Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 83 of 345
Found at i:22764164 original size:40 final size:40
Alignment explanation
Indices: 22764098--22764175 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
22764088 ACGCACTATG
* *
22764098 TGGGGATAAAATCAACCCACCTATCCCTGCATACCATATA
1 TGGGGATAAAATCAACCCACCTATCCCTACACACCATATA
* *
22764138 TGGGGATATAATCATCCCATCC-ATCCCTACACACCATA
1 TGGGGATAAAATCAACCCA-CCTATCCCTACACACCATA
22764176 AGGTACCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.23
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCTATCCCTACACACCATATA
Found at i:22766834 original size:10 final size:10
Alignment explanation
Indices: 22766808--22766857 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
22766798 TACATACTTA
22766808 ATATT-TAAGT
1 ATATTATAA-T
*
22766818 ATA-TATAAA
1 ATATTATAAT
*
22766827 ATATTATATT
1 ATATTATAAT
*
22766837 ATATTATATT
1 ATATTATAAT
22766847 ATATTATAAT
1 ATATTATAAT
22766857 A
1 A
22766858 GTTTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 30 0.88
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
ATATTATAAT
Found at i:22766837 original size:5 final size:5
Alignment explanation
Indices: 22766827--22766854 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
22766817 TATATATAAA
22766827 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
22766855 ATAGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:22766944 original size:4 final size:4
Alignment explanation
Indices: 22766919--22766961 Score: 59
Period size: 4 Copynumber: 10.0 Consensus size: 4
22766909 AATAAGGGAA
22766919 AAAG AAAGG AAAGG AAAGG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAA-G AAA-G AAA-G AAAG AAAG AAAG AAAG AAAG AAAG
22766962 GAAAATTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 24 0.63
5 14 0.37
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22767153 original size:13 final size:13
Alignment explanation
Indices: 22767135--22767162 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22767125 AAGTGTTAGG
22767135 GATTAAATTGATA
1 GATTAAATTGATA
22767148 GATTAAATTGATA
1 GATTAAATTGATA
22767161 GA
1 GA
22767163 ATTTCAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (13 bp):
GATTAAATTGATA
Found at i:22777287 original size:49 final size:50
Alignment explanation
Indices: 22777234--22777329 Score: 117
Period size: 49 Copynumber: 1.9 Consensus size: 50
22777224 TATTCTTATG
* *
22777234 CATTTAAGGTA-ATTTTTTTATCA-CTTAATTAT-AAAAGTTATAAAATAGT
1 CATTTAA-GTATATTTTTTAATCATC-TAATTATGAAAAGTTACAAAATAGT
* *
22777283 CATTTAATTATATTTTTTAATCATCTATTTATGAAAAGTTACAAAAT
1 CATTTAAGTATATTTTTTAATCATCTAATTATGAAAAGTTACAAAAT
22777330 TACCATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
48 2 0.05
49 24 0.60
50 14 0.35
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (50 bp):
CATTTAAGTATATTTTTTAATCATCTAATTATGAAAAGTTACAAAATAGT
Found at i:22777337 original size:50 final size:49
Alignment explanation
Indices: 22777245--22777339 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 49
22777235 ATTTAAGGTA
* * *
22777245 ATTTTTTTATCACTTAATTATAAAAGTTATAAAATAGTCATTTAATTAT
1 ATTTTTTAATCACTTAATTATAAAAGTTACAAAATAGCCATTTAATTAT
*
22777294 ATTTTTTAATCA-TCTATTTATGAAAAGTTACAAAATTA-CCATTTAA
1 ATTTTTTAATCACT-TAATTAT-AAAAGTTACAAAA-TAGCCATTTAA
22777340 CTATTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
48 1 0.03
49 17 0.44
50 19 0.49
51 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (49 bp):
ATTTTTTAATCACTTAATTATAAAAGTTACAAAATAGCCATTTAATTAT
Found at i:22778883 original size:12 final size:12
Alignment explanation
Indices: 22778866--22778895 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22778856 TTGCATATAA
22778866 ACCCAAACTCAG
1 ACCCAAACTCAG
*
22778878 ACCCAAGCTCAG
1 ACCCAAACTCAG
22778890 ACCCAA
1 ACCCAA
22778896 TTACCGAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.10, T:0.07
Consensus pattern (12 bp):
ACCCAAACTCAG
Found at i:22780321 original size:27 final size:27
Alignment explanation
Indices: 22780272--22780403 Score: 94
Period size: 27 Copynumber: 4.9 Consensus size: 27
22780262 GCATTAGTTC
* * *
22780272 TTTT-AATTTTTTTTACATATTATTTA
1 TTTTAAATATTTTTTATATGTTATTTA
22780298 TTTTAAATATTTTTTATATGTTATTTA
1 TTTTAAATATTTTTTATATGTTATTTA
* *
22780325 TTTTAAACTACTTGATATATATATATTATTTA
1 TTTTAAA-TA-TT--T-TTTATATGTTATTTA
*
22780357 TTAT-AA-A-TTTTTATATGTTATTTA
1 TTTTAAATATTTTTTATATGTTATTTA
* * *
22780381 -GTTATATTATTTTATATATGTTA
1 TTTTA-AATATTTTTTATATGTTA
22780404 ACTACTTTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.01
24 13 0.15
25 2 0.02
26 5 0.06
27 39 0.46
28 2 0.02
29 3 0.04
31 3 0.04
32 16 0.19
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTAAATATTTTTTATATGTTATTTA
Found at i:22780354 original size:32 final size:27
Alignment explanation
Indices: 22780288--22780372 Score: 91
Period size: 32 Copynumber: 3.0 Consensus size: 27
22780278 TTTTTTTTAC
*
22780288 ATATTATTTATTTTAAATATTTTTTAT
1 ATATTATTTATTTTAAATATTTTATAT
*
22780315 ATGTTATTTATTTTAAACTACTTGATATATAT
1 ATATTATTTATTTTAAA-TA-TT--T-TATAT
*
22780347 ATATTATTTATTATAAAT-TTTTATAT
1 ATATTATTTATTTTAAATATTTTATAT
22780373 GTTATTTAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
26 5 0.10
27 17 0.35
28 2 0.04
29 4 0.08
31 2 0.04
32 19 0.39
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATTATTTATTTTAAATATTTTATAT
Found at i:22780393 original size:25 final size:24
Alignment explanation
Indices: 22780344--22780399 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
22780334 ACTTGATATA
22780344 TATATATTATTTATTATAAATTTT
1 TATATATTATTTATTATAAATTTT
* *
22780368 TATATGTTATTTAGTTAT-ATTATTT
1 TATATATTATTTA-TTATAAAT-TTT
22780393 TATATAT
1 TATATAT
22780400 GTTAACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TATATATTATTTATTATAAATTTT
Found at i:22781646 original size:26 final size:26
Alignment explanation
Indices: 22781610--22781771 Score: 256
Period size: 26 Copynumber: 6.2 Consensus size: 26
22781600 TGATACAAAT
22781610 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
22781636 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
22781662 TGATAATGGGTTAGGTAAATGCTT-CA
1 TGATAATAGGTTAGGTAAATG-TTCCA
22781688 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
22781714 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
22781740 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
22781766 TGATAA
1 TGATAA
22781772 GAATTTCATG
Statistics
Matches: 129, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
25 3 0.02
26 124 0.96
27 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:22781700 original size:78 final size:78
Alignment explanation
Indices: 22781610--22781771 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
22781600 TGATACAAAT
*
22781610 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
22781675 GGTAAATGCTTCA
66 GGTAAATGCTTCA
* *
22781688 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGAGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
*
22781753 GGTAAATGTTTCA
66 GGTAAATGCTTCA
22781766 TGATAA
1 TGATAA
22781772 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGAGTTA
GGTAAATGCTTCA
Found at i:22783415 original size:27 final size:27
Alignment explanation
Indices: 22783383--22783522 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
22783373 GAGGAAGCGT
* *
22783383 TCTGGTGGTTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
22783410 TCTGGTGGCTCTGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
22783437 TCTGGTGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
22783463 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
22783492 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
22783518 TCTGG
1 TCTGG
22783523 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.06
27 77 0.78
28 15 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:22786476 original size:11 final size:11
Alignment explanation
Indices: 22786460--22786489 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
22786450 TGGGTATTGG
22786460 GCTGATGGTTA
1 GCTGATGGTTA
22786471 GCTGATGGTTA
1 GCTGATGGTTA
22786482 GCTGATGG
1 GCTGATGG
22786490 GTAAATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.40, T:0.33
Consensus pattern (11 bp):
GCTGATGGTTA
Found at i:22786546 original size:21 final size:19
Alignment explanation
Indices: 22786512--22786563 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
22786502 TTAATTTGTA
22786512 TTGGGTTTGTAGGTTTAAT
1 TTGGGTTTGTAGGTTTAAT
*
22786531 TTGGGTTTGGGTAGGTTTAGTT
1 TTGGGTTT--GTAGGTTTA-AT
22786553 ATTGGGTTTGT
1 -TTGGGTTTGT
22786564 TGTATTGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.29
21 11 0.39
22 1 0.04
23 8 0.29
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.52
Consensus pattern (19 bp):
TTGGGTTTGTAGGTTTAAT
Found at i:22787425 original size:53 final size:53
Alignment explanation
Indices: 22787345--22787448 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
22787335 ACGTGTATTG
22787345 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
* *
