGATATCAAATACTACCATAT
1 ATAAAGATTGAAGATATCAAATACTACCATAT
* * * ** **
22721879 ATAAAAATT-ATGGTA-GGAATA--A-GTTA-
1 ATAAAGATTGAAGATATCAAATACTACCATAT
*
22721905 ATAAAGATTGAAGATATCAAACACTACCATAT
1 ATAAAGATTGAAGATATCAAATACTACCATAT
22721937 ATAA
1 ATAA
22721941 GAATTATGAT
Statistics
Matches: 41, Mismatches: 15, Indels: 12
0.60 0.22 0.18
Matches are distributed among these distances:
26 8 0.20
27 6 0.15
28 4 0.10
30 5 0.12
31 6 0.15
32 12 0.29
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.28
Consensus pattern (32 bp):
ATAAAGATTGAAGATATCAAATACTACCATAT
Found at i:22721923 original size:58 final size:58
Alignment explanation
Indices: 22721833--22721948 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
22721823 GGAGGAAGTT
*
22721833 GTAGGAATAAGTTAATAAAGATTGAAGATATCAAATACTACCATATATAAAAATTATG
1 GTAGGAATAAGTTAATAAAGATTGAAGATATCAAACACTACCATATATAAAAATTATG
*
22721891 GTAGGAATAAGTTAATAAAGATTGAAGATATCAAACACTACCATATATAAGAATTATG
1 GTAGGAATAAGTTAATAAAGATTGAAGATATCAAACACTACCATATATAAAAATTATG
22721949 ATTAGTTCTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (58 bp):
GTAGGAATAAGTTAATAAAGATTGAAGATATCAAACACTACCATATATAAAAATTATG
Found at i:22723956 original size:2 final size:2
Alignment explanation
Indices: 22723951--22723994 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
22723941 CTTTGCATTC
22723951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22723993 AT
1 AT
22723995 GCTTATTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22728419 original size:14 final size:15
Alignment explanation
Indices: 22728402--22728430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22728392 GATAATTATT
22728402 TTATTT-AAATATAA
1 TTATTTAAAATATAA
22728416 TTATTTAAAATATAA
1 TTATTTAAAATATAA
22728431 ATAAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTATTTAAAATATAA
Found at i:22732957 original size:2 final size:2
Alignment explanation
Indices: 22732950--22732974 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22732940 ATGAAGTGAT
22732950 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22732975 GATTTAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22740669 original size:12 final size:12
Alignment explanation
Indices: 22740652--22740684 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22740642 ATAATAAATT
22740652 TTTAAATTTTAA
1 TTTAAATTTTAA
*
22740664 TTTAAATTTGAA
1 TTTAAATTTTAA
22740676 -TTAAATTTT
1 TTTAAATTTT
22740685 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:22746310 original size:3 final size:3
Alignment explanation
Indices: 22746302--22746326 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22746292 GTCTTTGCTA
22746302 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
22746327 GGCTGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22748304 original size:29 final size:30
Alignment explanation
Indices: 22748254--22748345 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
22748244 AAAAGCTCTG
* * *
22748254 TTAACATAAAAAAAAATGTTT-AAGATTCAA
1 TTAA-ATAAAAATAAATATTTAAAGACTCAA
22748284 TTAAATAAAAATAAATATTTAAAGACTCAA
1 TTAAATAAAAATAAATATTTAAAGACTCAA
* * * * *
22748314 CTGATTAAAAATAAAAAATTTAAA-ACTAAA
1 TTAAATAAAAAT-AAATATTTAAAGACTCAA
22748344 TT
1 TT
22748346 GATTGGTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 14 0.27
30 27 0.53
31 10 0.20
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (30 bp):
TTAAATAAAAATAAATATTTAAAGACTCAA
Found at i:22754780 original size:13 final size:13
Alignment explanation
Indices: 22754762--22754787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22754752 GTTCAAAGAT
22754762 AACTTATTTTCAC
1 AACTTATTTTCAC
22754775 AACTTATTTTCAC
1 AACTTATTTTCAC
22754788 TATATTACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
AACTTATTTTCAC
Found at i:22757233 original size:23 final size:23
Alignment explanation
Indices: 22757203--22757253 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
22757193 GATGACCAAT
22757203 CTATCAAAGCTCCGTTCACTTGG
1 CTATCAAAGCTCCGTTCACTTGG
22757226 CTATCAAAGCTCCGTTCACTTGG
1 CTATCAAAGCTCCGTTCACTTGG
22757249 CTATC
1 CTATC
22757254 CAATCTGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (23 bp):
CTATCAAAGCTCCGTTCACTTGG
Found at i:22758058 original size:3 final size:3
Alignment explanation
Indices: 22758050--22758083 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
22758040 CACACATTTC
22758050 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
22758084 CTTCATGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:22759278 original size:22 final size:20
Alignment explanation
Indices: 22759252--22759302 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
22759242 GTACTCATTT
22759252 TTTTATATTAAATAAATAAA
1 TTTTATATTAAATAAATAAA
* * *
22759272 TAATTTATGTTTAATATATAAA
1 T--TTTATATTAAATAAATAAA
22759294 TTTTATATT
1 TTTTATATT
22759303 TATCATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTTATATTAAATAAATAAA
Found at i:22759329 original size:31 final size:31
Alignment explanation
Indices: 22759307--22759372 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
22759297 TATATTTATC
*
22759307 ATAAATCAGATAATATTATTTTATTAATAAA
1 ATAAATCAAATAATATTATTTTATTAATAAA
*
22759338 ATAAATCAAATAATATTATCTTATTAAT-AA
1 ATAAATCAAATAATATTATTTTATTAATAAA
22759368 ATAAA
1 ATAAA
22759373 ATTTTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (31 bp):
ATAAATCAAATAATATTATTTTATTAATAAA
Found at i:22759414 original size:28 final size:27
Alignment explanation
Indices: 22759374--22759429 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
22759364 ATAAATAAAA
22759374 TTTTTAAAAATATTAATTATTTATATAT
1 TTTTTAAAAATATTAA-TATTTATATAT
* * *
22759402 TTTTTTAAAATATTGATATTTATTTAT
1 TTTTTAAAAATATTAATATTTATATAT
22759429 T
1 T
22759430 AATAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTTAAAAATATTAATATTTATATAT
Found at i:22763915 original size:41 final size:42
Alignment explanation
Indices: 22763870--22763967 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 42
22763860 AAATAACAGA
*
22763870 AAGACGGTGGATGAAAGCGATGAACTTTGAACTT-TTTCTAG
1 AAGACGGTGGATGAAAGCAATGAACTTTGAACTTCTTTCTAG
* *
22763911 AAGACAGTGGATGAAAGCAATGAGCTTTGAACTTCTTTCTAG
1 AAGACGGTGGATGAAAGCAATGAACTTTGAACTTCTTTCTAG
* *
22763953 AGGACGATGGATGAA
1 AAGACGGTGGATGAA
22763968 GATATAGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 31 0.62
42 19 0.38
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (42 bp):
AAGACGGTGGATGAAAGCAATGAACTTTGAACTTCTTTCTAG
Found at i:22781854 original size:1 final size:1
Alignment explanation
Indices: 22781848--22781879 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
22781838 GAGAGGCTGG
22781848 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22781880 AATGTTTCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22782411 original size:6 final size:6
Alignment explanation
Indices: 22782400--22782427 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22782390 TGGTAGAGTA
22782400 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
22782428 TGTATTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:22782569 original size:15 final size:14
Alignment explanation
Indices: 22782546--22782614 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
22782536 TAATATATTT
22782546 ATATAATTTTTATAA
1 ATATAATTTTTA-AA
*
22782561 ATATCATTTTTAAA
1 ATATAATTTTTAAA
*
22782575 ATAAAAATTTATT-AA
1 AT-ATAATTT-TTAAA
*
22782590 ATTTAATTAATTTAAA
1 ATATAATT--TTTAAA
*
22782606 ATAAAATTT
1 ATATAATTT
22782615 ATATTATTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
14 9 0.21
15 22 0.52
16 11 0.26
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATAATTTTTAAA
Found at i:22782624 original size:20 final size:20
Alignment explanation
Indices: 22782588--22782630 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
22782578 AAAATTTATT
22782588 AAATTTAATTAATTTAAAATA
1 AAATTTAATTAATTT-AAATA
22782609 AAATTTATATT-A-TTAAATA
1 AAATTTA-ATTAATTTAAATA
22782628 AAA
1 AAA
22782631 AATTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 8 0.38
22 3 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTTAATTAATTTAAATA
Found at i:22782640 original size:19 final size:20
Alignment explanation
Indices: 22782604--22782646 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
22782594 AATTAATTTA
*
22782604 AAAT-AAAATTTATATTATT
1 AAATAAAAAATTATATTATT
22782623 AAATAAAAAATTAT-TTATT
1 AAATAAAAAATTATATTATT
*
22782642 TAATA
1 AAATA
22782647 TATATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATAAAAAATTATATTATT
Found at i:22786744 original size:10 final size:10
Alignment explanation
Indices: 22786729--22786754 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22786719 CTCTTCTCTT
22786729 TTTTTTTTTA
1 TTTTTTTTTA
22786739 TTTTTTTTTA
1 TTTTTTTTTA
22786749 TTTTTT
1 TTTTTT
22786755 ATCTATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:22790953 original size:2 final size:2
Alignment explanation
Indices: 22790941--22790977 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
22790931 CATACTCATG
* *