22787398 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATT
22787449 GAAAATACCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAA
Found at i:22787572 original size:105 final size:102
Alignment explanation
Indices: 22787385--22787591 Score: 369
Period size: 105 Copynumber: 2.0 Consensus size: 102
22787375 GATTTTTGAA
*
22787385 AAACAAAAATTAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTG
1 AAACAAAAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG
22787450 AAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTC
66 AAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTC
*
22787487 AAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
1 AAACAAAAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAA
22787552 TTGAAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTC
63 TTGAAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTC
22787592 TCACAATATG
Statistics
Matches: 100, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
102 10 0.10
103 33 0.33
105 57 0.57
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (102 bp):
AAACAAAAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG
AAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTC
Found at i:22787639 original size:54 final size:55
Alignment explanation
Indices: 22787576--22787685 Score: 186
Period size: 54 Copynumber: 2.0 Consensus size: 55
22787566 GCGTGTATTG
22787576 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATT-AAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTGAAA
** *
22787630 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTGAAA
22787685 A
1 A
22787686 TTCCTCAGCG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 48 0.92
55 4 0.08
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTGAAA
Found at i:22787644 original size:232 final size:232
Alignment explanation
Indices: 22787199--22787884 Score: 905
Period size: 232 Copynumber: 2.9 Consensus size: 232
22787189 GAAACTTAAC
* ** *
22787199 TTGAAAAGCAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCAAACAGAA
1 TTGAAAAACAGAAATTGAAAATACCTCAG-CGTGT-A-CCGAGGCTCAACTCACCTCAAACAGAA
*
22787263 ATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTTTGAAAAACAGAAATCGAAAA
63 ATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTTTGAAAAACAGAAATTGAAAA
*
22787328 TACCTCAACGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAA
127 TACCTCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAA
22787393 ATT-AAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
192 ATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
**
22787433 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTCAAACAGAAATT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACCGAGGCTCAACTCACCTCAAACAGAAATT
22787498 AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
66 AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
*
22787563 TCAGCGTGTATTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAATTA
131 TCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
22787628 AAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
196 AAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
* *
22787665 TTGAAAAACAGAAATTGAAAATTCCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACCGAGGCTCAACTCA-C-CT--C-------
* * *
22787730 GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTTGTAATATGAGTTGA--TTTT
55 -----------AAAC--AGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
** * *
22787793 TGAAAAACAGAAATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTTTCGTAATATGAG
107 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAG
*
22787857 TTGATTTTTGAAAAACAGAAATTGAAAA
172 TTGATTTTTGAAAAACAAAAATT-AAAA
22787885 TACCTCAGCG
Statistics
Matches: 403, Mismatches: 22, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
231 88 0.22
232 149 0.37
233 2 0.00
234 30 0.07
235 1 0.00
236 1 0.00
253 49 0.12
254 43 0.11
256 40 0.10
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (232 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTACCGAGGCTCAACTCACCTCAAACAGAAATT
AAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACC
TCAGCGTGTATTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
AAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
Found at i:22787715 original size:127 final size:127
Alignment explanation
Indices: 22787487--22787884 Score: 672
Period size: 127 Copynumber: 3.1 Consensus size: 127
22787477 AACTCACCTC
*
22787487 AAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
1 AAACAGAAATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAACAGAAA
** *
22787552 TTGAAAATACCTCAGCGTGTATTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAA
64 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
*
22787616 AAACAAAAATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT
1 AAACAGAAATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT
* *
22787681 GAAAATTCCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
66 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
*
22787743 AAACAGAAATTAAAAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTGAAAAACAGAAATT
1 AAACAGAAATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT
* *
22787808 GAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGAA
66 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
22787869 AAACAGAAATTGAAAA
1 AAACAGAAATT-AAAA
22787885 TACCTCAGCG
Statistics
Matches: 255, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
126 52 0.20
127 159 0.62
129 44 0.17
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (127 bp):
AAACAGAAATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATT
GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
Found at i:22787766 original size:54 final size:55
Alignment explanation
Indices: 22787703--22787812 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
22787693 GCGTGTCCCG
22787703 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
* *
22787757 AGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
22787812 A
1 A
22787813 TACCTCAGCG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
Found at i:22787851 original size:72 final size:73
Alignment explanation
Indices: 22787757--22787952 Score: 317
Period size: 72 Copynumber: 2.7 Consensus size: 73
22787747 AGAAATTAAA
22787757 AGGCTCAACTCACCTCTT-GTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
1 AGGCTCAACTCACCT-TTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
22787821 CGTG-CCTG
65 CGTGTCCCG
22787829 AGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
22787894 GTGTCCCG
66 GTGTCCCG
* *
22787902 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAAT
1 AGGCTCAACTCACCTTTCGTAATATGAGTTGA--TTTTTGAAAAACAGAAAT
22787953 AAAAACATTG
Statistics
Matches: 117, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
71 2 0.02
72 65 0.56
73 33 0.28
74 11 0.09
75 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
AGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
GTGTCCCG
Found at i:22802161 original size:24 final size:25
Alignment explanation
Indices: 22802131--22802185 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
22802121 GCCTATAACA
* *
22802131 TTTAAATTGC-TTTATATTATTTAT
1 TTTAAATTGCTTTTATAGTATCTAT
22802155 TTTAAATTGCTTTTATAGTATCTAT
1 TTTAAATTGCTTTTATAGTATCTAT
*
22802180 TCTAAA
1 TTTAAA
22802186 CCTTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTAAATTGCTTTTATAGTATCTAT
Found at i:22804415 original size:12 final size:12
Alignment explanation
Indices: 22804384--22804434 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
22804374 AAGATTGGAA
22804384 CAAATGCAAAGAG
1 CAAATGC-AAGAG
*
22804397 -ATATGCAAGAG
1 CAAATGCAAGAG
*
22804408 CAATTGCAAGCA-
1 CAAATGCAAG-AG
22804420 CAAATGCAAGAG
1 CAAATGCAAGAG
22804432 CAA
1 CAA
22804435 CTGGCTAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 6 0.19
12 24 0.77
13 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.12
Consensus pattern (12 bp):
CAAATGCAAGAG
Found at i:22808868 original size:131 final size:131
Alignment explanation
Indices: 22808629--22808926 Score: 452
Period size: 131 Copynumber: 2.3 Consensus size: 131
22808619 GTGAATTTAC
* * * * * * *
22808629 AGATCTTGTCTCCTTGAAGTTACAGTGAAAGAAATCGAAGACGGTAAATCTTGTCTCTCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTAAATCTTGTCTCCCTAACCA
* * * *
22808694 GTAGTGGAGCAGATTTAAGCCACCCTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
66 GTAGTGGAACAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
22808759 T
131 T
* * *
22808760 AGATTTTGTCTCCCTGAAGTTGCAGTGGAACAGGTCAAAGACGGTGAATCTTGTCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTAAATCTTGTCTCCCTAACCA
*
22808825 GTAGTGGAACAGATTTAAGCCACCATCCTATCTCTCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
66 GTAGTGGAACAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
22808890 T
131 T
*
22808891 AGATCTTGTCTCCCTGAAGTTGCAATGGAACAGATC
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
22808927 GAAGCCACTA
Statistics