22790941 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22790978 TCAGGTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:22796520 original size:28 final size:31
Alignment explanation
Indices: 22796488--22796546 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
22796478 GCCAGACTGC
*
22796488 ATAAATTTT-GAAA-TTTTTT-GATAAATAA
1 ATAAATTTTCAAAATTTTTTTAGATAAATAA
22796516 ATAAATTTTCAAAATTTTTTTAGATAAATAA
1 ATAAATTTTCAAAATTTTTTTAGATAAATAA
22796547 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 3 0.11
30 6 0.22
31 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (31 bp):
ATAAATTTTCAAAATTTTTTTAGATAAATAA
Found at i:22796542 original size:27 final size:27
Alignment explanation
Indices: 22796488--22796555 Score: 79
Period size: 28 Copynumber: 2.6 Consensus size: 27
22796478 GCCAGACTGC
*
22796488 ATAAATTTTGAAATTTTTTGATAAATAA
1 ATAAATTTTAAAATTTTTT-ATAAATAA
*
22796516 ATAAATTTTCAAAATTTTTT-TAGATAA
1 ATAAATTTT-AAAATTTTTTATAAATAA
22796543 AT-AA-TTTAAAATT
1 ATAAATTTTAAAATT
22796556 AAAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
24 6 0.16
25 3 0.08
26 2 0.05
27 8 0.22
28 9 0.24
29 9 0.24
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (27 bp):
ATAAATTTTAAAATTTTTTATAAATAA
Found at i:22799730 original size:14 final size:14
Alignment explanation
Indices: 22799713--22799739 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22799703 TATATAATTT
22799713 ATAATAATAATAAC
1 ATAATAATAATAAC
22799727 ATAATAATAATAA
1 ATAATAATAATAA
22799740 TAAATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATAATAATAAC
Found at i:22799750 original size:17 final size:17
Alignment explanation
Indices: 22799713--22799746 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22799703 TATATAATTT
22799713 ATAATAATAATAACATA
1 ATAATAATAATAACATA
22799730 ATAATAATAATAA-ATA
1 ATAATAATAATAACATA
22799746 A
1 A
22799747 ATAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAATAATAACATA
Found at i:22799976 original size:15 final size:15
Alignment explanation
Indices: 22799956--22800002 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
22799946 ACTCACAAAC
22799956 AATATATAAAATTAA
1 AATATATAAAATTAA
* *
22799971 AATATAT-ACATTGAT
1 AATATATAAAATT-AA
22799986 AATATATTAAAATTAA
1 AATATA-TAAAATTAA
22800002 A
1 A
22800003 CTTTAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 4 0.16
15 14 0.56
16 3 0.12
17 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
AATATATAAAATTAA
Found at i:22800101 original size:19 final size:19
Alignment explanation
Indices: 22800056--22800106 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
22800046 TATTGTAATT
22800056 ATTTAA-TTAT-AATAAAA
1 ATTTAATTTATAAATAAAA
* *
22800073 ATTATGATTTATAAATATAA
1 ATT-TAATTTATAAATAAAA
22800093 ATTTAATTTA-AAAT
1 ATTTAATTTATAAAT
22800107 TTTAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.11
18 6 0.21
19 10 0.36
20 9 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTAATTTATAAATAAAA
Found at i:22802335 original size:2 final size:2
Alignment explanation
Indices: 22802328--22802373 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
22802318 CTGCTCCTGC
22802328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
22802367 GT AT AT A
1 AT AT AT A
22802374 AATAAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22803838 original size:3 final size:3
Alignment explanation
Indices: 22803830--22803870 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
22803820 TGCTGTCAGA
* * *
22803830 ATT ATT ATT ATT ATA ATT ATT CTT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22803871 AATATTTGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:22804795 original size:2 final size:2
Alignment explanation
Indices: 22804788--22804820 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22804778 TTTGTTGGAC
22804788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22804821 CATACCTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22805049 original size:3 final size:3
Alignment explanation
Indices: 22805041--22805069 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22805031 ATAATTTTAT
22805041 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
22805070 GTTTTGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22805224 original size:2 final size:2
Alignment explanation
Indices: 22805217--22805249 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22805207 GCCTCCGACA
22805217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22805250 ACGTACCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22810523 original size:61 final size:62
Alignment explanation
Indices: 22810458--22810575 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
22810448 ATTTTATAAA
* ** * *
22810458 AAAAAAGCCTTCAATAATCC-C-ATGTAATTTTTTTAGGGGATTATTGAAGGTATTTTTCACT
1 AAAAAAGCCTTCAATAATCCTCTACG-AATTTTTGAAAGAGATTATTGAAGGTATTTTTCACT
* *
22810519 AAAAACGCTTTCAATAATCCTCTACGAATTTTTGAAAGAGATTATTGAAGGTATTTT
1 AAAAAAGCCTTCAATAATCCTCTACGAATTTTTGAAAGAGATTATTGAAGGTATTTT
22810576 CTGCAAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 18 0.38
62 28 0.58
63 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (62 bp):
AAAAAAGCCTTCAATAATCCTCTACGAATTTTTGAAAGAGATTATTGAAGGTATTTTTCACT
Found at i:22810735 original size:62 final size:62
Alignment explanation
Indices: 22810590--22810735 Score: 168
Period size: 62 Copynumber: 2.3 Consensus size: 62
22810580 AAAAAATGTA
* *
22810590 TTCAATAATTTTTTTTAAAAAAATTTCAAGAGATTATTGAAAGCATTTTTGAATAAAAACAAC
1 TTCAATAA-TTTTTTTAAAAAAATTACAAGAGATTATTGAAAGCATTTTAGAATAAAAACAAC
* *** * * * *
22810653 TTCAACAATCCCTTGAAAAAAATTACATGAGATTATTGAAAGCGATTTTAGCA-AAAAACACC
1 TTCAATAATTTTTTTAAAAAAATTACAAGAGATTATTGAAAGC-ATTTTAGAATAAAAACAAC
*
22810715 TTCAATAATTTTTTTCAAAAA
1 TTCAATAATTTTTTTAAAAAA
22810736 TTTTTAGGGG
Statistics
Matches: 66, Mismatches: 16, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
62 52 0.79
63 14 0.21
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (62 bp):
TTCAATAATTTTTTTAAAAAAATTACAAGAGATTATTGAAAGCATTTTAGAATAAAAACAAC
Found at i:22810968 original size:125 final size:122
Alignment explanation
Indices: 22810560--22811129 Score: 409
Period size: 125 Copynumber: 4.6 Consensus size: 122
22810550 TTGAAAGAGA
* ** *** * * * *
22810560 TTATTGAAGGTATTTTCTGCAAAAAATGTATTCAATAATTTTTTTTAAAAAAATTTCAAGAGATT
1 TTATTGAAGGTATTTTATAAAAAAAATACCTTTAATAA-TTTTTTT-AAAAATTTTTAAGGGATT
* * * * * * * * * *
22810625 ATTGAAAGCATTTTTGAATAAAAACAACTTCAACAATCCCTTGA-AAAAAATT-ACATGAGA
64 ATTGAAGGCGTTATTGACTAAATAC--CTTTAATAATCCCTTGATAAAAAATTGAAAAG-GT
** * * *
22810685 TTATTGAAAGCG-ATTTTA-GCAAAAAACACCTTCAATAATTTTTTTCAAAAATTTTTAGGGGAT
1 TTATTG-AAG-GTATTTTATAAAAAAAATACCTTTAATAATTTTTTT-AAAAATTTTTAAGGGAT
** * * * * * *
22810748 TATTGAAGGTATTTTTGACTAAATGCCTTCAATAATCCCCTAATAAAAAATT-AGAGAGGT
63 TATTGAAGGCGTTATTGACTAAATACCTTTAATAATCCCTTGATAAAAAATTGA-AAAGGT
* * * * * *
22810808 TTATTGAAAGCATTTTTTGTAAAAAAATACCTTTAATAATTTGTTTAAAAATTTTTAGGGGATTA
1 TTATTGAAGGTATTTTAT-AAAAAAAATACCTTTAATAATTTTTTTAAAAATTTTTAAGGGATTA
22810873 TTGAAGGCGTTATTGACTAAAAATACCTTTAATAATCCCTTGATAAAAAATTGAAAAGGT
65 TTGAAGGCGTTATTGACT--AAATACCTTTAATAATCCCTTGATAAAAAATTGAAAAGGT
* * * * * * * *
22810933 TTATCGAAGGTGTTTTCTACAAAAAAATGCTTTTAATAATTTCCTTCAAAAATTTTCAAGGGATT
1 TTATTGAAGGTATTTTATA-AAAAAAATACCTTTAATAATTT-TTTTAAAAATTTTTAAGGGATT
* * *
22810998 ATTGAAGGCGTTAGTGACTCAAA-ACTCTTTCAATAAT-CCTCTGATACAAAATTGTAAAA-GA
64 ATTGAAGGCGTTATTGACT-AAATAC-CTTT-AATAATCCCT-TGATAAAAAATTG-AAAAGGT
* * * *
22811059 TTATTGAAGGCATTTTTTATAAAAAAAATACCTTCAATAATTTTTTTAAAATTTTTTAAGAGATT
1 TTATTGAAGG--TATTTTATAAAAAAAATACCTTTAATAATTTTTTTAAAAATTTTTAAGGGATT
22811124 ATTGAA
64 ATTGAA
22811130 AGTGTTTATA
Statistics
Matches: 363, Mismatches: 64, Indels: 35
0.79 0.14 0.08
Matches are distributed among these distances:
121 1 0.00
122 21 0.06
123 50 0.14
124 66 0.18
125 98 0.27
126 96 0.26
127 24 0.07
128 7 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (122 bp):
TTATTGAAGGTATTTTATAAAAAAAATACCTTTAATAATTTTTTTAAAAATTTTTAAGGGATTAT
TGAAGGCGTTATTGACTAAATACCTTTAATAATCCCTTGATAAAAAATTGAAAAGGT
Found at i:22811156 original size:126 final size:122
Alignment explanation
Indices: 22810705--22811160 Score: 393
Period size: 126 Copynumber: 3.6 Consensus size: 122
22810695 CGATTTTAGC
* * **
22810705 AAAAAACACCTTCAATAATTTTTTTCAAAAATTTTTAGGGGATTATTGAA-G-G-TATTTTTGAC
1 AAAAAATACCTTCAATAATTTTTTT-AAAAATTTTTAAGGGATTATTGAAGGCGTTATAGTT-A-
* * * * * *
22810767 TAAATGCCTTCAATAATCCCCTAATAAAAAATTAGAGAGGTTTATTGAAAGCATTTTTTGT-A
63 AAAAT-CCTTCAATAAT-CCCTGATAAAAAATT-GAAAAGTTTATTGAAGGCATTTTTTATAA
* * * * *
22810829 AAAAAATACCTTTAATAATTTGTTTAAAAATTTTTAGGGGATTATTGAAGGCGTTATTGACTAAA
1 AAAAAATACCTTCAATAATTTTTTTAAAAATTTTTAAGGGATTATTGAAGGCGTTATAG-TTAAA
* * * *
22810894 AATACCTTTAATAATCCCTTGATAAAAAATTGAAAAGGTTTATCGAAGG--TGTTTTCTACA
65 AAT-CCTTCAATAATCCC-TGATAAAAAATTGAAAA-GTTTATTGAAGGCATTTTTTATA-A
* * * * * * * *
22810954 AAAAAATGCTTTTAATAATTTCCTTCAAAAATTTTCAAGGGATTATTGAAGGCGTTAGTGACTCA
1 AAAAAATACCTTCAATAATTT-TTTTAAAAATTTTTAAGGGATTATTGAAGGCGTTA-T-AGTTA
* * * *
22811019 AAACTCTTTCAATAATCCTCTGATACAAAATTGTAAAAGATTATTGAAGGCATTTTTTATAA
63 AAAATCCTTCAATAATCC-CTGATAAAAAATTG-AAAAGTTTATTGAAGGCATTTTTTATAA
* * * *
22811081 AAAAAATACCTTCAATAATTTTTTTAAAATTTTTTAAGAGATTATTGAAAGTGTTTATAGTTAAA
1 AAAAAATACCTTCAATAATTTTTTTAAAAATTTTTAAGGGATTATTGAAGGCG-TTATAGTTAAA
22811146 AATCCCTTCAATAAT
65 AAT-CCTTCAATAAT
22811161 ATTCAATGTA
Statistics
Matches: 268, Mismatches: 47, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
123 30 0.11
124 29 0.11
125 63 0.24
126 105 0.39
127 34 0.13
128 7 0.03
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (122 bp):
AAAAAATACCTTCAATAATTTTTTTAAAAATTTTTAAGGGATTATTGAAGGCGTTATAGTTAAAA
ATCCTTCAATAATCCCTGATAAAAAATTGAAAAGTTTATTGAAGGCATTTTTTATAA
Found at i:22813330 original size:3 final size:3
Alignment explanation
Indices: 22813316--22813378 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
22813306 AAAAATAAAG
*
22813316 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22813364 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
22813379 GGTGTCTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22813666 original size:97 final size:96
Alignment explanation
Indices: 22813498--22813695 Score: 258
Period size: 97 Copynumber: 2.1 Consensus size: 96
22813488 TTTTTAATTT
* *
22813498 AAAAAGCTCCTCTAATCAGAGGCTCAACAACTTAAAAATTTATTTTGAAAAAAGTTACTCTAAGC
1 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTAAAAATTTATTTTGAAAAAAGCTACTCTAAGC
* * *
22813563 AGAGGCTTAACAACTT-TAAAATTCTTCTTG
66 AAAGGCTTAACAACTTAAAAAATTCATCTTG
* * *
22813593 AAAAAGGCTCCTCTAAGCATAGGCTTAACAACTTTAAAAATTT-TTCTT-AAAAAATGCTCCTCT
1 AAAAA-GCTCCTCTAAGCAGAGGCTCAACAAC-TTAAAAATTTATT-TTGAAAAAA-GCTACTCT
*
22813656 AAGCAAAGGCTTAATAACTTAAAAAATTCATCTTG
62 AAGCAAAGGCTTAACAACTTAAAAAATTCATCTTG
22813691 AAAAA
1 AAAAA
22813696 AGGTTTTCCT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
95 5 0.06
96 31 0.35
97 36 0.40
98 17 0.19
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (96 bp):
AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTAAAAATTTATTTTGAAAAAAGCTACTCTAAGC
AAAGGCTTAACAACTTAAAAAATTCATCTTG
Found at i:22813774 original size:147 final size:144
Alignment explanation
Indices: 22813498--22813762 Score: 338
Period size: 147 Copynumber: 1.8 Consensus size: 144
22813488 TTTTTAATTT
* * * *
22813498 AAAAAGCTCCTCTAATCAGAGGCTCAACAACTTAAAAATTTATTTTGAAAAAAGTTACTCTAAGC
1 AAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTAAAAATTCATCTTGAAAAAAGTTACTCTAAGC
* * * *
22813563 AGAGGCTTAACAACTTTAAAATTCTTCTTGAAAAAGGCTCCTCTAAGCATAGGCTTAACAACTTT
66 AGAAGCTCAACAACTTTAAAATTCATCTTGAAAAAGGCTCCTCTAAGCAGAGGCTTAACAACTTT
22813628 AAAAATTTTTCTTA
131 AAAAATTTTTCTTA
* * *
22813642 AAAAATGCTCCTCTAAGCAAAGGCTTAATAACTTAAAAAATTCATCTTGAAAAAAGGTT-TTCCT
1 AAAAA-GCTCCTCTAAGCAAAGGCTCAACAACTT-AAAAATTCATCTTGAAAAAA-GTTACT-CT
* *
22813706 AAGC-GAAAGCTCAACAATTTTAAATATTCATCTTGAAAAA-GCTCCTCTAAGTAGAGG
62 AAGCAG-AAGCTCAACAACTTTAAA-ATTCATCTTGAAAAAGGCTCCTCTAAGCAGAGG
22813763 TTCAATAACT
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
144 5 0.05
145 24 0.24
146 20 0.20
147 39 0.38
148 14 0.14
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (144 bp):
AAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTAAAAATTCATCTTGAAAAAAGTTACTCTAAGC
AGAAGCTCAACAACTTTAAAATTCATCTTGAAAAAGGCTCCTCTAAGCAGAGGCTTAACAACTTT
AAAAATTTTTCTTA
Found at i:22813779 original size:49 final size:48
Alignment explanation
Indices: 22813498--22813762 Score: 257
Period size: 48 Copynumber: 5.5 Consensus size: 48
22813488 TTTTTAATTT
* * * *
22813498 AAAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTAAAAATTTATTTTG
1 AAAAAGCTCCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTG
* * *
22813545 AAAAAAGTTACTCTAAGCAGAGGCTTAACAACTTT-AAAATTCTTCTTG
1 -AAAAAGCTCCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTG
* ** *
22813593 AAAAAGGCTCCTCTAAGCATAGGCTTAACAACTTTAAAAATTTTTCTTA
1 AAAAA-GCTCCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTG
* * *
22813642 AAAAATGCTCCTCTAAGCAAAGGCTTAATAACTTAAAAAATTCATCTTG
1 AAAAA-GCTCCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTG
* ** * * * *
22813691 AAAAAAGGTTTTCCTAAGC-GAAAGCTCAACAATTTTAAATATTCATCTTG
1 -AAAAAGCTCCT-CTAAGCAG-AGGCTTAACAACTTTAAAAATTCATCTTG
*
22813741 AAAAAGCTCCTCTAAGTAGAGG
1 AAAAAGCTCCTCTAAGCAGAGG
22813763 TTCAATAACT
Statistics
Matches: 176, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
47 5 0.03
48 70 0.40
49 67 0.38
50 34 0.19
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (48 bp):
AAAAAGCTCCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTG
Found at i:22814012 original size:99 final size:95
Alignment explanation
Indices: 22813897--22814269 Score: 340
Period size: 99 Copynumber: 3.8 Consensus size: 95
22813887 GCAAATGATT
* * *
22813897 TTTAACACTCGAATATCACCACCAAAAAAATATGATTGACTTCGGATATTGTCATCGAAGGAAAC
1 TTTAACACTCGGATATCACCACC-AAAAAATATGATT-ACTTCGGATATCGTCA-CGAAAGAAAC
* *
22813962 TCGAATATCATCATTAAAAAAATATAATTCAAGC
63 TCGAATATCA-CATTAAAAAAATGTAATTTAAGC
* * *
22813996 TTTAACACTCGGATATCACCATC-GAAAATATGTAAATTACTTCGGATATCGCCACCGAAAGAAA
1 TTTAACACTCGGATATCACCACCAAAAAATATG---ATTACTTCGGATATCGTCA-CGAAAGAAA
22814060 CTCGAATATCACCA-TAAAAAAGATGTAATTTAAGC
62 CTCGAATATCA-CATTAAAAAA-ATGTAATTTAAGC
* * * *
22814095 TTTAACACTCGGATATCACCATC-GAGAATATGCAAATTACTTCGAATATCGTCACTGAAAGAAA
1 TTTAACACTCGGATATCACCACCAAAAAATATG---ATTACTTCGGATATCGTCAC-GAAAGAAA
**
22814159 CTCGAATATCACTATCGAAAAAATGTAATTTAAGC
62 CTCGAATATCAC-ATTAAAAAAATGTAATTTAAGC
* ** * * * * *
22814194 CTTAACACTTAGATATCACCACC-GAGAATATGCAAATAACTTCAGATATCATCATCGAAAGAAA
1 TTTAACACTCGGATATCACCACCAAAAAATATG---ATTACTTCGGATATCGTCA-CGAAAGAAA
*
22814258 CTCAAATATCAC
62 CTCGAATATCAC
22814270 TACTAAGAAT
Statistics
Matches: 241, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
97 8 0.03
98 9 0.04
99 215 0.89
100 9 0.04
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (95 bp):
TTTAACACTCGGATATCACCACCAAAAAATATGATTACTTCGGATATCGTCACGAAAGAAACTCG
AATATCACATTAAAAAAATGTAATTTAAGC
Found at i:22814270 original size:99 final size:97
Alignment explanation
Indices: 22813935--22814271 Score: 426
Period size: 99 Copynumber: 3.4 Consensus size: 97
22813925 AATATGATTG
* * * *
22813935 ACTTCGGATATTGTCATCGAAGGAAACTCGAATATCA-TCATTAAAAAAATATAATTCAAGCTTT
1 ACTTC-GATATCGTCATCGAAAGAAACTCGAATATCACT-A-TAAAAAAATGTAATTTAAGCTTT
* *
22813999 AACACTCGGATATCACCATCGAAAATATGTAAATT
63 AACACTCGGATATCACCATCGAGAATATGCAAATT
* * *
22814034 ACTTCGGATATCGCCACCGAAAGAAACTCGAATATCACCATAAAAAAGATGTAATTTAAGCTTTA
1 ACTTC-GATATCGTCATCGAAAGAAACTCGAATATCACTATAAAAAA-ATGTAATTTAAGCTTTA
22814099 ACACTCGGATATCACCATCGAGAATATGCAAATT
64 ACACTCGGATATCACCATCGAGAATATGCAAATT
* *
22814133 ACTTCGAATATCGTCA-CTGAAAGAAACTCGAATATCACTATCGAAAAAATGTAATTTAAGCCTT
1 ACTTCG-ATATCGTCATC-GAAAGAAACTCGAATATCACTAT-AAAAAAATGTAATTTAAGCTTT
** * *
22814197 AACACTTAGATATCACCACCGAGAATATGCAAATA
63 AACACTCGGATATCACCATCGAGAATATGCAAATT
* *
22814232 ACTTCAGATATCATCATCGAAAGAAACTCAAATATCACTA
1 ACTTC-GATATCGTCATCGAAAGAAACTCGAATATCACTA
22814272 CTAAGAATAT
Statistics
Matches: 212, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
98 9 0.04
99 196 0.92
100 7 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (97 bp):
ACTTCGATATCGTCATCGAAAGAAACTCGAATATCACTATAAAAAAATGTAATTTAAGCTTTAAC
ACTCGGATATCACCATCGAGAATATGCAAATT
Found at i:22814315 original size:57 final size:57
Alignment explanation
Indices: 22814218--22814326 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
22814208 ATCACCACCG
*
22814218 AGAATATGCAAATAACTTCAGATATCATCATCGAAAGAAACTCAAATATCACTACTA
1 AGAATATGCAAATAACTTCAGATATCACCATCGAAAGAAACTCAAATATCACTACTA
* * * * **
22814275 AGAATATGCAAATTACTTCGGATATTACCA-CTGAAGGAAACTTGAATATCAC
1 AGAATATGCAAATAACTTCAGATATCACCATC-GAAAGAAACTCAAATATCAC
22814327 CATAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.02
57 43 0.98
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (57 bp):
AGAATATGCAAATAACTTCAGATATCACCATCGAAAGAAACTCAAATATCACTACTA
Found at i:22814357 original size:255 final size:255
Alignment explanation
Indices: 22814022--22814524 Score: 659
Period size: 255 Copynumber: 2.0 Consensus size: 255
22814012 CACCATCGAA
* * *
22814022 AATATGTAAATTACTTCGGATATCGCCACCGAAAGAAACTCGAATATCACCATAAAAAAGATGTA
1 AATATGCAAATTACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATAAAAAAAATGTA
* * * * * ** *
22814087 ATTTAAGCTTTAACACTCGGATATCACCATCGAGAATATGCAAATTACTTCGAATATCGTCACTG
66 ATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATGACTTCAAATATCACCAC-C
* * * * * *
22814152 AAAG-AAACTCGAATATCACTATCGAAAAAATGTAATTTAAGCCTTAACACTTAG-ATATCACCA
130 AAAGAAAACTCAAATAACACCATCGAAAAAATGCAAATCAAGCCTTAACAC-TAGAATATCACCA
*
22814215 CCGAGAATATGCAAATAACTTCAGATATCATCATCGAAAGAAACTCAAATATCACTACTAAG
194 CCGAGAATATGCAAATAACTTCAGATATCACCATCGAAAGAAACTCAAATATCACTACTAAG
* * * *
22814277 AATATGCAAATTACTTCGGATATTACCACTGAAGGAAACTTGAATATCACCATAAAAAAAATGTA
1 AATATGCAAATTACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATAAAAAAAATGTA
*
22814342 ATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCACCA
66 ATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATGACTTCAAATATCACCACCA
* * * * *
22814407 AAGAAAACTCAAATAACACCATTGAGAAAATGCAAATCAAGCCTTAACACTCGAATATTACCATC
131 AAGAAAACTCAAATAACACCATCGAAAAAATGCAAATCAAGCCTTAACACTAGAATATCACCACC
* * ** * * *
22814472 GAGAATATGTAAATGACTTTGGATGTCACCATCGAAGGAAACTCGAATATCAC
196 GAGAATATGCAAATAACTTCAGATATCACCATCGAAAGAAACTCAAATATCAC
22814525 CATTGAGAAA
Statistics
Matches: 211, Mismatches: 35, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
254 6 0.03
255 205 0.97
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (255 bp):
AATATGCAAATTACTTCGGATATCACCACCGAAAGAAACTCGAATATCACCATAAAAAAAATGTA
ATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATGACTTCAAATATCACCACCA
AAGAAAACTCAAATAACACCATCGAAAAAATGCAAATCAAGCCTTAACACTAGAATATCACCACC
GAGAATATGCAAATAACTTCAGATATCACCATCGAAAGAAACTCAAATATCACTACTAAG
Found at i:22814415 original size:99 final size:99
Alignment explanation
Indices: 22814257--22814639 Score: 453
Period size: 99 Copynumber: 3.9 Consensus size: 99
22814247 ATCGAAAGAA
* * ** * * * * **
22814257 ACTCAAATATCACTACTAAGAATATGCAAATTACTTCGGATATTACCACTGAAGGAAACTTGAAT
1 ACTCAGATATCACCACCGAGAATATGTAAATGACTTCGGATATCACCACCGAAGGAAACTCAAAT
* * *
22814322 ATCACCATAAAAAAAATGTAATTTAAGCCTTAAC
66 ATCACCATTAAGAAAATGCAATTTAAGCCTTAAC
** * *
22814356 ACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCACCAAAGAAAACTCAAAT
1 ACTCAGATATCACCACCGAGAATATGTAAATGACTTCGGATATCACCACCGAAGGAAACTCAAAT
* * * *
22814421 AACACCATTGAGAAAATGCAAATCAAGCCTTAAC
66 ATCACCATTAAGAAAATGCAATTTAAGCCTTAAC
* * * * * *
22814455 ACTC-GAATATTACCATCGAGAATATGTAAATGACTTTGGATGTCACCATCGAAGGAAACTCGAA
1 ACTCAG-ATATCACCACCGAGAATATGTAAATGACTTCGGATATCACCACCGAAGGAAACTCAAA
*
22814519 TATCACCATTGAGAAAATGCAATTTAAGCCTTAAC
65 TATCACCATTAAGAAAATGCAATTTAAGCCTTAAC
* * * *
22814554 ACTCGGATATCACCACTGAGAATATGTGAATGACTTCGGATATCACCACCGAAGGAAATTCAAAT
1 ACTCAGATATCACCACCGAGAATATGTAAATGACTTCGGATATCACCACCGAAGGAAACTCAAAT
*
22814619 ATCACCATCAAGAAAATGCAA
66 ATCACCATTAAGAAAATGCAA
22814640 ATCACCTTTT
Statistics
Matches: 237, Mismatches: 45, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
98 1 0.00
99 235 0.99
100 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (99 bp):
ACTCAGATATCACCACCGAGAATATGTAAATGACTTCGGATATCACCACCGAAGGAAACTCAAAT
ATCACCATTAAGAAAATGCAATTTAAGCCTTAAC
Found at i:22814440 original size:156 final size:156
Alignment explanation
Indices: 22814111--22814443 Score: 461
Period size: 156 Copynumber: 2.1 Consensus size: 156
22814101 ACTCGGATAT
* ** * **
22814111 CACCATCGAGAATATGCAAATTACTTCGAATATCGTCACTGAAAGAAACTCGAATATCACTATCG
1 CACCATTGAGAATATGCAAATTACTTCGAATATCACCACTGAAAGAAACTCGAATATCACCATAA
* *
22814176 AAAAAATGTAATTTAAGCCTTAACACTTAGATATCACCACCGAGAATATGCAAATAACTTCAGAT
66 AAAAAATGTAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAAAT
* * *
22814241 ATCATCATCGAAAGAAACTCAAATAT
131 ATCACCATCCAAAGAAACTCAAATAA
* * * * * * *
22814267 CACTACTAAGAATATGCAAATTACTTCGGATATTACCACTGAAGGAAACTTGAATATCACCATAA
1 CACCATTGAGAATATGCAAATTACTTCGAATATCACCACTGAAAGAAACTCGAATATCACCATAA
* *
22814332 AAAAAATGTAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAAT
66 AAAAAATGTAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAAAT
22814397 ATCACCA-CCAAAGAAAACTCAAATAA
131 ATCACCATCCAAAG-AAACTCAAATAA
*
22814423 CACCATTGAGAAAATGCAAAT
1 CACCATTGAGAATATGCAAAT
22814444 CAAGCCTTAA
Statistics
Matches: 152, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
155 5 0.03
156 147 0.97
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (156 bp):
CACCATTGAGAATATGCAAATTACTTCGAATATCACCACTGAAAGAAACTCGAATATCACCATAA
AAAAAATGTAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAAAT
ATCACCATCCAAAGAAACTCAAATAA
Found at i:22814545 original size:198 final size:198
Alignment explanation
Indices: 22814275--22814643 Score: 533
Period size: 198 Copynumber: 1.9 Consensus size: 198
22814265 ATCACTACTA
* * *
22814275 AGAATATGCAAATTACTTCGGATATTACCACTGAAGGAAACTTGAATATCACCATAAAAAAAATG
1 AGAATATGCAAATGACTTCGGATATCACCACTGAAGGAAACTCGAATATCACCATAAAAAAAATG
*
22814340 TAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCAC
66 CAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCAC
**
22814405 CAAAGAAAACTCAAATAACACCATTGAGAAAATGCAAATCAAGCCTTAACACTCGAATATTACCA
131 CAAAGAAAACTCAAATAACACCATCAAGAAAATGCAAATCAAGCCTTAACACTCGAATATTACCA
22814470 TCG
196 TCG
* * * ** *
22814473 AGAATATGTAAATGACTTTGGATGTCACCA-TCGAAGGAAACTCGAATATCACCATTGAGAAAAT
1 AGAATATGCAAATGACTTCGGATATCACCACT-GAAGGAAACTCGAATATCACCATAAAAAAAAT
* * * **
22814537 GCAATTTAAGCCTTAACACTCGGATATCACCACTGAGAATATGTGAATGACTTCGGATATCACCA
65 GCAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCA
* * * *
22814602 CCGAAGGAAATTCAAATATCACCATCAAGAAAATGCAAATCA
130 CCAAAGAAAACTCAAATAACACCATCAAGAAAATGCAAATCA
22814644 CCTTTTAATA
Statistics
Matches: 149, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
197 1 0.01
198 148 0.99
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.23
Consensus pattern (198 bp):
AGAATATGCAAATGACTTCGGATATCACCACTGAAGGAAACTCGAATATCACCATAAAAAAAATG
CAATTTAAGCCTTAACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCAC
CAAAGAAAACTCAAATAACACCATCAAGAAAATGCAAATCAAGCCTTAACACTCGAATATTACCA
TCG
Found at i:22814565 original size:354 final size:354
Alignment explanation
Indices: 22813935--22814641 Score: 884
Period size: 354 Copynumber: 2.0 Consensus size: 354
22813925 AATATGATTG
** * * *
22813935 ACTTCGGATATTGTCATCGAAGGAAACTCGAATATCATCATTAAAAAAATATAATTCAAGCTTTA
1 ACTTCGGATATTACCATCGAAGGAAACTCGAATATCACCATAAAAAAAATATAATTCAAGCCTTA
* * * ** * *
22814000 ACACTCGGATATCACCATCGAAAATATGTAAATTACTTCGGATATCGCCACCGAAAGAAACTCGA
66 ACACTCAGATATCACCACCGAAAATATGTAAATGACTTCAAATATCACCACCGAAAGAAACTCAA
* * * * * *
22814065 ATATCACCATAAAAAAGATGTAATTTAAGCTTTAACACTCGGATATCACCATCGAGAATATGCAA
131 ATAACACCATAAAAAAGATGCAAATCAAGCCTTAACACTCGAATATCACCATCGAGAATATGCAA
* ** * *
22814130 ATTACTTCGAATATCGTCACTGAAAGAAACTCGAATATCACTATCGAAAAAATGTAATTTAAGCC
196 ATGACTTCGAATATCACCACTGAAAGAAACTCGAATATCACCATCGAAAAAATGCAATTTAAGCC
* * *
22814195 TTAACACTTAGATATCACCACCGAGAATATGCAAATAACTTCAGATATCATCATCGAAAGAAACT
261 TTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAGATATCACCACCGAAAGAAACT
* *
22814260 CAAATATCACTA-CTAAGAATATGCAAATT
326 CAAATATCACCATC-AAGAAAATGCAAATT
* * *
22814289 ACTTCGGATATTACCA-CTGAAGGAAACTTGAATATCACCATAAAAAAAATGTAATTTAAGCCTT
1 ACTTCGGATATTACCATC-GAAGGAAACTCGAATATCACCATAAAAAAAATATAATTCAAGCCTT
*
22814353 AACACTCAGATATCACCACCGAGAATATGTAAATGACTTCAAATATCACCACC-AAAGAAAACTC
65 AACACTCAGATATCACCACCGAAAATATGTAAATGACTTCAAATATCACCACCGAAAG-AAACTC
* * *
22814417 AAATAACACCATTGAGAAA-ATGCAAATCAAGCCTTAACACTCGAATATTACCATCGAGAATATG
129 AAATAACACCA-TAAAAAAGATGCAAATCAAGCCTTAACACTCGAATATCACCATCGAGAATATG
* * * * * * *
22814481 TAAATGACTTTGGATGTCACCA-TCGAAGGAAACTCGAATATCACCATTGAGAAAATGCAATTTA
193 CAAATGACTTCGAATATCACCACT-GAAAGAAACTCGAATATCACCATCGAAAAAATGCAATTTA
* * ** * * *
22814545 AGCCTTAACACTCGGATATCACCACTGAGAATATGTGAATGACTTCGGATATCACCACCGAAGGA
257 AGCCTTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAGATATCACCACCGAAAGA
*
22814610 AATTCAAATATCACCATCAAGAAAATGCAAAT
322 AACTCAAATATCACCATCAAGAAAATGCAAAT
22814642 CACCTTTTAA
Statistics
Matches: 298, Mismatches: 50, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
353 6 0.02
354 286 0.96
355 6 0.02
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (354 bp):
ACTTCGGATATTACCATCGAAGGAAACTCGAATATCACCATAAAAAAAATATAATTCAAGCCTTA
ACACTCAGATATCACCACCGAAAATATGTAAATGACTTCAAATATCACCACCGAAAGAAACTCAA
ATAACACCATAAAAAAGATGCAAATCAAGCCTTAACACTCGAATATCACCATCGAGAATATGCAA
ATGACTTCGAATATCACCACTGAAAGAAACTCGAATATCACCATCGAAAAAATGCAATTTAAGCC
TTAACACTCAGATATCACCACCGAGAATATGCAAATAACTTCAGATATCACCACCGAAAGAAACT
CAAATATCACCATCAAGAAAATGCAAATT
Found at i:22814640 original size:23 final size:24
Alignment explanation
Indices: 22814593--22814641 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
22814583 ATGACTTCGG
* *
22814593 ATATCACCACCGAAGGAAATTCAA
1 ATATCACCACCGAAGAAAATGCAA
*
22814617 ATATCACCATC-AAGAAAATGCAA
1 ATATCACCACCGAAGAAAATGCAA
22814640 AT
1 AT
22814642 CACCTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.18
Consensus pattern (24 bp):
ATATCACCACCGAAGAAAATGCAA
Found at i:22814714 original size:41 final size:41
Alignment explanation
Indices: 22814657--22814761 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 41
22814647 TTTAATACTC
* * *
22814657 GGATATCATCACCGAGAAAATGAATTCAAACATTGACATTT
1 GGATATCACCACCGAGAAAATGAATTCAAACATCGACACTT
* * *
22814698 GGATATCACCATCGAGAAAATACAATTCAAACCTCGACACTT
1 GGATATCACCACCGAGAAAAT-GAATTCAAACATCGACACTT
22814740 GGATATCACCACCGAGAAAATG
1 GGATATCACCACCGAGAAAATG
22814762 TAAATGATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 19 0.35
42 36 0.65
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
GGATATCACCACCGAGAAAATGAATTCAAACATCGACACTT
Found at i:22821373 original size:12 final size:13
Alignment explanation
Indices: 22821345--22821378 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
22821335 ATAATGTATG
*
22821345 AAAAAAAATTCTT