Matches: 149, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (131 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTAAATCTTGTCTCCCTAACCA
GTAGTGGAACAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
T
Found at i:22809330 original size:192 final size:183
Alignment explanation
Indices: 22808939--22809438 Score: 531
Period size: 192 Copynumber: 2.7 Consensus size: 183
22808929 AGCCACTAAC
* * *
22808939 CTTATCTCCTTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTACCTCCCTGAAATTACAG
* * * *
22809004 TGGAGCAGACTTAAGATAGCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
66 TGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTATA
**
22809069 AATCCTATACCTCTGAAGTTGCAGCAGGTCGAATCAAATCTACCATGACGAAT
131 AATCCTATACCTCTGAAGTCACAGCAGGTCGAATCAAATCTACCATGACGAAT
*
22809122 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTAGCCCTTCCC-GAAATTG
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTA--CC-TCCCTGAAATTA
* * * * *
22809186 CAGTGGGGTAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTAGAATAGGTTAAAGCT
63 CAGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCT
* ** * * **
22809251 ACGAGTTACAAGTCCTATACCTTTGAAGTCACAGTGGGTCGGATCAAATCTATCATGGTGAAT
128 ---A--TA-AA-TCCTATACCTCTGAAGTCACAGCAGGTCGAATCAAATCTACCATGACGAAT
* * ** ** * * *
22809314 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAG-GCCATTAACCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACA--AGTCTTACCTCCCTGAAATTAC
** * * * *
22809377 AGTGGAGCAGGTTGAAGAT-GCAAATCTTAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGC
64 AGTGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGC
22809439 CACAAACCTT
Statistics
Matches: 263, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
183 47 0.18
185 62 0.24
186 4 0.02
188 1 0.00
189 40 0.15
190 27 0.10
191 8 0.03
192 74 0.28
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (183 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTACCTCCCTGAAATTACAG
TGGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCTATA
AATCCTATACCTCTGAAGTCACAGCAGGTCGAATCAAATCTACCATGACGAAT
Found at i:22809429 original size:88 final size:87
Alignment explanation
Indices: 22809309--22809511 Score: 257
Period size: 88 Copynumber: 2.3 Consensus size: 87
22809299 TCTATCATGG
* * ** * *
22809309 TGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TGAAGGCCATTAACCTTATCTCCCTGAAG
1 TGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAA-GCCACAAACCTTATCCCCCTGAAA
22809373 TTGCAGTGGAGCAGGTTGAAG-A
65 TTGCAGTGGAGCAGGTTGAAGTA
* *
22809395 TGCAAATCTTAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAACCTTGTCCCCCTGAA
1 TG--AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAA
*
22809460 ATTGCAGTGGGGCAGGTTGAAGTTA
64 ATTGCAGTGGAGCAGGTTGAAG-TA
* *
22809485 TGATTATTATCTCTCTGAAGTTGCAGT
1 TGAATCTTATCTCTCTGAAGTTGCAGT
22809512 GGAGTGAATC
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
86 2 0.02
88 91 0.91
89 4 0.04
90 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (87 bp):
TGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAACCTTATCCCCCTGAAAT
TGCAGTGGAGCAGGTTGAAGTA
Found at i:22809480 original size:44 final size:44
Alignment explanation
Indices: 22809314--22809481 Score: 185
Period size: 44 Copynumber: 3.8 Consensus size: 44
22809304 CATGGTGAAT
* **
22809314 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATGAAGGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-GCCACAAAC
*** *
22809358 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAAC
* * * *
22809402 CTTAACTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAAC
* * * *
22809446 CTTGTCCCCCTGAAATTGCAGTGGGGCAGGTTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG
22809482 TTATGATTAT
Statistics
Matches: 100, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 95 0.95
45 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAAC
Found at i:22811213 original size:27 final size:27
Alignment explanation
Indices: 22811183--22811298 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 27
22811173 CTTTAATTTT
*
22811183 TTTTTTACATATTATTTATTTTAAATA
1 TTTTTTATATATTATTTATTTTAAATA
*
22811210 TTTTTTATATGTTATTTATTTTAAACTA
1 TTTTTTATATATTATTTATTTTAAA-TA
* * * *
22811238 CTTGATATATATATTATTTATTATAAATT
1 -TT-TTTTATATATTATTTATTTTAAATA
* *
22811267 TTTATGTTATTTAGTTATATTATTTTATATA
1 TTT-T-TTATATA-TTAT-TTATTTTAAATA
22811298 T
1 T
22811299 GTTAACTACT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
27 23 0.33
28 5 0.07
29 8 0.12
30 23 0.33
31 10 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTTTATATATTATTTATTTTAAATA
Found at i:22811255 original size:30 final size:27
Alignment explanation
Indices: 22811191--22811265 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 27
22811181 TTTTTTTTAC
* *
22811191 ATATTATTTATTTTAAATATTTTTTAT
1 ATATTATTTATTTTAAATATTATATAT
*
22811218 ATGTTATTTATTTTAAACTACTTGATATAT
1 ATATTATTTATTTTAAA-TA-TT-ATATAT
*
22811248 ATATTATTTATTATAAAT
1 ATATTATTTATTTTAAAT
22811266 TTTTATGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 16 0.40
28 2 0.05
29 3 0.08
30 19 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
ATATTATTTATTTTAAATATTATATAT
Found at i:22811536 original size:25 final size:24
Alignment explanation
Indices: 22811507--22811555 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
22811497 TATTTTTTGA
22811507 ATATTATTGATTTTTAAATTGCTTT
1 ATATTATTGA-TTTTAAATTGCTTT
*
22811532 ATATTATTTATTTTAAATTGCTTT
1 ATATTATTGATTTTAAATTGCTTT
22811556 TATAGTATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (24 bp):
ATATTATTGATTTTAAATTGCTTT
Found at i:22811545 original size:24 final size:25
Alignment explanation
Indices: 22811507--22811573 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
22811497 TATTTTTTGA
*
22811507 ATATTATTGATTTTTAAATTGC-TTT
1 ATATTATTTA-TTTTAAATTGCTTTT
22811532 ATATTATTTATTTTAAATTGCTTTT
1 ATATTATTTATTTTAAATTGCTTTT
* * *
22811557 ATAGTATCTATTCTAAA
1 ATATTATTTATTTTAAA
22811574 CTTTTATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 11 0.30
25 26 0.70
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (25 bp):
ATATTATTTATTTTAAATTGCTTTT
Found at i:22811585 original size:2 final size:2
Alignment explanation
Indices: 22811578--22811608 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22811568 TCTAAACTTT
22811578 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 T
22811609 TATGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22816246 original size:31 final size:31
Alignment explanation
Indices: 22816211--22816269 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22816201 ATGAATTATC
* *
22816211 AAATTAAATTAATTAATTTATAAGAGTTACT
1 AAATTAAAGTAATCAATTTATAAGAGTTACT
* *
22816242 AAATTTAAGTAATCAATTTATAATAGTT
1 AAATTAAAGTAATCAATTTATAAGAGTT
22816270 TCTTGAATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (31 bp):
AAATTAAAGTAATCAATTTATAAGAGTTACT
Found at i:22820967 original size:40 final size:40
Alignment explanation
Indices: 22820775--22820960 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
22820765 TCGAATGATG
* * * *
22820775 TCCGGGCTAAGTCCCGAAGGC-TTTGCGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
22820815 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22820855 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22820895 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22820936 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22820961 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22820967 original size:80 final size:79
Alignment explanation
Indices: 22820775--22820983 Score: 230
Period size: 80 Copynumber: 2.6 Consensus size: 79
22820765 TCGAATGATG
** * * *
22820775 TCCGGGCTAAGTCCCGAAGGC-TTTGCGCTAAGT-GACTATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTAG-CTAAATCCGG-TTAAG-TCCCGAAGGCA
22820837 TTTGTGCGAGTTACTAAA
62 TTTGTGCGAGTTACTAAA
* **
22820855 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGAGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCCG-GTTAAGTCCCGAAGGCATT
22820919 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* *
22820936 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAA
22820984 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
79 8 0.07
80 94 0.84
81 10 0.09
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:22829392 original size:22 final size:22
Alignment explanation
Indices: 22829353--22829397 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
22829343 CGAAAAAGGG
*
22829353 TTACAGAGTATTACCAGA-ATT
1 TTACAGAGTATTAACAGACATT
*
22829374 TTACAGATTAATTAACAGACATT
1 TTACAGAGT-ATTAACAGACATT
22829397 T
1 T
22829398 CATATCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TTACAGAGTATTAACAGACATT
Found at i:22830616 original size:24 final size:24
Alignment explanation
Indices: 22830589--22830636 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22830579 TTAGGTAAGA
22830589 TTAACATACATGTATTATCTATCT
1 TTAACATACATGTATTATCTATCT
22830613 TTAACATACATGTATTATCTATCT
1 TTAACATACATGTATTATCTATCT
22830637 CATATTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (24 bp):
TTAACATACATGTATTATCTATCT
Found at i:22830907 original size:50 final size:50
Alignment explanation
Indices: 22830825--22830919 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
22830815 CAAGTATGTA
* *
22830825 AACGGGAAGCTCTTCCGAGCCATATAATGGGAAGCTCATATGAGCTAAGT
1 AACGGGAAGCTCATACGAGCCATATAATGGGAAGCTCATATGAGCTAAGT
* * *
22830875 AACGGGAAGCTCATATGAGCCTTAT-ATCGGGAAGCTCATGTGAGC
1 AACGGGAAGCTCATACGAGCCATATAAT-GGGAAGCTCATATGAGC
22830920 CAAATGTCTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 2 0.05
50 37 0.95
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (50 bp):
AACGGGAAGCTCATACGAGCCATATAATGGGAAGCTCATATGAGCTAAGT
Found at i:22830932 original size:25 final size:25
Alignment explanation
Indices: 22830827--22830937 Score: 98
Period size: 25 Copynumber: 4.4 Consensus size: 25
22830817 AGTATGTAAA
* ** *
22830827 CGGGAAGCTCTTCCGAGCCATATAAT
1 CGGGAAGCTCATATGAGCCAAAT-AT
* * *
22830853 -GGGAAGCTCATATGAGCTAAGTAA
1 CGGGAAGCTCATATGAGCCAAATAT
**
22830877 CGGGAAGCTCATATGAGCCTTATAT
1 CGGGAAGCTCATATGAGCCAAATAT
* *
22830902 CGGGAAGCTCATGTGAGCCAAATGT
1 CGGGAAGCTCATATGAGCCAAATAT
*
22830927 CTGGAAGCTCA
1 CGGGAAGCTCA
22830938 AGAGAGCTGT
Statistics
Matches: 67, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
24 1 0.01
25 66 0.99
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (25 bp):
CGGGAAGCTCATATGAGCCAAATAT
Found at i:22838865 original size:10 final size:10
Alignment explanation
Indices: 22838850--22838878 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22838840 AAACCGATAG
22838850 TGGTGGTCGA
1 TGGTGGTCGA
22838860 TGGTGGTCGA
1 TGGTGGTCGA
22838870 TGGTGGTCG
1 TGGTGGTCG
22838879 CAACGATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.10, G:0.52, T:0.31
Consensus pattern (10 bp):
TGGTGGTCGA
Found at i:22846678 original size:30 final size:30
Alignment explanation
Indices: 22846626--22846683 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22846616 CACGGTCATG
* *
22846626 ACACACGGGTGTGTGCCCTACCCGTGTGTC
1 ACACACGGGCGTGTGCACTACCCGTGTGTC
* *
22846656 ACACACGGGCGTGTGGATTACCCGTGTG
1 ACACACGGGCGTGTGCACTACCCGTGTG
22846684 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGCACTACCCGTGTGTC
Found at i:22847321 original size:21 final size:19
Alignment explanation
Indices: 22847295--22847334 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
22847285 AGTTTTGATT
22847295 CTTAAAATAAAAAATTTAAAA
1 CTTAAAA-AAAAAA-TTAAAA
22847316 CTTAAAAAAAAAATTAAAA
1 CTTAAAAAAAAAATTAAAA
22847335 GTTCGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
CTTAAAAAAAAAATTAAAA
Found at i:22853019 original size:2 final size:2
Alignment explanation
Indices: 22853012--22853047 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
22853002 AGCCAACTTG
*
22853012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22853048 TTTACTTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22854585 original size:35 final size:35
Alignment explanation
Indices: 22854535--22854607 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
22854525 ATATAATCAT
*
22854535 GCATTGAAACCTATTTTAACTCATTAAATAACCAA
1 GCATTGAAACATATTTTAACTCATTAAATAACCAA
22854570 GCATTGAAACATATTTTAACTCATTAAATAACCAA
1 GCATTGAAACATATTTTAACTCATTAAATAACCAA
22854605 GCA
1 GCA
22854608 ATTATACACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (35 bp):
GCATTGAAACATATTTTAACTCATTAAATAACCAA
Found at i:22855894 original size:41 final size:43
Alignment explanation
Indices: 22855818--22855933 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 43
22855808 TCTCGGACGT
* *
22855818 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAG
*
22855861 GGTCTTACACG-AATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACACGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
* *
22855902 GTTCTTACACGTAACCACATATATCGATGCCA
1 GGTCTTACACGTAATCA-A-ATATCGATGCCA
22855934 ACGTCCTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
41 28 0.44
42 13 0.21
43 11 0.17
44 4 0.06
45 7 0.11
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:22857912 original size:35 final size:30
Alignment explanation
Indices: 22857839--22857895 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22857829 AGTTTTTTTT
*
22857839 ATTTTAAAA-TTTATGTTCAATTATTAACA
1 ATTTTAAAATTTTATGTTAAATTATTAACA
*
22857868 ATGTTAAAATTTTATGTTAAATTCATTA
1 ATTTTAAAATTTTATGTTAAATT-ATTA
22857896 GTACAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 12 0.50
31 4 0.17
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (30 bp):
ATTTTAAAATTTTATGTTAAATTATTAACA
Found at i:22865960 original size:10 final size:11
Alignment explanation
Indices: 22865928--22865962 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
22865918 CAGCCCATCC
22865928 ATATTAATTTTT
1 ATATT-ATTTTT
22865940 ATATTATTTTT
1 ATATTATTTTT
22865951 ATATTATTTTT
1 ATATTATTTTT
22865962 A
1 A
22865963 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:22866118 original size:30 final size:30
Alignment explanation
Indices: 22866084--22866147 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
22866074 ACTTAAAAAG
*
22866084 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAAAAATAAAAAAATTAA
* *
22866114 CAAATGCCTTTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAAAAAAATTAA
22866144 CAAA
1 CAAA
22866148 AAAATAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAAAAAAATTAA
Found at i:22869061 original size:17 final size:17
Alignment explanation
Indices: 22869031--22869078 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
22869021 TAGTTGCAAC
** *
22869031 GGTTTTTAAAAAATCAT
1 GGTTTTTACGAAATCAA
22869048 GGTTTTTACGAAATCAA
1 GGTTTTTACGAAATCAA
* *
22869065 GGGTTTTCCGAAAT
1 GGTTTTTACGAAAT
22869079 AACGAATAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
GGTTTTTACGAAATCAA
Found at i:22869621 original size:2 final size:2
Alignment explanation
Indices: 22869614--22869645 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
22869604 TATTTTGGTC
22869614 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
22869646 TAGAATGCTT
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:22870499 original size:191 final size:190
Alignment explanation
Indices: 22870124--22870503 Score: 573
Period size: 191 Copynumber: 2.0 Consensus size: 190
22870114 TGACAAGCTG
*
22870124 TTAAAAGGATTTTAAGGTACCTCGAAAACACTTTAAACAATACTTTCGTGTACAAAAGAACTACT
1 TTAAAAAGATTTTAAGGTACCTCGAAAACACTTTAAACAATACTTTCGTGTACAAAAGAACTACT
* *
22870189 ATTCTTAAGTTAGAATGTTTTACTGATGCAAACTGGGCATCTTGTCCTGAAGGTAGAAGATCCAC
66 ATTCTTAAGTTAGAATGTTTTACTGATGCAAACTGGGCATCTTGTACTAAAGGTAGAAGATCCAC
*
22870254 AATTGGGTTCTATATATTTTTGGGAGGTAGCCCAATGGCCTAATGTTCTAAGAAGCAAGC
131 AATTGGGTTCTATATATTTTTGAGAGGTAGCCCAATGGCCTAATGTTCTAAGAAGCAAGC
* * *
22870314 TTAAAAAGATTTTAAGGTACCTC-AAAGGCACTTTAAACAATGCTTTGGTGTACAAAAGAACTAC
1 TTAAAAAGATTTTAAGGTACCTCGAAA-ACACTTTAAACAATACTTTCGTGTACAAAAGAACTAC
* * * *
22870378 TGTTCTTAAGTTAGAATGTTTTTGCTGATGCAAATTGGGCATCTTGTATTAAAGGTAGAAGATCC
65 TATTCTTAAGTTAGAATG-TTTTACTGATGCAAACTGGGCATCTTGTACTAAAGGTAGAAGATCC
* * * * * * *
22870443 ACAATTGGGTTTTGTATATTTTTTAGAGGTAGCCTAATGGCTTAGTGTTTTAAGAAGCAAG
129 ACAATTGGGTTCTATATATTTTTGAGAGGTAGCCCAATGGCCTAATGTTCTAAGAAGCAAG
22870504 TAATGGTCTT
Statistics
Matches: 170, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
189 3 0.02
190 73 0.43
191 94 0.55
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (190 bp):
TTAAAAAGATTTTAAGGTACCTCGAAAACACTTTAAACAATACTTTCGTGTACAAAAGAACTACT
ATTCTTAAGTTAGAATGTTTTACTGATGCAAACTGGGCATCTTGTACTAAAGGTAGAAGATCCAC
AATTGGGTTCTATATATTTTTGAGAGGTAGCCCAATGGCCTAATGTTCTAAGAAGCAAGC
Found at i:22872416 original size:23 final size:24
Alignment explanation
Indices: 22872380--22872436 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
22872370 ATGTTCCAGC
*
22872380 AAAAACAAACAAAGAGAAA-AAGA-
1 AAAAAAAAACAAAGA-AAAGAAGAG
*
22872403 AAAAAAAAAGAAAGAAAAGAAGAG
1 AAAAAAAAACAAAGAAAAGAAGAG
22872427 AAAAAAAAAC
1 AAAAAAAAAC
22872437 CTAAACTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAGAAAAGAAGAG
Found at i:22872423 original size:26 final size:26
Alignment explanation
Indices: 22872380--22872435 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
22872370 ATGTTCCAGC
22872380 AAAAACAAACAAAGAGAAAAAGAAAAA
1 AAAAACAAACAAAGAG-AAAAGAAAAA
* * *
22872407 AAAAAGAAAGAAA-AGAAGAGAAAAA
1 AAAAACAAACAAAGAGAAAAGAAAAA
22872432 AAAA
1 AAAA
22872436 CCTAAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 13 0.50
26 2 0.08
27 11 0.42
ACGTcount: A:0.82, C:0.04, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAAACAAACAAAGAGAAAAGAAAAA
Found at i:22873730 original size:15 final size:16
Alignment explanation
Indices: 22873688--22873731 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
22873678 ATTAGGTTGA
22873688 GAAAATT-ATTTAATT
1 GAAAATTAATTTAATT
22873703 GGAAAA-TAA-TTAATT
1 -GAAAATTAATTTAATT
22873718 -AAAATTAATTTAAT
1 GAAAATTAATTTAAT
22873732 AAATAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 3 0.12
15 12 0.48
16 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTTAATT
Found at i:22882456 original size:35 final size:35