1 AAAAAAAATTCTC
22821358 AAAAAAAATT-TC
1 AAAAAAAATTCTC
22821370 AAAAAAAAT
1 AAAAAAAAT
22821379 ACCTGAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAAAATTCTC
Found at i:22828100 original size:161 final size:160
Alignment explanation
Indices: 22827799--22828642 Score: 844
Period size: 161 Copynumber: 5.2 Consensus size: 160
22827789 TAGTAAGTTT
* * ** * * *
22827799 ATGATATTAAATTTTTTCAAATGATTGAACTTGGTTTAT-ATTGTTGATATATGTGTCATAATTT
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTT-TCACAGTTGATATATGTG-AAAAAGTT
* ** * * * ** * * * **
22827863 GCAATTTATGTTTGTTTACAACTTTTTGTG-CTATTACAAGGTAAAAATGC-AAATTTTTAGTTA
64 ACTGTTTACGTCTATTTAGGACTTTTT-TGCCT-TTAAAACGTAAAAATACAAAATTGCT-GTTA
* * *
22827926 TTGTTCGATTTTAATAGTTTTGATAGTTTCAATAC
126 TTGTTCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * * * *** *
22827961 CTGATATTAAACTTATCCAAATTATTGAATTTTGTTTTCACAGTTGATATGCATGAAAAAGTTAT
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAC
* * *
22828026 TGTTTACGTCTATTTAGGACTTTTTATGCCATTAATAA-GTAATAATACAAAATTACTGTTATTG
66 TGTTTACGTCTATTTAGGACTTTTT-TGCCTTTAA-AACGTAAAAATACAAAATTGCTGTTATTG
*
22828090 TTCTATTTTAATAGTTTGGATAGCTTGAATAC
129 TTCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * *
22828122 ATGATATTAAACTTGTTCAAATGATTGAACTTAGTTTTCACAGTTGATATGTGTGAAAAAATTAT
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAC
* *
22828187 TGTTTACGTCTATTTAGGACTATTTTTGCCTTTAAAACGTAAAAATACAAATTTGCTGTTATTAT
66 TGTTTACGTCTATTTAGGACT-TTTTTGCCTTTAAAACGTAAAAATACAAAATTGCTGTTATTGT
*
22828252 TCTATTTTAATAGTTTGGATGGCTTCAATAC
130 TCTATTTTAATAGTTTGGATAGCTTCAATAC
* *
22828283 ATGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCGCAGTTGATATATGTGAAAAAGTTAC
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAC
* * * * *
22828348 TGTTTACTTCTGTTTAGGA-TTTTTCGGGCCGTTAAAAGGTAAAAATAC-AAATTGGCTGTTATT
66 TGTTTACGTCTATTTAGGACTTTTT--TGCCTTTAAAACGTAAAAATACAAAATT-GCTGTTATT
* * * *
22828411 GTTTTGTTTTAGTAGTTTAGATAGCTTCAATAC
128 GTTCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * *
22828444 ATGCTATTAAACTTTTTTAAATGATTGAACTTGGTTTTCACAATTGATATATGTGACAAAGTTAC
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAC
* * ** *
22828509 TGTTTATC-TTTGTTTAGGACTTTTTTTGCCTTTCAAAGAC--AAAAATACAAAGCTGTTGTTAT
66 TGTTTA-CGTCTATTTAGGAC-TTTTTTGCCTTT-AAA-ACGTAAAAATACAAAATTGCTGTTAT
* *
22828571 T-TACTATGTTTTAATAGTTTGGATAGTTTCAATAC
127 TGTTCTA--TTTTAATAGTTTGGATAGCTTCAATAC
* *
22828606 ATGATATTAAACTTGTCCAAATGATTGAATTTGGTTT
1 ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTT
22828643 CTATGAATGA
Statistics
Matches: 573, Mismatches: 92, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
159 4 0.01
160 9 0.02
161 437 0.76
162 117 0.20
163 6 0.01
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (160 bp):
ATGATATTAAACTTGTTCAAATGATTGAACTTGGTTTTCACAGTTGATATATGTGAAAAAGTTAC
TGTTTACGTCTATTTAGGACTTTTTTGCCTTTAAAACGTAAAAATACAAAATTGCTGTTATTGTT
CTATTTTAATAGTTTGGATAGCTTCAATAC
Found at i:22828397 original size:322 final size:323
Alignment explanation
Indices: 22827903--22828642 Score: 931
Period size: 322 Copynumber: 2.3 Consensus size: 323
22827893 CTATTACAAG
* * * *
22827903 GTAAAAATGCAAATTT-TTAGTTATTGTTCGATTTTAATAGTTTTGATAGTTTCAATACCTGATA
1 GTAAAAATACAAATTTGTT-GTTATT-TTCTATTTTAATAGTTTGGATAGTTTCAATACATGATA
* * * *
22827967 TTAAACTTATCCAAATTATTGAATTTTGTTTTCACAGTTGATATGCATGAAAAAGTTATTGTTTA
64 TTAAACTTATCCAAATGATTGAATTTGGTTTTCACAGTTGATATACATGAAAAAGTTACTGTTTA
* *
22828032 CGTCTATTTAGGACTTTTTATGCCATTAATAAGTAATAATACAAAATT-ACTGTTATTGTTCTAT
129 CGTCTATTTAGGACTTTTTAGGCCATTAATAAGTAAAAATAC-AAATTGACTGTTATTGTTCTAT
* *
22828096 TTTAATAGTTTGGATAGCTTGAATACATGATATTAAACTTGTTCAAATGATTGAACTTAGTTTTC
193 TTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTAGTTTTC
* * *
22828161 ACAGTTGATATGTGTGAAAAAATTATTGTTTA-CGTCTATTTAGGACTATTTTTGCCTTT-AAA-
258 ACAATTGATATATGTGAAAAAATTACTGTTTATC-TCTATTTAGGACTATTTTTGCCTTTCAAAG
22828223 AC
322 AC
* * *
22828225 GTAAAAATACAAATTTGCTGTTATTATTCTATTTTAATAGTTTGGATGGCTTCAATACATGATAT
1 GTAAAAATACAAATTTGTTGTTATT-TTCTATTTTAATAGTTTGGATAGTTTCAATACATGATAT
* * * * **
22828290 TAAACTTTTTCAAATGATTGAACTTGGTTTTCGCAGTTGATATATGTGAAAAAGTTACTGTTTAC
65 TAAACTTATCCAAATGATTGAATTTGGTTTTCACAGTTGATATACATGAAAAAGTTACTGTTTAC
* * * * * * *
22828355 TTCTGTTTAGGA-TTTTTCGGGCCGTTAA-AAGGTAAAAATACAAATTGGCTGTTATTGTTTTGT
130 GTCTATTTAGGACTTTTT-AGGCCATTAATAA-GTAAAAATACAAATTGACTGTTATTGTTCTAT
* * * * *
22828418 TTTAGTAGTTTAGATAGCTTCAATACATGCTATTAAACTTTTTTAAATGATTGAACTTGGTTTTC
193 TTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTAGTTTTC
* * * * *
22828483 ACAATTGATATATGTGACAAAGTTACTGTTTATCTTTGTTTAGGACTTTTTTTGCCTTTCAAAGA
258 ACAATTGATATATGTGAAAAAATTACTGTTTATCTCTATTTAGGACTATTTTTGCCTTTCAAAGA
22828548 C
323 C
** *
22828549 --AAAAATACAAAGCTGTTGTTATTTACTATGTTTTAATAGTTTGGATAGTTTCAATACATGATA
1 GTAAAAATACAAATTTGTTGTTATTTTCTA--TTTTAATAGTTTGGATAGTTTCAATACATGATA
*
22828612 TTAAACTTGTCCAAATGATTGAATTTGGTTT
64 TTAAACTTATCCAAATGATTGAATTTGGTTT
22828643 CTATGAATGA
Statistics
Matches: 358, Mismatches: 51, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
321 16 0.04
322 276 0.77
323 64 0.18
324 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (323 bp):
GTAAAAATACAAATTTGTTGTTATTTTCTATTTTAATAGTTTGGATAGTTTCAATACATGATATT
AAACTTATCCAAATGATTGAATTTGGTTTTCACAGTTGATATACATGAAAAAGTTACTGTTTACG
TCTATTTAGGACTTTTTAGGCCATTAATAAGTAAAAATACAAATTGACTGTTATTGTTCTATTTT
AATAGTTTAGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTGAACTTAGTTTTCACA
ATTGATATATGTGAAAAAATTACTGTTTATCTCTATTTAGGACTATTTTTGCCTTTCAAAGAC
Found at i:22842882 original size:30 final size:30
Alignment explanation
Indices: 22842848--22842938 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
22842838 CAATACTGGT
***
22842848 TGAGAAGATTGAAGGGTTGGTGAAGGTGCA
1 TGAGAAGATTGAACCATTGGTGAAGGTGCA
*
22842878 TGAGAAGATTGGACCATTGGTGAAGGTGCA
1 TGAGAAGATTGAACCATTGGTGAAGGTGCA
* * *
22842908 TGAAAAGATTGGACCATTGGTGACGGTGCA
1 TGAGAAGATTGAACCATTGGTGAAGGTGCA
22842938 T
1 T
22842939 TATCTGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.30, C:0.09, G:0.37, T:0.24
Consensus pattern (30 bp):
TGAGAAGATTGAACCATTGGTGAAGGTGCA
Found at i:22846883 original size:200 final size:201
Alignment explanation
Indices: 22846555--22846921 Score: 515
Period size: 200 Copynumber: 1.8 Consensus size: 201
22846545 TTATTTTCAA
* * * * * ** *
22846555 TAATTATGGATGAATTGATTCATTAAATTCTCAAATTTTTATTTCTAAAATCAATCATTTTCACA
1 TAATTAAGAATGAATTAATTCATTAAATTCTCAAATTTTTATATATAAAAAAAATCATGTTCACA
* ** * **
22846620 TTTCTAACAATTTTAACTTTTCATATATAGCAATAGATTGTGAGTAGTCGGTTATTTTTTTTGTA
66 TTTCTAACAATTTTAACTTTTCATATATAACAATAGACAGTGAGTAGTCGATTATCCTTTTTGTA
* * *
22846685 ATTTCAATTTTTAAAATGA-TATCTGAAACATAGCAATTGATTTTTTTTTATTAGAAATATATTA
131 ATTTCAAATTTTAAAAT-ACTATCTAAAACATAACAATTGATTTTTTTTTATTAGAAATATATTA
22846749 TTCAAAG
195 TTCAAAG
*
22846756 TAATTAAGAATGAATTAATTCATTAAATTGTCAAATTTTTA-ATATAAAAAAAATCATGTTCACA
1 TAATTAAGAATGAATTAATTCATTAAATTCTCAAATTTTTATATATAAAAAAAATCATGTTCACA
* *
22846820 TTTCTAACAATTTTAACTTTTTATATATAACAATAGACAGT-AGATAGTTGATTATCCTTTTTGT
66 TTTCTAACAATTTTAACTTTTCATATATAACAATAGACAGTGAG-TAGTCGATTATCCTTTTTGT
22846884 AATTTCAAATTTTAAAATACTATCTAAAACATAACAAT
130 AATTTCAAATTTTAAAATACTATCTAAAACATAACAAT
22846922 AAACTATTCT
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
199 3 0.02
200 104 0.72
201 37 0.26
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (201 bp):
TAATTAAGAATGAATTAATTCATTAAATTCTCAAATTTTTATATATAAAAAAAATCATGTTCACA
TTTCTAACAATTTTAACTTTTCATATATAACAATAGACAGTGAGTAGTCGATTATCCTTTTTGTA
ATTTCAAATTTTAAAATACTATCTAAAACATAACAATTGATTTTTTTTTATTAGAAATATATTAT
TCAAAG
Found at i:22857104 original size:113 final size:113
Alignment explanation
Indices: 22856906--22857135 Score: 426
Period size: 113 Copynumber: 2.0 Consensus size: 113
22856896 TTAGTCTTTG
*
22856906 ATCTTTATTTCTGGTTGCATAAGATCTTTCCTGTTTTTATCATTTGCAGTCACTCTAACTTCAAA
1 ATCTTTATTTCTGGTTGCATAAGATCTTTCCTGTTTTTATCATTTGCACTCACTCTAACTTCAAA
22856971 GAAAGCAGTAGAATTTTGTTATTTGTTTTATCGAACATTTTGTCATTT
66 GAAAGCAGTAGAATTTTGTTATTTGTTTTATCGAACATTTTGTCATTT
* *
22857019 ATCTTTATTTCTGGTTGCATAAGATCTTTCCTGTTTTTATCATTTGCACTTACTTTAACTTCAAA
1 ATCTTTATTTCTGGTTGCATAAGATCTTTCCTGTTTTTATCATTTGCACTCACTCTAACTTCAAA
22857084 GAAAGCAGTAGAATTTTGTTATTTGTTTTATCGAACATTTTGTCATTT
66 GAAAGCAGTAGAATTTTGTTATTTGTTTTATCGAACATTTTGTCATTT
22857132 -TCTT
1 ATCTT
22857136 CATGTGCAGT
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
112 4 0.04
113 110 0.96
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (113 bp):
ATCTTTATTTCTGGTTGCATAAGATCTTTCCTGTTTTTATCATTTGCACTCACTCTAACTTCAAA
GAAAGCAGTAGAATTTTGTTATTTGTTTTATCGAACATTTTGTCATTT
Found at i:22864466 original size:2 final size:2
Alignment explanation
Indices: 22864459--22864490 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22864449 GGATTGAAGA
22864459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22864491 TAAAGTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22873303 original size:28 final size:28
Alignment explanation
Indices: 22873263--22873342 Score: 101
Period size: 27 Copynumber: 2.9 Consensus size: 28
22873253 TTTGGTTAAG
22873263 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* *
22873291 AATGATTGTTTG-AATTTTATAAAG-GCA
1 AATGATTGTTTGAAATCTTA-CAAGTGCA
* *
22873318 AAAGATTGGTTGAAATCTTACAAGT
1 AATGATTGTTTGAAATCTTACAAGT
22873343 AATGATTCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 22 0.51
28 21 0.49
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGTGCA
Found at i:22876093 original size:132 final size:133
Alignment explanation
Indices: 22875834--22876097 Score: 503
Period size: 132 Copynumber: 2.0 Consensus size: 133
22875824 CGACACCAGA
22875834 ACTAGTTCTACGACCCTGGCTAACGGGTAATAGTAGTTAGCAAAGACATGATCATACGACCCTGG
1 ACTAGTTCTACGACCCTGGCTAACGGGTAATAGTAGTTAGCAAAGACATGATCATACGACCCTGG
22875899 CTAACGGGTAATAGTAGTTAGCGTAAGCCCTGGCTAACGGGTTATAATAGTTAGCAATGATCATG
66 CTAACGGGTAATAGTAGTTAGCGTAAGCCCTGGCTAACGGGTTATAATAGTTAGCAATGATCATG
22875964 AGG
131 AGG
*
22875967 ACTAGTTCTACGATCCTGGCTAACGGGTAATAGTAGTTAGCAAAGACATGATCATACGACCCT-G
1 ACTAGTTCTACGACCCTGGCTAACGGGTAATAGTAGTTAGCAAAGACATGATCATACGACCCTGG
*
22876031 CTAACGGGTAATAGTAGTTAGCGTAAGCCTTGGCTAACGGGTTATAATAGTTAGCAATGATCATG
66 CTAACGGGTAATAGTAGTTAGCGTAAGCCCTGGCTAACGGGTTATAATAGTTAGCAATGATCATG
22876096 AG
131 AG
22876098 AATGAAACTG
Statistics
Matches: 129, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
132 67 0.52
133 62 0.48
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (133 bp):
ACTAGTTCTACGACCCTGGCTAACGGGTAATAGTAGTTAGCAAAGACATGATCATACGACCCTGG
CTAACGGGTAATAGTAGTTAGCGTAAGCCCTGGCTAACGGGTTATAATAGTTAGCAATGATCATG
AGG
Found at i:22876199 original size:19 final size:16
Alignment explanation
Indices: 22876160--22876192 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22876150 AACGATTTGA
22876160 ATGATAATGATGATTT
1 ATGATAATGATGATTT
22876176 ATGATAATGATGATTT
1 ATGATAATGATGATTT
22876192 A
1 A
22876193 CGATGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:22880106 original size:22 final size:22
Alignment explanation
Indices: 22880074--22880120 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
22880064 TAAATTTTAG
*
22880074 AAAAAAAAT-AACAATAAAATA
1 AAAAAAAATAAAAAATAAAATA
22880095 AAAAAAAGATAAAAAATAAAATA
1 AAAAAAA-ATAAAAAATAAAATA
22880118 AAA
1 AAA
22880121 TTTGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 2 0.09
23 14 0.61
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAAAAAATAAAAAATAAAATA
Found at i:22882586 original size:18 final size:18
Alignment explanation
Indices: 22882550--22882587 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22882540 TCTAAAAATA
*
22882550 TATATTTTTATTTTATTT
1 TATATTTTTATATTATTT
22882568 TATATTTTATATATT-TTT
1 TATATTTT-TATATTATTT
22882586 TA
1 TA
22882588 AAATTTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATATTTTTATATTATTT
Found at i:22883695 original size:43 final size:43
Alignment explanation
Indices: 22883630--22883856 Score: 195
Period size: 43 Copynumber: 5.2 Consensus size: 43
22883620 AACTTTCGAG
* * * *
22883630 AAATAAATAAAACTCCTATAAGCAAAGGCTCAACGATTTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAAAGGCTTAATGATTTTGAA
* * *
22883673 AAATAAATAAAGCTCTTCTAAGCAGAA-GTTTAATGACTTTGAA
1 AAATAAATAAAGCTCCTCTAAGCA-AAGGCTTAATGATTTTGAA
* * * * * * *
22883716 AAATAAAAAAAGTTCATCCAAGTAGAGGCTCAATGACTTTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAAAGGCTTAATGA-TTTTGAA
* ** * *
22883760 AAATAAATAAGGCTCCTCTAAATAGAGGCTTAATGACTTTGAA
1 AAATAAATAAAGCTCCTCTAAGCAAAGGCTTAATGATTTTGAA
* * * * *
22883803 AAGTAAATAAAGCTTCTCTAAGCAAATGCTTAACGACTTTTAAA
1 AAATAAATAAAGCTCCTCTAAGCAAAGGCTTAATGA-TTTTGAA
*
22883847 AAATACATAA
1 AAATAAATAA
22883857 GGTTCCATGA
Statistics
Matches: 144, Mismatches: 36, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
42 1 0.01
43 93 0.65
44 50 0.35
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (43 bp):
AAATAAATAAAGCTCCTCTAAGCAAAGGCTTAATGATTTTGAA
Found at i:22883841 original size:87 final size:87
Alignment explanation
Indices: 22883621--22883858 Score: 264
Period size: 87 Copynumber: 2.7 Consensus size: 87
22883611 AGATTTCACA
* * * * *
22883621 ACTTTCGAGAAATAAATAAAACTCCTATAAGCAAAGGCTCAACGA-TTTTGAAAAATAAATAAAG
1 ACTTT-GAAAAATAAATAAAGCTTCTCTAAGCAAAGGCTCAACGACTTTTGAAAAATAAATAAGG
* * *
22883685 CTCTTCTAAGCAGAAGTTTAATG
65 CTCCTCTAAACAGAAGCTTAATG
* * * * *
22883708 ACTTTGAAAAATAAAAAAAG-TTCATCCAAGTAGAGGCTCAATGACTTTTGAAAAATAAATAAGG
1 ACTTTGAAAAATAAATAAAGCTTC-TCTAAGCAAAGGCTCAACGACTTTTGAAAAATAAATAAGG
* *
22883772 CTCCTCTAAATAGAGGCTTAATG
65 CTCCTCTAAACAGAAGCTTAATG
* * * * *
22883795 ACTTTGAAAAGTAAATAAAGCTTCTCTAAGCAAATGCTTAACGACTTTTAAAAAATACATAAGG
1 ACTTTGAAAAATAAATAAAGCTTCTCTAAGCAAAGGCTCAACGACTTTTGAAAAATAAATAAGG
22883859 TTCCATGACA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
85 2 0.02
86 27 0.22
87 91 0.74
88 3 0.02
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (87 bp):
ACTTTGAAAAATAAATAAAGCTTCTCTAAGCAAAGGCTCAACGACTTTTGAAAAATAAATAAGGC
TCCTCTAAACAGAAGCTTAATG
Found at i:22884402 original size:4 final size:4
Alignment explanation
Indices: 22884393--22884438 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
22884383 TATTTTACAT
* *
22884393 TTTA TTTA TTTA TTTA -TTA TTTA TCTA TTTA CTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
22884439 TTGGGTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:22884592 original size:14 final size:13
Alignment explanation
Indices: 22884565--22884590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22884555 AAGATAGTAG
22884565 TAAAAAAATAAAA
1 TAAAAAAATAAAA
22884578 TAAAAAAATAAAA
1 TAAAAAAATAAAA
22884591 ATGAGGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:22885467 original size:6 final size:7
Alignment explanation
Indices: 22885441--22885466 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22885431 CTATTTTGGT
22885441 ATTTTTA
1 ATTTTTA
22885448 ATTTTTA
1 ATTTTTA
22885455 ATTTTTA
1 ATTTTTA
22885462 ATTTT
1 ATTTT
22885467 ATGTTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
ATTTTTA
Found at i:22887082 original size:13 final size:15
Alignment explanation
Indices: 22887059--22887090 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
22887049 CTTTTCTTTT
22887059 TTTTTTGTTTT-TCA
1 TTTTTTGTTTTATCA
22887073 TTTTTT-TTTTATCA
1 TTTTTTGTTTTATCA
22887087 TTTT
1 TTTT
22887091 ATCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTTTGTTTTATCA
Found at i:22888934 original size:9 final size:9
Alignment explanation
Indices: 22888922--22888955 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
22888912 ATATTATATA
22888922 TATTATTTT
1 TATTATTTT
22888931 TATTATTTT
1 TATTATTTT
22888940 TATTATTTT
1 TATTATTTT
*
22888949 AATTATT
1 TATTATT
22888956 ATTCTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TATTATTTT
Found at i:22888934 original size:18 final size:18
Alignment explanation
Indices: 22888913--22888954 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22888903 TTTTTAAAAA
22888913 TATTATATATATTATTTT
1 TATTATATATATTATTTT
* *
22888931 TATTATTTTTATTATTTT
1 TATTATATATATTATTTT
*
22888949 AATTAT
1 TATTAT
22888955 TATTCTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATATATATTATTTT
Found at i:22889530 original size:206 final size:202
Alignment explanation
Indices: 22889141--22889533 Score: 465
Period size: 206 Copynumber: 1.9 Consensus size: 202
22889131 ATTGATAAAA
* *
22889141 AAAAATAAGAAAAGAAAAATTTTATCCAATAATGAGATTCAAAGGTATTCCAAGTAGTGATGCCT
1 AAAAATAAGAAAAGAAAAATTTTATCCAATAATGAGATTCAAAAGTATTCCAAGTAATGATGCCT
* * *
22889206 ATAAAATCCTTAGGTGAAAAGATTTTTTAAAATACTACCAGTGTATTGGAGTATTTATAAAAAAA
66 ATAAAATCCCTAGGTGAAAAGATTTTTTAAAATACTACCAGTGTATTGAAATATTTATAAAAAAA
* *
22889271 TTTTCAATACAATAAAATTTTTTTTTTATTATTAATAAATAAAAATTAATTAATAAATTAAGAAT
131 TTTTCAATACAATAAAATTTTTTCTTCATTATTAATAAATAAAAA-TAATTAATAAATTAAGAAT
22889336 AAAGCAAT
195 AAAGCAAT
* * * * *
22889344 AAAAATGAGAAAA-AAAAATTTTATCCAATGATGGGATTTTAAAAGTATTCCGAGTAATGATG-C
1 AAAAATAAGAAAAGAAAAATTTTATCCAATAATGAGA-TTCAAAAGTATTCCAAGTAATGATGCC
* ** * *
22889407 TTTAAGAACTCCCTAGGTGAGAGGGTATTTTTTTAAATATTACCAGTGTATTGAAATATTTAT-A
65 TATAA-AA-TCCCTAGGTGA-AAAG-ATTTTTTAAAATACTACCAGTGTATTGAAATATTTATAA
* * *
22889471 AAAAATCTTT-AATATAATAAAAATTCCTCTTTCTTCATTTTTTA-AAATAAAAA-AATTAATAA
126 AAAAAT-TTTCAATACAAT-AAAATT--T-TTTCTTCATTATTAATAAATAAAAATAATTAATAA
22889533 A
186 A
22889534 ACAATAAATA
Statistics
Matches: 160, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
202 26 0.16
203 35 0.22
204 10 0.06
205 16 0.10
206 52 0.32
208 10 0.06
209 11 0.07
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (202 bp):
AAAAATAAGAAAAGAAAAATTTTATCCAATAATGAGATTCAAAAGTATTCCAAGTAATGATGCCT
ATAAAATCCCTAGGTGAAAAGATTTTTTAAAATACTACCAGTGTATTGAAATATTTATAAAAAAA
TTTTCAATACAATAAAATTTTTTCTTCATTATTAATAAATAAAAATAATTAATAAATTAAGAATA
AAGCAAT
Found at i:22901447 original size:49 final size:49
Alignment explanation
Indices: 22901369--22901707 Score: 328
Period size: 49 Copynumber: 6.9 Consensus size: 49
22901359 ACATATGAAA
* * * **
22901369 AATTTTAAAGTTATTGAGCCTTTATTGAGAGGAG-TTTTTCCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTT-CAAGATGAG