Alignment explanation
Indices: 22882417--22882487 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
22882407 ATTCTATGTT
22882417 AATTCATCATAAATACCCAGAACTCATCAATGGTA
1 AATTCATCATAAATACCCAGAACTCATCAATGGTA
22882452 AATTCATCATAAATACCCAGAACTCATCAATGGTA
1 AATTCATCATAAATACCCAGAACTCATCAATGGTA
22882487 A
1 A
22882488 CTTTCAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (35 bp):
AATTCATCATAAATACCCAGAACTCATCAATGGTA
Found at i:22892011 original size:43 final size:43
Alignment explanation
Indices: 22891905--22892004 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
22891895 TATTTGAAAA
* *
22891905 AAACGCCGCTAAAGATCATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCCCAC
*
22891948 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCCTAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCCCAC
*
22891991 AAACGCCGTTAAAG
1 AAACGCCGCTAAAG
22892005 GCCATGAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCACTTTTCCCAC
Found at i:22892296 original size:18 final size:19
Alignment explanation
Indices: 22892259--22892299 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
22892249 ATTTAGAATC
22892259 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
22892278 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
22892296 AAAA
1 AAAA
22892300 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:22892301 original size:31 final size:31
Alignment explanation
Indices: 22892225--22892298 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
22892215 TCAAGTTATC
*
22892225 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
22892257 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
22892287 TTAAATATAAAA
1 TTAAATATAAAA
22892299 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:22897485 original size:14 final size:14
Alignment explanation
Indices: 22897468--22897516 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
22897458 ACTTAACCTT
*
22897468 TAACCCCTAACCCC
1 TAACACCTAACCCC
*
22897482 TAACTCCTAACCCC
1 TAACACCTAACCCC
*
22897496 TAACACCTAACACC
1 TAACACCTAACCCC
22897510 TAA-ACCT
1 TAACACCT
22897517 TAAACCCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (14 bp):
TAACACCTAACCCC
Found at i:22897485 original size:21 final size:22
Alignment explanation
Indices: 22897455--22897506 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
22897445 CTAAATCATG
* *
22897455 AACACTTAACCT-TTAACCCCT
1 AACACCTAACCTCCTAACCCCT
*
22897476 AACCCCTAA-CTCCTAACCCCT
1 AACACCTAACCTCCTAACCCCT
22897497 AACACCTAAC
1 AACACCTAAC
22897507 ACCTAAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (22 bp):
AACACCTAACCTCCTAACCCCT
Found at i:22897511 original size:21 final size:21
Alignment explanation
Indices: 22897468--22897512 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
22897458 ACTTAACCTT
* *
22897468 TAACCCCTAACCCCTAACTCC
1 TAACCCCTAACACCTAACACC
22897489 TAACCCCTAACACCTAACACC
1 TAACCCCTAACACCTAACACC
22897510 TAA
1 TAA
22897513 ACCTTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.18
Consensus pattern (21 bp):
TAACCCCTAACACCTAACACC
Found at i:22898129 original size:41 final size:41
Alignment explanation
Indices: 22898081--22898411 Score: 405
Period size: 41 Copynumber: 8.1 Consensus size: 41
22898071 GTTATATGAC
* *
22898081 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
22898122 TTATAGCGGCGTTTTACCAAAAGCGCCGCTACTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
** *
22898163 TTTTAGTTGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
22898204 TTTTAGCGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGG
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
22898245 TTTTAGCGGCGTTTTACCAAAAGTGCCGCCAATGCTGTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
22898286 TTTTAGCGGCGTATTACCAAAAGCGCCGTTATTTCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
22898326 TTTTAGCGGCGTTTTAACAAAAAACGCCGGTATTGCTC-CGT
1 TTTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGT
* * *
22898367 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG-GT
22898409 TTT
1 TTT
22898412 ACAATTTTTG
Statistics
Matches: 253, Mismatches: 33, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
40 35 0.14
41 213 0.84
42 5 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:22900766 original size:21 final size:21
Alignment explanation
Indices: 22900720--22900774 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
22900710 TATTAAACTA
*
22900720 ATAAAATTAATA--AAATATT
1 ATAAAAATAATATTAAATATT
*
22900739 ATCAAAATAATTATTAAAT-TT
1 ATAAAAATAA-TATTAAATATT
22900760 ATAAAAATAATATTA
1 ATAAAAATAATATTA
22900775 TTATTTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 8 0.27
20 7 0.23
21 11 0.37
22 4 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAATAATATTAAATATT
Found at i:22902395 original size:4 final size:4
Alignment explanation
Indices: 22902386--22902411 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
22902376 TTAAATTAAC
22902386 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
22902412 CATCATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:22906620 original size:23 final size:19
Alignment explanation
Indices: 22906594--22906636 Score: 50
Period size: 23 Copynumber: 2.1 Consensus size: 19
22906584 TTAAACAAAT
22906594 TCAAAATAAACAAACATTACTTC
1 TCAAAA-AAA-AAA-ATT-CTTC
22906617 TCAAAAAAAAAAATTCTTC
1 TCAAAAAAAAAAATTCTTC
22906636 T
1 T
22906637 ACTTTTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 3 0.15
23 6 0.30
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (19 bp):
TCAAAAAAAAAAATTCTTC
Found at i:22909362 original size:29 final size:27
Alignment explanation
Indices: 22909330--22909417 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
22909320 TTTTGAAATA
22909330 TTAAAAAATATTTTTTAATTTTTATACTT
1 TTAAAAAATATTTTTTAATTTTTA-A-TT
* **
22909359 TTAAATAAT-TTTAATAATTTTTAATT
1 TTAAAAAATATTTTTTAATTTTTAATT
*
22909385 TTTAAAAATAATTTTTATATATTTTTGAATT
1 TTAAAAAAT-ATTTTT-TA-ATTTTT-AATT
22909416 TT
1 TT
22909418 TAATTTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.19
27 1 0.02
28 15 0.32
29 10 0.21
30 6 0.13
31 6 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTAAAAAATATTTTTTAATTTTTAATT
Found at i:22909380 original size:10 final size:10
Alignment explanation
Indices: 22909301--22909383 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 10
22909291 TATGTCAATA
22909301 TTTAATTAATT
1 TTTAA-TAATT
22909312 TTTAA-AATT
1 TTTAATAATT
* *
22909321 TTTGA-AATA
1 TTTAATAATT
* *
22909330 TTAAAAAATAT
1 TTTAATAAT-T
*
22909341 TTT-TTAATT
1 TTTAATAATT
*
22909350 TTT-ATACTT
1 TTTAATAATT
*
22909359 TTAAATAA-T
1 TTTAATAATT
22909368 TTTAATAATT
1 TTTAATAATT
22909378 TTTAAT
1 TTTAAT
22909384 TTTTAAAAAT
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
9 32 0.58
10 16 0.29
11 7 0.13
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTAATAATT
Found at i:22909576 original size:32 final size:32
Alignment explanation
Indices: 22909539--22909599 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
22909529 AAAGAGAGAG
22909539 ACAAATTTAAAGACT-AAAAAATGAAAAAAAAA
1 ACAAATTTAAAGACTAAAAAAAT-AAAAAAAAA
22909571 ACAAATTTAAAGACTAAAAAAATAAAAAA
1 ACAAATTTAAAGACTAAAAAAATAAAAAA
22909600 CTAAAATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (32 bp):
ACAAATTTAAAGACTAAAAAAATAAAAAAAAA
Found at i:22911860 original size:90 final size:90
Alignment explanation
Indices: 22911724--22911954 Score: 345
Period size: 90 Copynumber: 2.6 Consensus size: 90
22911714 AACCATAAAA
* * * *
22911724 GTTGTAGGTTAATACGCTATCAGATGATTGTGAATGCACAACATATTTGCAAATGAGAGCTGCCA
1 GTTGCAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTGCAAATGAGAGCTGCAA
*
22911789 GAATGTGGGTGGATAAACCACCAGT
66 GAATGTGGATGGATAAACCACCAGT
* * * * *
22911814 GTTGCAGGTTAATACGCTGTCAGATGGTTATGAATACACAACATATTTGCATATGGGAGCTGTAA
1 GTTGCAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTGCAAATGAGAGCTGCAA
*
22911879 GAATGTGGATGGATGAACCACCAGT
66 GAATGTGGATGGATAAACCACCAGT
* *
22911904 GTTGCAGGTTAATACGTTGTTAGATGGTTGTGAATGCACAACATATTTGCA
1 GTTGCAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTGCA
22911955 GATTAAAGTT
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 126 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (90 bp):
GTTGCAGGTTAATACGCTGTCAGATGGTTGTGAATGCACAACATATTTGCAAATGAGAGCTGCAA
GAATGTGGATGGATAAACCACCAGT
Found at i:22915304 original size:28 final size:28
Alignment explanation
Indices: 22915291--22915396 Score: 76
Period size: 28 Copynumber: 3.8 Consensus size: 28
22915281 AGATAACATA
*
22915291 ATATATAATAAAATAAGAAATGAATAAT
1 ATATATAATAAAATAAGAAATAAATAAT
*** *
22915319 ATATATAATAAAATGATTTAATATATAAT
1 ATATATAATAAAAT-AAGAAATAAATAAT
* *
22915348 A-AAAT-ATATAAATAA-AAATATAATAAA
1 ATATATAATA-AAATAAGAAATA-AATAAT
* *
22915375 ATATA-AATAATATAACAAATAA
1 ATATATAATAAAATAAGAAATAA
22915397 TACATAAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
26 4 0.07
27 15 0.25
28 31 0.52
29 10 0.17
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
ATATATAATAAAATAAGAAATAAATAAT
Found at i:22915320 original size:24 final size:23
Alignment explanation
Indices: 22915270--22915386 Score: 70
Period size: 24 Copynumber: 5.2 Consensus size: 23
22915260 TATATATAAC
* *
22915270 AATAA-ATAATAAGAT-AACAT-
1 AATAATATAATAAAATAAAAATG
22915290 AAT-ATATAATAAAATAAGAAATG
1 AATAATATAATAAAATAA-AAATG
*
22915313 AATAATAT-ATATAAT-AAAATG
1 AATAATATAATAAAATAAAAATG
*
22915334 ATTTAATATATAATAAAATATATAAAT-
1 A-AT-A-ATATAATAAAATA-A-AAATG
* *
22915361 AAAAATATAATAAAATATAAAT-
1 AATAATATAATAAAATAAAAATG
22915383 AATA
1 AATA
22915387 TAACAAATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.01
20 12 0.16
21 7 0.09
22 12 0.16
23 10 0.13
24 21 0.28
25 7 0.09
27 2 0.03
28 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (23 bp):
AATAATATAATAAAATAAAAATG
Found at i:22915328 original size:48 final size:46
Alignment explanation
Indices: 22915265--22915421 Score: 128
Period size: 48 Copynumber: 3.4 Consensus size: 46
22915255 AAAATTATAT
* *
22915265 ATAACAATA-AATAATAAGATAACATAATATATAATAAAATA-AGAA
1 ATAAAAATATAATAATAAAATAA-ATAATATATAATAAAATATAGAA
* ** *
22915310 ATGAATAATATATATAATAAAATGATTTAATATATAATAAAATATATAA
1 AT-AAAAATATA-ATAATAAAAT-AAATAATATATAATAAAATATAGAA
* * *
22915359 ATAAAAATATAATAA-AATATAAATAATATA-ACA-AATAATACATAA
1 ATAAAAATATAATAATAAAATAAATAATATATA-ATAA-AATATAGAA
22915404 ATAAAAA-ATATATAATAA
1 ATAAAAATATA-ATAATAA
22915422 TTTTTTAAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
44 6 0.06
45 30 0.32
46 12 0.13
47 5 0.05
48 34 0.37
49 6 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (46 bp):
ATAAAAATATAATAATAAAATAAATAATATATAATAAAATATAGAA
Found at i:22915372 original size:19 final size:19
Alignment explanation
Indices: 22915316--22915475 Score: 71
Period size: 18 Copynumber: 7.9 Consensus size: 19
22915306 AGAAATGAAT
*
22915316 AATATATATAATAAAATGATTT
1 AATA-ATATAATAAAAT-A-TA
22915338 AAT-ATATAATAAAATATATA
1 AATAATATAAT-AAA-ATATA
22915358 AATAAAAATATAATAAAATATA
1 AAT---AATATAATAAAATATA
*
22915380 AATAATATAA-CAAATAATA
1 AATAATATAATAAAAT-ATA
*
22915399 CATAA-ATAA-AAAATATA
1 AATAATATAATAAAATATA
* ** *
22915416 TAATAATTTTTTAAATGTATA
1 -AATAATATAATAAA-ATATA
22915437 AATAATGTTTATAATAAAA-ATA
1 AATAA----TATAATAAAATATA
*
22915459 AATGATAT-ATAAAATAT
1 AATAATATAATAAAATAT
22915476 TTTAAATAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
17 9 0.08
18 21 0.19
19 15 0.14
20 19 0.18
21 8 0.07
22 20 0.19
23 3 0.03
24 13 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (19 bp):
AATAATATAATAAAATATA
Found at i:22915376 original size:16 final size:14
Alignment explanation
Indices: 22915338--22915418 Score: 69
Period size: 15 Copynumber: 5.6 Consensus size: 14
22915328 AAAATGATTT
22915338 AATATAT-AAT-AA
1 AATATATAAATAAA
22915350 AATATATAAATAAA
1 AATATATAAATAAA
*
22915364 AATATAATAAAATATA
1 AATAT-AT-AAATAAA
*
22915380 AATAATATAACA-AAT
1 AAT-ATATAA-ATAAA
*
22915395 AATACATAAATAAAA
1 AATATATAAAT-AAA
22915410 AATATATAA
1 AATATATAA
22915419 TAATTTTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
12 7 0.13
13 4 0.07
14 12 0.22
15 18 0.33
16 12 0.22
17 2 0.04
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AATATATAAATAAA
Found at i:22915377 original size:29 final size:29
Alignment explanation
Indices: 22915316--22915418 Score: 77
Period size: 30 Copynumber: 3.3 Consensus size: 29
22915306 AGAAATGAAT
*
22915316 AATATATATAATAAAATGATTTAATATATAATAA
1 AATATATA-AATAAAA--ATATAATA-A-AATAA
22915350 AATATATAAATAAAAATATAATAAAATATA
1 AATATATAAATAAAAATATAATAAAATA-A
*
22915380 AATA-AT--ATAACAAATAATACATAAATAAAA
1 AATATATAAATAA-AAAT-ATA-ATAAA-ATAA
22915410 AATATATAA
1 AATATATAA
22915419 TAATTTTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
27 4 0.07
28 4 0.07
29 9 0.15
30 16 0.27
31 11 0.19
33 7 0.12
34 8 0.14
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (29 bp):
AATATATAAATAAAAATATAATAAAATAA
Found at i:22915485 original size:31 final size:30
Alignment explanation
Indices: 22915444--22915501 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
22915434 ATAAATAATG
22915444 TTTATAATAAAAATAAATGATATATAAAATAT
1 TTTATAAT--AAATAAATGATATATAAAATAT
*
22915476 TTTA-AATAAATAAATTATATATAAAA
1 TTTATAATAAATAAATGATATATAAAA
22915502 AAATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 18 0.72
31 3 0.12
32 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TTTATAATAAATAAATGATATATAAAATAT
Found at i:22915703 original size:30 final size:30
Alignment explanation
Indices: 22915669--22915726 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22915659 ATAATAGCCA
* *
22915669 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
22915699 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
22915727 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:22917098 original size:90 final size:90
Alignment explanation
Indices: 22916958--22917539 Score: 869
Period size: 90 Copynumber: 6.5 Consensus size: 90
22916948 CTTTGAGCTT
* * *
22916958 CTCCCCGTCAAATACAAAGACGCCAAATCTG-CTATTTTCGATCTACTTCGATGTAAACACACGA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTACTTCGATGTAAACACACGA
22917022 ATGTCAGATCTGCTATCTTCGATCTG
65 ATGTCAGATCTGCTATCTTCGATCTG
* *
22917048 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATTTTCGATCTACTTCGATGTAAACACACAAA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
* *
22917113 TGTCAGATCTACTATCTTTGATCTG
66 TGTCAGATCTGCTATCTTCGATCTG
* * * *
22917138 CTCCTCGTCTATTACAAAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
*
22917203 TGTCAGATCTGTTATCTTCGATCTG
66 TGTCAGATCTGCTATCTTCGATCTG
* * * *
22917228 CTCCCCATCTATTACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACATGAA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
* *
22917293 TGTCAAATCTGCTATCTTTGATCTG
66 TGTCAGATCTGCTATCTTCGATCTG
* * * * * ** *
22917318 CTCCCCGTCTAATACAGAGACACTAAATTTATCATCTTCGATATGTTTCAATGTAAACACACGAA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
*
22917383 TATCAGATCTGCTATCTTCGATCTG
66 TGTCAGATCTGCTATCTTCGATCTG
* * *
22917408 CTCCCCGTCTATTACAGAGATGCCAAATCTATCATCTTCGATCTACTTCGATGTAAACACACGAA
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
22917473 TGTCAGATCTGCTATCTTCGATCTG
66 TGTCAGATCTGCTATCTTCGATCTG
*
22917498 CTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
1 CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
22917540 TTGTTCCCCG
Statistics
Matches: 443, Mismatches: 48, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
90 442 1.00
91 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (90 bp):
CTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTACTTCGATGTAAACACACGAA
TGTCAGATCTGCTATCTTCGATCTG
Found at i:22922112 original size:30 final size:30
Alignment explanation
Indices: 22922076--22922135 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
22922066 TAAGAGAATA
22922076 TTCACTCAAAGTTATGTTTTATTGAAACAC
1 TTCACTCAAAGTTATGTTTTATTGAAACAC
22922106 TTCACTCAAAGTTATGTTTTATTGAAACAC
1 TTCACTCAAAGTTATGTTTTATTGAAACAC
22922136 AAATATCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (30 bp):
TTCACTCAAAGTTATGTTTTATTGAAACAC
Found at i:22929165 original size:29 final size:29
Alignment explanation
Indices: 22929103--22929205 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
22929093 TACTCGATTT
**** * *
22929103 CGCACACTTAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
22929132 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
22929161 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22929190 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22929206 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:22937012 original size:29 final size:29
Alignment explanation
Indices: 22936950--22937052 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
22936940 TACTCGATTT
**** * *
22936950 CGCACACTTAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
22936979 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
22937008 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22937037 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22937053 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:22940285 original size:20 final size:20
Alignment explanation
Indices: 22940260--22940311 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
22940250 ATTATATATA
*
22940260 ATAATAAATAATAAGATAAC
1 ATAATAAATAATAAAATAAC
* *
22940280 ATAATATATAATAAAATAAG
1 ATAATAAATAATAAAATAAC
*
22940300 A-AATGAATAATA
1 ATAATAAATAATA
22940312 TATATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAATAAATAATAAAATAAC
Found at i:22940296 original size:28 final size:28
Alignment explanation
Indices: 22940248--22940324 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
22940238 GTAAATTTTA
* *
22940248 AAATTATATATAATAAT-AAATAATAAGAT
1 AAATAATATAT-ATAATAAAATAAGAA-AT
22940277 AACAT-A-ATATATAATAAAATAAGAAAT
1 AA-ATAATATATATAATAAAATAAGAAAT
*
22940304 GAATAATATATATAATAAAAT
1 AAATAATATATATAATAAAAT
22940325 GATTTAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 9 0.21
28 26 0.62
29 3 0.07
30 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (28 bp):
AAATAATATATATAATAAAATAAGAAAT