* *
22901418 AATTTTAAAGTTGTTGAACCTTTGCTGAGAGGAGCTTTTTCAAGATGAA
1 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAAGATGAG
* * * * * *
22901467 AATTTTAAAGTTATTGAGCCTCTGTTGAAATGAGTTTTTTCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAAGATGAG
* * * *
22901516 AATTTTTAAA-ATGTTGAGCCTCTACTGAGAGGAGCTTTTTCCAA-ATGAT
1 AA-TTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTT-CAAGATGAG
** * * * * * * **
22901565 TTTTTTAAAGTTGTTGAGCTTAT-ATGAGAGGAGCTTTTGCAAAAAAAG
1 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAAGATGAG
* * *
22901613 AATTTTAAGGTTGTTGAACCTCTACTGAGATGAGCTTTTTCAAGATGAG
1 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAAGATGAG
*
22901662 AATTTTAAAGTTGTT-AAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
1 AATTTTAAAGTTGTTGAA-CCTCTGCTGAGAGGAGCTTTTTCAAGAT
22901708 TTTTTAAAGT
Statistics
Matches: 236, Mismatches: 47, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.01
48 42 0.18
49 176 0.75
50 15 0.06
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (49 bp):
AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTTCAAGATGAG
Found at i:22901502 original size:98 final size:97
Alignment explanation
Indices: 22901367--22901707 Score: 393
Period size: 98 Copynumber: 3.5 Consensus size: 97
22901357 GAACATATGA
*
22901367 AAAATTTTAAAGTTATTGAGCCTTTATTGAGAGGAGTTTTTCCAAGATGAGAATTTTAAAGTTGT
1 AAAATTTTAAAGTTATTGAGCCTCTATTGAGAGGAGTTTTT-CAAGATGAGAATTTTAAAGTTGT
* *
22901432 TGAACCTTTGCTGAGAGGAGCTTTTTCAAGATG
65 TGAACCTCTACTGAGAGGAGCTTTTTCAAGATG
* * * *
22901465 AAAATTTTAAAGTTATTGAGCCTCTGTTGAAATGAGTTTTTTCAAGATGAGAATTTTTAAA-ATG
1 AAAATTTTAAAGTTATTGAGCCTCTATTGAGAGGAG-TTTTTCAAGATGAGAA-TTTTAAAGTTG
*
22901529 TTGAGCCTCTACTGAGAGGAGCTTTTTCCAA-ATG
64 TTGAACCTCTACTGAGAGGAGCTTTTT-CAAGATG
*** * * * ** *
22901563 ATTTTTTTAAAGTTGTTGAG-CT-TATATGAGAGGAGCTTTTGCAAAAAAAGAATTTTAAGGTTG
1 AAAATTTTAAAGTTATTGAGCCTCTAT-TGAGAGGAG-TTTTTCAAGATGAGAATTTTAAAGTTG
*
22901626 TTGAACCTCTACTGAGATGAGCTTTTTCAAGATG
64 TTGAACCTCTACTGAGAGGAGCTTTTTCAAGATG
* * * *
22901660 AGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCAAGAT
1 AAAATTTTAAAGTTATTGAGCCTCTATTGAGAGGAG-TTTTTCAAGAT
22901708 TTTTTAAAGT
Statistics
Matches: 203, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
96 11 0.05
97 67 0.33
98 108 0.53
99 17 0.08
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (97 bp):
AAAATTTTAAAGTTATTGAGCCTCTATTGAGAGGAGTTTTTCAAGATGAGAATTTTAAAGTTGTT
GAACCTCTACTGAGAGGAGCTTTTTCAAGATG
Found at i:22901746 original size:45 final size:44
Alignment explanation
Indices: 22901664--22901802 Score: 136
Period size: 49 Copynumber: 3.0 Consensus size: 44
22901654 AAGATGAGAA
* * * * *
22901664 TTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCAAGATT
1 TTTTAAAGTTGTTGAGCCTTTGCTAAGAGGAGTTTTTTCAA-ATT
*
22901709 TTTTAAAGTTGTTGAGCCTTTGCTAAGATGAGTTTTTTTCAGATAATTT
1 TTTTAAAGTTGTTGAGCCTTTGCTAAGAGGAG-TTTTTTC--A-AA-TT
* * *
22901758 TTTTAAAGATGTTGAGCCTTTACTAAGAGGAGTCTTTT-AAATT
1 TTTTAAAGTTGTTGAGCCTTTGCTAAGAGGAGTTTTTTCAAATT
22901801 TT
1 TT
22901803 CAAAAATATC
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.05
44 2 0.03
45 28 0.35
46 6 0.08
48 7 0.09
49 32 0.41
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (44 bp):
TTTTAAAGTTGTTGAGCCTTTGCTAAGAGGAGTTTTTTCAAATT
Found at i:22902019 original size:21 final size:21
Alignment explanation
Indices: 22901994--22902040 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
22901984 TATATATATA
22901994 TTTTTTTTTTCTCTTTCTTTC
1 TTTTTTTTTTCTCTTTCTTTC
*
22902015 TTTTTTTTTTCTCTTTTTTTC
1 TTTTTTTTTTCTCTTTCTTTC
22902036 TTTTT
1 TTTTT
22902041 CCTTCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTTTTTCTCTTTCTTTC
Found at i:22902025 original size:15 final size:16
Alignment explanation
Indices: 22901999--22902053 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
22901989 ATATATTTTT
*
22901999 TTTTTCTCTTTCTTTC
1 TTTTTCTTTTTCTTTC
22902015 TTTTT-TTTTTCTCTT-
1 TTTTTCTTTTTCT-TTC
*
22902030 TTTTTCTTTTTCCTTC
1 TTTTTCTTTTTCTTTC
*
22902046 TTCTTCTT
1 TTTTTCTT
22902054 CTTCCCTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTC
Found at i:22902031 original size:10 final size:10
Alignment explanation
Indices: 22901997--22902040 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
22901987 ATATATATTT
22901997 TTTTTTTCTC
1 TTTTTTTCTC
* *
22902007 TTTCTTTCTTT
1 TTTTTTTC-TC
22902018 TTTTTTTCTC
1 TTTTTTTCTC
22902028 TTTTTTTCT-
1 TTTTTTTCTC
22902037 TTTT
1 TTTT
22902041 CCTTCTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.14
10 17 0.59
11 8 0.28
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:22902340 original size:21 final size:22
Alignment explanation
Indices: 22902290--22902346 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
22902280 GGGAAACCCA
22902290 CAAAAAAAA-GTTTTCCAAAAT
1 CAAAAAAAATGTTTTCCAAAAT
* *
22902311 -AAAAGAAATG-TTTCCAGAAT
1 CAAAAAAAATGTTTTCCAAAAT
*
22902331 CAAAAAAAATTTTTTC
1 CAAAAAAAATGTTTTC
22902347 TATAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 16 0.55
21 9 0.31
22 4 0.14
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (22 bp):
CAAAAAAAATGTTTTCCAAAAT
Found at i:22903003 original size:21 final size:23
Alignment explanation
Indices: 22902954--22903004 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
22902944 ATTTTAAAAA
*
22902954 AATATTTTATATATATTATTTTT
1 AATATTTTATATATATTATTCTT
**
22902977 GTTATTTTA-AT-TATTATTCTT
1 AATATTTTATATATATTATTCTT
22902998 AATATTT
1 AATATTT
22903005 ATGCATGTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 14 0.61
22 2 0.09
23 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
AATATTTTATATATATTATTCTT
Found at i:22908362 original size:77 final size:77
Alignment explanation
Indices: 22908268--22908421 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
22908258 TATGAAGTAT
22908268 AATATCTTTCACTTCAGGTAATGCCCCTTACACCAGTTATATTGGCATAATCAGACTTAGGCATA
1 AATATCTTTCACTTCAGGTAATGCCCCTTACACCAGTTATATTGGCATAATCAGACTTAGGCATA
22908333 TTTTTCTCTTAC
66 TTTTTCTCTTAC
*
22908345 AATATCTTTCACTTCAGGTAATGCCCCTTACACTAGTTATATTGGCATAATCAGACTTAGGCATA
1 AATATCTTTCACTTCAGGTAATGCCCCTTACACCAGTTATATTGGCATAATCAGACTTAGGCATA
22908410 TTTTTCTCTTAC
66 TTTTTCTCTTAC
22908422 CATTGGACTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (77 bp):
AATATCTTTCACTTCAGGTAATGCCCCTTACACCAGTTATATTGGCATAATCAGACTTAGGCATA
TTTTTCTCTTAC
Found at i:22914119 original size:2 final size:2
Alignment explanation
Indices: 22914112--22914148 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
22914102 AGTTTTAAGG
22914112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22914149 CATAAATACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22919654 original size:1 final size:1
Alignment explanation
Indices: 22919648--22919672 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22919638 TGTAGTAGTG
22919648 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
22919673 GTTTATTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22922603 original size:10 final size:11
Alignment explanation
Indices: 22922588--22922637 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
22922578 ATCCGGGTAG
22922588 AGAGAAAA-AA
1 AGAGAAAAGAA
22922598 AGAGAAAAG-A
1 AGAGAAAAGAA
* * *
22922608 AGGGGAAAGAG
1 AGAGAAAAGAA
22922619 AGAGAGAAAGAA
1 AGAGA-AAAGAA
22922631 AGAGAAA
1 AGAGAAA
22922638 TCTGAGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 16 0.52
11 5 0.16
12 10 0.32
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
AGAGAAAAGAA
Found at i:22923624 original size:54 final size:54
Alignment explanation
Indices: 22923489--22923629 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
22923479 TTTTCTTCCG
* *
22923489 AAAAAAAATATTTCTAAATTT-ACCTAAATAGTGAAAAATTTAGAAATTCAAAAC
1 AAAAAAAATATTTCT-AATTTGACCCAAATGGTGAAAAATTTAGAAATTCAAAAC
* * * *
22923543 AAAAAAAAAATTTCTAAATAGATCCAAATGGTGAAAAAATTTAGAAATTCAAAA-
1 AAAAAAAATATTTCTAATTTGACCCAAATGGTG-AAAAATTTAGAAATTCAAAAC
* *
22923597 TAAAAAAATATTTCTAATTTGGCCCAAATGGTG
1 AAAAAAAATATTTCTAATTTGACCCAAATGGTG
22923630 GAACAATTAA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 3 0.04
54 50 0.68
55 20 0.27
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (54 bp):
AAAAAAAATATTTCTAATTTGACCCAAATGGTGAAAAATTTAGAAATTCAAAAC
Found at i:22925765 original size:2 final size:2
Alignment explanation
Indices: 22925758--22925795 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
22925748 TGTTTTCTTT
22925758 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22925796 AGCTTCTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:22928375 original size:40 final size:41
Alignment explanation
Indices: 22928314--22928392 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 41
22928304 TTTTAATATA
22928314 TTTGCCTCAGTTTAATAGGTGAGCAATGCTGATGACTATTG
1 TTTGCCTCAGTTTAATAGGTGAGCAATGCTGATGACTATTG
* ** *
22928355 TTTGCCTC-GTTTGATAGGTGAGTGATGCTGATGGCTAT
1 TTTGCCTCAGTTTAATAGGTGAGCAATGCTGATGACTAT
22928393 CTTAAGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 26 0.76