Found at i:22940359 original size:16 final size:16
Alignment explanation
Indices: 22940335--22940411 Score: 52
Period size: 16 Copynumber: 5.0 Consensus size: 16
22940325 GATTTAATAT
*
22940335 ATAATAAAATATATAA
1 ATAAAAAAATATATAA
* *
22940351 ATAAAAAAATAAAAAA
1 ATAAAAAAATATATAA
* *
22940367 ATATAAATA-ATAT-A
1 ATAAAAAAATATATAA
* * *
22940381 A-CAAATAATACATAA
1 ATAAAAAAATATATAA
*
22940396 ATAAAAATATATATAA
1 ATAAAAAAATATATAA
22940412 TAATTTTTTA
Statistics
Matches: 42, Mismatches: 16, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
13 3 0.07
14 5 0.12
15 4 0.10
16 30 0.71
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAAAAAATATATAA
Found at i:22940478 original size:31 final size:31
Alignment explanation
Indices: 22940426--22940500 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
22940416 TTTTTAAATG
*
22940426 TATAAATAATGTTTATAATAAAAATAAATGATA
1 TATAAAAAAT-TTTATAAT-AAAATAAATGATA
* * *
22940459 TATAAAACATTTTA-AATAAATTAAATTATA
1 TATAAAAAATTTTATAATAAAATAAATGATA
22940489 TATAAAAAATTT
1 TATAAAAAATTT
22940501 AAAAAGGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.59
31 3 0.08
32 4 0.11
33 8 0.22
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
TATAAAAAATTTTATAATAAAATAAATGATA
Found at i:22940697 original size:30 final size:30
Alignment explanation
Indices: 22940663--22940720 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22940653 ATAATAGCCA
* *
22940663 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
22940693 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
22940721 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:22950416 original size:72 final size:72
Alignment explanation
Indices: 22950261--22950601 Score: 377
Period size: 72 Copynumber: 4.7 Consensus size: 72
22950251 CAATGCTAAA
* * *
22950261 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATATATTAAATTTATGTTTTACTTGT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGG----ATATTAAATTTATGTTCTACTTAT
22950326 TTATGTGTAAT
62 TTATGTGTAAT
* *
22950337 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
22950402 GTGTAAT
66 GTGTAAT
* * * * * * *
22950409 CTTGTTTTATTAATAGTTGTTTATGTTTGGTATTTGGACATTGAATTTATGGTCTAATTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
22950474 GCT-TAGGA-
66 G-TGTA--AT
* * *
22950482 CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
* *
22950547 ACT-AAAT
66 -GTGTAAT
* * * * *
22950554 -TAGTTTTATCAATAGTTGTCTATATAT-GATTTTGGATATAAAATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTAT
22950602 TCACAGGTGA
Statistics
Matches: 228, Mismatches: 32, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
70 18 0.08
71 23 0.10
72 93 0.41
73 58 0.25
74 1 0.00
76 35 0.15
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTAAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:22951548 original size:29 final size:30
Alignment explanation
Indices: 22951505--22951562 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
22951495 ATAATAAAGT
* * *
22951505 AAAATTTCTTTAATTGATAATTT-TTATAA
1 AAAAATTCTTGAATTAATAATTTGTTATAA
*
22951534 AAAAATTCTTGAATTAATTATTTGTTATA
1 AAAAATTCTTGAATTAATAATTTGTTATA
22951563 TTATGACACG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (30 bp):
AAAAATTCTTGAATTAATAATTTGTTATAA
Found at i:22952588 original size:13 final size:13
Alignment explanation
Indices: 22952556--22952629 Score: 60
Period size: 13 Copynumber: 5.7 Consensus size: 13
22952546 ATTCAAATTT
*
22952556 TCAAAAACACTTC
1 TCAAAAGCACTTC
22952569 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* * *
22952582 TTAAAAGTACTTT
1 TCAAAAGCACTTC
* *
22952595 TCCACAA-CACTTT
1 T-CAAAAGCACTTC
* *
22952608 TCAAAAGCATTTT
1 TCAAAAGCACTTC
22952621 TCAAAAGCA
1 TCAAAAGCA
22952630 TTGCCAAACA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
12 4 0.08
13 43 0.86
14 3 0.06
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:22953042 original size:13 final size:13
Alignment explanation
Indices: 22953024--22953050 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22953014 TCCAGTGTTG
22953024 CCAGGCATATCTA
1 CCAGGCATATCTA
22953037 CCAGGCATATCTA
1 CCAGGCATATCTA
22953050 C
1 C
22953051 AAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (13 bp):
CCAGGCATATCTA
Found at i:22959256 original size:2 final size:2
Alignment explanation
Indices: 22959251--22959275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22959241 ACACACACAC
22959251 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 A
22959276 ACTTCTTGCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22964365 original size:2 final size:2
Alignment explanation
Indices: 22964358--22964403 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
22964348 GAGAATAAGT
22964358 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22964400 AG AG
1 AG AG
22964404 TTGGCGAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22967049 original size:137 final size:137
Alignment explanation
Indices: 22966803--22967089 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
22966793 TATTGGGCCT
** *
22966803 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
22966868 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
22966933 CATATGC
131 CATATGC
22966940 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
22967005 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
22967070 CATATGC
131 CATATGC
22967077 AAGCCCATTTGGG
1 AAGCCCATTTGGG
22967090 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:22967374 original size:25 final size:27
Alignment explanation
Indices: 22967337--22967390 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
22967327 TCAAACATGC
22967337 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
22967363 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
22967389 AT
1 AT
22967391 AACAGCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:22968910 original size:26 final size:26
Alignment explanation
Indices: 22968874--22968983 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
22968864 CATGATATTC
22968874 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
22968900 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
22968926 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
22968952 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
22968978 TTATCA
1 TTATCA
22968984 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:22969854 original size:26 final size:25
Alignment explanation
Indices: 22969816--22969879 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
22969806 GATACAGAAA
* *
22969816 GATGTGAATGGGAAAATTGTGCAAAT
1 GATGTGAA-GGGAAAACTGTGAAAAT
22969842 GATGTGGAAGGGAAAACTGTGAAAAT
1 GATGT-GAAGGGAAAACTGTGAAAAT
22969868 --TGTGAAGGGAAA
1 GATGTGAAGGGAAA
22969880 GATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 9 0.26
24 3 0.09
26 20 0.57
27 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.34, T:0.22
Consensus pattern (25 bp):
GATGTGAAGGGAAAACTGTGAAAAT
Found at i:22980963 original size:21 final size:20
Alignment explanation
Indices: 22980938--22980977 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
22980928 TACAGGGATC
22980938 ACACGCCCGTGTGGTCTAGGG
1 ACACGCCCGTGTGGT-TAGGG
*
22980959 ACACGCTCGTGTGGTTAGG
1 ACACGCCCGTGTGGTTAGG
22980978 CCGTGTGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGGTTAGGG
Found at i:22983125 original size:3 final size:3
Alignment explanation
Indices: 22983119--22983180 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
22983109 TATTGTTGTA
22983119 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22983167 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
22983181 CAAATAAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:22983503 original size:13 final size:14
Alignment explanation
Indices: 22983472--22983503 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
22983462 AACAGAGCAG
22983472 GAAAAAGAAAGAAA
1 GAAAAAGAAAGAAA
22983486 G-AAAAGAAA-AAA
1 GAAAAAGAAAGAAA
22983498 GAAAAA
1 GAAAAA
22983504 CTAAGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 12 0.71
14 1 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAGAAA
Found at i:23002734 original size:39 final size:39
Alignment explanation
Indices: 23002691--23002850 Score: 239
Period size: 39 Copynumber: 4.1 Consensus size: 39
23002681 AATTATATTA
*
23002691 CCAGCACAAAGCCTACGGGACTTTAGCCCAGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
*
23002730 CCAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
* * * *
23002769 CTAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
* * *
23002808 CTAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
23002847 CCAG
1 CCAG
23002851 TGTCTTGCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
CCAGCACAAAGCCTACGGGACTTTAGCCCGGATACATTT
Found at i:23003851 original size:34 final size:34
Alignment explanation
Indices: 23003789--23003863 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
23003779 AAATGTATAT
* *
23003789 ATATATATTCACCTTTGGTGATATCAAACCATAC
1 ATATATATTCACCTTTGATGATACCAAACCATAC
* * * *
23003823 ATATGTATTCACTTTTGATTATACCAAACTATAC
1 ATATATATTCACCTTTGATGATACCAAACCATAC
23003857 ATATATA
1 ATATATA
23003864 ATTATGTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (34 bp):
ATATATATTCACCTTTGATGATACCAAACCATAC
Found at i:23007928 original size:136 final size:135
Alignment explanation
Indices: 23007660--23007943 Score: 514
Period size: 136 Copynumber: 2.1 Consensus size: 135
23007650 TATTGGGCCT
** * *
23007660 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
23007725 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
23007790 TATGC
131 TATGC
23007795 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
23007860 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AG-CCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
*
23007925 ATATGT
130 ATATGC
23007931 AAGCCCATTTGGG
1 AAGCCCATTTGGG
23007944 GAGACTACTC
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
135 63 0.44
136 80 0.56
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:23009765 original size:26 final size:26
Alignment explanation
Indices: 23009729--23009864 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
23009719 CATGAATTTC
23009729 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23009755 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23009781 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23009807 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23009833 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23009859 TTATCA
1 TTATCA
23009865 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23012967 original size:26 final size:26
Alignment explanation
Indices: 23012933--23012989 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
23012923 GTGAAGATTT
*
23012933 AAAAAGATGGGAAAGGGAAAATTGTG
1 AAAATGATGGGAAAGGGAAAATTGTG
* * * *
23012959 CAAATGATGTGAAGGGGAAATTTGTG
1 AAAATGATGGGAAAGGGAAAATTGTG
23012985 AAAAT
1 AAAAT
23012990 TTTGAATGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.32, T:0.21
Consensus pattern (26 bp):
AAAATGATGGGAAAGGGAAAATTGTG
Found at i:23015417 original size:33 final size:33
Alignment explanation
Indices: 23015380--23015459 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
23015370 GGTACAATTT
**
23015380 GAAAAGGTTAGGTATACTTTGTGTATACCATAC
1 GAAAAGGAAAGGTATACTTTGTGTATACCATAC
*
23015413 GAAAAGGAAAGGTATACTTTGTGTATACCACT-T
1 GAAAAGGAAAGGTATACTTTGTGTATACCA-TAC
23015446 GAAAAGGAAAGGTA
1 GAAAAGGAAAGGTA
23015460 CACTATATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.28
Consensus pattern (33 bp):
GAAAAGGAAAGGTATACTTTGTGTATACCATAC
Found at i:23015484 original size:33 final size:33
Alignment explanation
Indices: 23015378--23015482 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
23015368 ATGGTACAAT
** * * *
23015378 TTGAAAAGGTTAGGTATACTTTGTGTATACCA-
1 TTGAAAAGGAAAGGTACACTATATGTATACCAC
* * * *
23015410 TACGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 T-TGAAAAGGAAAGGTACACTATATGTATACCAC
*
23015444 TTGAAAAGGAAAGGTACACTATATGTGTA-CAC
1 TTGAAAAGGAAAGGTACACTATATGTATACCAC
23015476 TTGAAAA
1 TTGAAAA
23015483 AGCTATGTGC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.17
33 51 0.81
34 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (33 bp):
TTGAAAAGGAAAGGTACACTATATGTATACCAC
Found at i:23015549 original size:33 final size:33
Alignment explanation
Indices: 23015467--23015583 Score: 128
Period size: 33 Copynumber: 3.6 Consensus size: 33
23015457 GTACACTATA
* *
23015467 TGTGTAC-ACTTGAAAAAGCTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGCTATGTGCACTTCG
* * *
23015499 TATGTACAAATTGAAAAGGTTATGTGCACTTCG
1 TGTGTACAACTTGAAAAGGCTATGTGCACTTCG
* ** *
23015532 TGTGTACCACTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAAGGCTATGTGCACTTCG
* *
23015565 GGTGTACAACTAGAAAAGG
1 TGTGTACAACTTGAAAAGG
23015584 AAAGATCCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
32 6 0.09
33 64 0.91
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGCTATGTGCACTTCG
Found at i:23019562 original size:25 final size:25
Alignment explanation
Indices: 23019528--23019612 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
23019518 CCATAACTCA
23019528 TATGAGCTTACTGATTTACAGCTCG
1 TATGAGCTTACTGATTTACAGCTCG
*
23019553 TATGAGCTTA-TCGATATT-CAGCCCG
1 TATGAGCTTACT-GAT-TTACAGCTCG
* * *
23019578 AAGGAGCTTACCG-TTTATC-GCTCG
1 TATGAGCTTACTGATTTA-CAGCTCG
23019602 TATGAGCTTAC
1 TATGAGCTTAC
23019613 ATGTTCAAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
23 2 0.04
24 15 0.31
25 29 0.60
26 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (25 bp):
TATGAGCTTACTGATTTACAGCTCG
Found at i:23029513 original size:2 final size:2
Alignment explanation
Indices: 23029506--23029546 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
23029496 ATAAAAACTC
23029506 AT AT AT AT 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 AT AT AT AT A
23029547 CATAAACATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23029733 original size:28 final size:28
Alignment explanation
Indices: 23029692--23029822 Score: 95
Period size: 28 Copynumber: 4.6 Consensus size: 28
23029682 TCTCGAAGTT
* *
23029692 TCGCACACTCAGTGCCTTCAC-GGATGTA
1 TCGCACACTAAGTGCCATC-CTGGATGTA
*
23029720 TCGCACACTAAGTGCCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATGTA
* * * ** *
23029748 TTGCCCACTAAGTGCCATCTTTAAT-AA
1 TCGCACACTAAGTGCCATCCTGGATGTA
* * * * *
23029775 TTTGCACAGTAAGTGCTATTTCTGGATGTT
1 -TCGCACACTAAGTGCCA-TCCTGGATGTA
23029805 TCGCACACTAAGTGCCAT
1 TCGCACACTAAGTGCCAT
23029823 TCTCAATAAT
Statistics
Matches: 77, Mismatches: 22, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
27 1 0.01
28 58 0.75
29 18 0.23
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTGGATGTA
Found at i:23029819 original size:57 final size:56
Alignment explanation
Indices: 23029720--23029846 Score: 159
Period size: 57 Copynumber: 2.2 Consensus size: 56
23029710 CACGGATGTA
* *
23029720 TCGCACACTAAGTGCCATCCTGGATGTCTTGCCCACTAAGTGCCA-TCTTTAATAAT
1 TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATTC-TCAATAAT
* * * *
23029776 TTGCACAGTAAGTGCTATTTCTGGATGT-TTCGCACACTAAGTGCCATTCTCAATAAT
1 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GCACACTAAGTGCCATTCTCAATAAT
23029833 TCGCACACTAAGTG
1 TCGCACACTAAGTG
23029847 TCGTTTTCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
56 16 0.27
57 42 0.70
58 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATTCTCAATAAT
Found at i:23029836 original size:28 final size:28
Alignment explanation
Indices: 23029753--23029846 Score: 91
Period size: 28 Copynumber: 3.3 Consensus size: 28
23029743 ATGTCTTGCC
* *
23029753 CACTAAGTGCCA-TCTTTAATAATTTGCA
1 CACTAAGTGCCATTC-TCAATAATTCGCA
* * ** **
23029781 CAGTAAGTGCTATTTCTGGATGTTTCGCA
1 CACTAAGTGCCA-TTCTCAATAATTCGCA
23029810 CACTAAGTGCCATTCTCAATAATTCGCA
1 CACTAAGTGCCATTCTCAATAATTCGCA
23029838 CACTAAGTG
1 CACTAAGTG
23029847 TCGTTTTCAC
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
28 31 0.61
29 18 0.35
30 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (28 bp):
CACTAAGTGCCATTCTCAATAATTCGCA
Found at i:23034633 original size:24 final size:24
Alignment explanation
Indices: 23034605--23034654 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
23034595 TGTGGAGGGT
23034605 CAGATTTTGTACTATAAATTAGTC
1 CAGATTTTGTACTATAAATTAGTC
23034629 CAGATTTTGTACTATAAATTAGTC
1 CAGATTTTGTACTATAAATTAGTC
23034653 CA
1 CA
23034655 TTTCATGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (24 bp):
CAGATTTTGTACTATAAATTAGTC
Found at i:23038445 original size:2 final size:2
Alignment explanation
Indices: 23038438--23038469 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23038428 GTAGTAAACA
23038438 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
23038470 TTTAAATTAG
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:23038604 original size:5 final size:5
Alignment explanation
Indices: 23038594--23038618 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23038584 AGTAGACTTC
23038594 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
23038619 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:23038847 original size:7 final size:8
Alignment explanation
Indices: 23038830--23038854 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23038820 TTGTGTGTTC
23038830 TTTATTTT
1 TTTATTTT
23038838 TTTATTTT
1 TTTATTTT
23038846 TTTATTTT
1 TTTATTTT
23038854 T
1 T
23038855 CACAAATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:23043056 original size:5 final size:5
Alignment explanation
Indices: 23043046--23043070 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23043036 ACTATACTTC
23043046 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
23043071 GAATAAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:23047440 original size:3 final size:3
Alignment explanation
Indices: 23047432--23047456 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23047422 TACTAAAACT
23047432 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
23047457 ATATATATAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.