41 8 0.24
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (41 bp):
TTTGCCTCAGTTTAATAGGTGAGCAATGCTGATGACTATTG
Found at i:22933434 original size:37 final size:37
Alignment explanation
Indices: 22933381--22933465 Score: 127
Period size: 37 Copynumber: 2.3 Consensus size: 37
22933371 AATCTGTAAC
* * *
22933381 TGAATCACCAAGAATCATGCTCCACCGGATTCG-TGAT
1 TGAATCACCAAAAATCATGCTCCAACGGATCCGAT-AT
22933418 TGAATCACCAAAAATCATGCTCCAACGGATCCGATAT
1 TGAATCACCAAAAATCATGCTCCAACGGATCCGATAT
22933455 TGAATCACCAA
1 TGAATCACCAA
22933466 TTTCCTTCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 43 0.98
38 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.22
Consensus pattern (37 bp):
TGAATCACCAAAAATCATGCTCCAACGGATCCGATAT
Found at i:22933541 original size:3 final size:3
Alignment explanation
Indices: 22933535--22933590 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
22933525 TTTTTCTTTA
* * * * *
22933535 AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
22933583 ACT AAT AA
1 AAT AAT AA
22933591 ACTATGTACA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22936138 original size:19 final size:19
Alignment explanation
Indices: 22936111--22936153 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22936101 TTTAATAACA
*
22936111 TAAAAAATAAGAT-ATAGAT
1 TAAATAATAA-ATGATAGAT
*
22936130 TAAATAATAATTGATAGAT
1 TAAATAATAAATGATAGAT
22936149 TAAAT
1 TAAAT
22936154 TTGTTTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
TAAATAATAAATGATAGAT
Found at i:22936463 original size:21 final size:20
Alignment explanation
Indices: 22936409--22936489 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 20
22936399 GATTTTTTTC
*
22936409 ATAATTAATTATTTATGATTAT
1 ATAATTAATTTTTTATG--TAT
* *
22936431 ATATTGTAAATTTTTTATTTA-
1 ATAAT-T-AATTTTTTATGTAT
* *
22936452 ATTAATGTAATTTATCATGTAT
1 A-TAAT-TAATTTTTTATGTAT
22936474 ATAATTAATTTTTTAT
1 ATAATTAATTTTTTAT
22936490 AAAATATTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 9 0.20
21 15 0.33
22 12 0.26
23 1 0.02
24 9 0.20
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (20 bp):
ATAATTAATTTTTTATGTAT
Found at i:22939348 original size:32 final size:32
Alignment explanation
Indices: 22939312--22939377 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
22939302 CAAAGTGTAC
22939312 TTGAGAACCAATGATTTGGAAATATTAGTGGT
1 TTGAGAACCAATGATTTGGAAATATTAGTGGT
*
22939344 TTGAGAACCAATGATTTGGAAATGTTAGTGGT
1 TTGAGAACCAATGATTTGGAAATATTAGTGGT
22939376 TT
1 TT
22939378 TCTCATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (32 bp):
TTGAGAACCAATGATTTGGAAATATTAGTGGT
Found at i:22945450 original size:21 final size:21
Alignment explanation
Indices: 22945405--22945452 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22945395 TTCTCTTCTT
*** *
22945405 TTCTCTTTTTTTTTTTTTTTT
1 TTCTCTTTTTTTTTCCCTTTA
22945426 TTCTCTTTTTTTTTCCCTTTA
1 TTCTCTTTTTTTTTCCCTTTA
22945447 TTCTCT
1 TTCTCT
22945453 CTCAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTCTTTTTTTTTCCCTTTA
Found at i:22946588 original size:17 final size:17
Alignment explanation
Indices: 22946551--22946586 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22946541 AATACTTAAG
*
22946551 AATAAATAAAACAAATA
1 AATAAATAAAAAAAATA
22946568 AATAAATAAAATAAAATA
1 AATAAATAAAA-AAAATA
22946586 A
1 A
22946587 TATCAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAATAAAAAAAATA
Found at i:22948789 original size:3 final size:3
Alignment explanation
Indices: 22948767--22948960 Score: 158
Period size: 3 Copynumber: 67.0 Consensus size: 3
22948757 GATCGATAGA
* * *
22948767 ATT ATT TTT ATT AAT ATT ATT A-T ATT A-T ATT ATT AGT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
22948812 ATT A-T ATT ATT ATT A-T ATT A-T ATT A-G AGT ATA ATAT ATT GA-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT -ATT
* ** * *
22948854 ATA ACA ATAT ATT ATT ATT ATT GTT ATT A-T ATT ATT CA-T AGT -TT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* *
22948898 ATT ATT ATT ATT ATT ATT ATT ACT ATT ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22948946 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
22948961 TAAAGAAAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 30
0.75 0.11 0.15
Matches are distributed among these distances:
2 18 0.12
3 130 0.84
4 6 0.04
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:22949095 original size:37 final size:37
Alignment explanation
Indices: 22949025--22949109 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
22949015 AAAAAGGAAA
* * * * *
22949025 TTGGTGATTCAATATCGGATTCGTTGGAGCATGATTT
1 TTGGTGATTCAATATCGAATCCGGTGGAACATGATTC
22949062 TTGGTGATTCAATCA-CGAATCCGGTGGAACATGATTC
1 TTGGTGATTCAAT-ATCGAATCCGGTGGAACATGATTC
22949099 TTGGTGATTCA
1 TTGGTGATTCA
22949110 GTTACAGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 41 0.98
38 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (37 bp):
TTGGTGATTCAATATCGAATCCGGTGGAACATGATTC
Found at i:22951241 original size:23 final size:23
Alignment explanation
Indices: 22951209--22951256 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22951199 TGATGACAAG
* * * *
22951209 TTTTATTTTATTTTATTTTTATT
1 TTTTAATTTAATTTAATTTAATT
22951232 TTTTAATTTAATTTAATTTAATT
1 TTTTAATTTAATTTAATTTAATT
22951255 TT
1 TT
22951257 AAATTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTAATTTAATTTAATTTAATT
Found at i:22954778 original size:53 final size:52
Alignment explanation
Indices: 22954667--22954779 Score: 140
Period size: 53 Copynumber: 2.2 Consensus size: 52
22954657 TTCTTGACAA
* * * *
22954667 ATGAAAAAATAATAAAAAAAATTGATGGGGTAAAATTTCAATGTGCTCTACC
1 ATGAAAAAAAAATAAAAAAAATTGATGGGGTAAAATGTCAAAGTGCTCTAAC
* *
22954719 A-AAAAAAAAAATAAAAAGAAAATTGATGGGGTAAAATGTCAAAGTGC-CTAAT
1 ATGAAAAAAAAAT-AAAA-AAAATTGATGGGGTAAAATGTCAAAGTGCTCTAAC
22954771 ATGAAAAAA
1 ATGAAAAAA
22954780 TGATCCTTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
51 9 0.18
52 9 0.18
53 33 0.65
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (52 bp):
ATGAAAAAAAAATAAAAAAAATTGATGGGGTAAAATGTCAAAGTGCTCTAAC
Found at i:22955045 original size:22 final size:22
Alignment explanation
Indices: 22955020--22955136 Score: 111
Period size: 20 Copynumber: 5.4 Consensus size: 22
22955010 TACAAAAGAC
22955020 AAAAAGAAAAAAGCAAAAAATA
1 AAAAAGAAAAAAGCAAAAAATA
22955042 AAAAAGAAAAAAG--AAAAATA
1 AAAAAGAAAAAAGCAAAAAATA
22955062 AAAAAGCAAAAAAGC-AAAAATA
1 AAAAAG-AAAAAAGCAAAAAATA
* * *
22955084 AAAAA-TAAAAAG-AGAGAA-A
1 AAAAAGAAAAAAGCAAAAAATA
* *
22955103 AGAAAGAAAAAGAGACAAAGAAAGA
1 AAAAAGAAAAA-AG-CAAA-AAATA
22955128 AAAAAGAAA
1 AAAAAGAAA
22955137 GACTTAAACT
Statistics
Matches: 78, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.06
20 26 0.33
21 9 0.12
22 25 0.32
23 2 0.03
24 2 0.03
25 9 0.12
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAAAAGCAAAAAATA
Found at i:22955066 original size:35 final size:35
Alignment explanation
Indices: 22955020--22955096 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
22955010 TACAAAAGAC
*
22955020 AAAAAGAAAAAAGCAAAAAATAAAAAAGAAAAAAG
1 AAAAAGAAAAAAGCAAAAAAGAAAAAAGAAAAAAG
* * * *
22955055 AAAAATAAAAAAGCAAAAAAGCAAAAATAAAAAAT
1 AAAAAGAAAAAAGCAAAAAAGAAAAAAGAAAAAAG
22955090 AAAAAGA
1 AAAAAGA
22955097 GAGAAAAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (35 bp):
AAAAAGAAAAAAGCAAAAAAGAAAAAAGAAAAAAG
Found at i:22955086 original size:6 final size:7
Alignment explanation
Indices: 22955020--22955094 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
22955010 TACAAAAGAC
*
22955020 AAAAAGA
1 AAAAATA
*
22955027 AAAAAGCA
1 AAAAA-TA
22955035 AAAAATA
1 AAAAATA
*
22955042 AAAAAGA
1 AAAAATA
*
22955049 AAAAA-G
1 AAAAATA
22955055 AAAAATA
1 AAAAATA
*
22955062 AAAAAGCA
1 AAAAA-TA
**
22955070 AAAAAGC
1 AAAAATA
22955077 AAAAATA
1 AAAAATA
22955084 AAAAATA
1 AAAAATA
22955091 AAAA
1 AAAA
22955095 GAGAGAAAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
6 5 0.09
7 38 0.69
8 12 0.22
ACGTcount: A:0.83, C:0.04, G:0.08, T:0.05
Consensus pattern (7 bp):
AAAAATA
Found at i:22955103 original size:29 final size:28
Alignment explanation
Indices: 22955013--22955107 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 28
22955003 AAAGGTGTAC
**
22955013 AAAAGACAAAAAGAAAAA-AGCAAAAAATAA
1 AAAAGA-AAAAAGAAAAATA--AAAAAGCAA
22955043 AAAAGAAAAAAGAAAAATAAAAAAGCAA
1 AAAAGAAAAAAGAAAAATAAAAAAGCAA
*
22955071 AAAAGCAAAAATA-AAAAATAAAAAGAG-AG
1 AAAAG-AAAAA-AGAAAAATAAAAA-AGCAA
22955100 AAAAGAAA
1 AAAAGAAA
22955108 GAAAAAGAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 15 0.26
29 33 0.57
30 10 0.17
ACGTcount: A:0.80, C:0.04, G:0.12, T:0.04
Consensus pattern (28 bp):
AAAAGAAAAAAGAAAAATAAAAAAGCAA
Found at i:22955122 original size:18 final size:19
Alignment explanation
Indices: 22955090--22955131 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
22955080 AATAAAAAAT
22955090 AAAAAGAGAGAAAAGAAAG
1 AAAAAGAGAGAAAAGAAAG
*
22955109 AAAAAGAGA-CAAAGAAAG
1 AAAAAGAGAGAAAAGAAAG
22955127 AAAAA
1 AAAAA
22955132 AGAAAGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAAAGAGAGAAAAGAAAG
Done.