Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 108 of 173
Found at i:33574170 original size:15 final size:15
Alignment explanation
Indices: 33574152--33574182 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33574142 AAACCTATAA
*
33574152 AAATTAAATTAAACT
1 AAATTAAATAAAACT
33574167 AAATTAAATAAAACT
1 AAATTAAATAAAACT
33574182 A
1 A
33574183 CTAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:33579075 original size:23 final size:23
Alignment explanation
Indices: 33579034--33579081 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33579024 GGTAAATAGT
* *
33579034 TTAAATTGTGAATGTTTGATTTA
1 TTAAATTGTGAATGATTGAGTTA
33579057 TTAAATTTGTGAAT-ATTGAGTTA
1 TTAAA-TTGTGAATGATTGAGTTA
33579080 TT
1 TT
33579082 TAGGGATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (23 bp):
TTAAATTGTGAATGATTGAGTTA
Found at i:33589027 original size:33 final size:33
Alignment explanation
Indices: 33588990--33589057 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
33588980 CTCTGATACT
33588990 AATGTGAACATTTACTAATTGTAATTATCATGC
1 AATGTGAACATTTACTAATTGTAATTATCATGC
33589023 AATGTGAACATTTACTAATTGTAATTATCATGC
1 AATGTGAACATTTACTAATTGTAATTATCATGC
33589056 AA
1 AA
33589058 GATTATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
AATGTGAACATTTACTAATTGTAATTATCATGC
Found at i:33589530 original size:15 final size:15
Alignment explanation
Indices: 33589510--33589538 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33589500 CTTAGTTTAC
33589510 ACGTTCATGCCCAAA
1 ACGTTCATGCCCAAA
33589525 ACGTTCATGCCCAA
1 ACGTTCATGCCCAA
33589539 CTCTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.21
Consensus pattern (15 bp):
ACGTTCATGCCCAAA
Found at i:33591417 original size:24 final size:24
Alignment explanation
Indices: 33591390--33591469 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
33591380 TACCCGATAT
*
33591390 TGGCTCGCATGAGCTTCCTGATT-A
1 TGGCTCACATGAGCTTCCTG-TTAA
** *
33591414 TGGCTCTTATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCTGTTA-A
*
33591439 TGGCTCACATTAGCTTCCTGTTACA
1 TGGCTCACATGAGCTTCCTGTTA-A
33591464 TGGCTC
1 TGGCTC
33591470 GAAAGGGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
23 2 0.04
24 17 0.36
25 28 0.60
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCTGTTAA
Found at i:33591443 original size:49 final size:48
Alignment explanation
Indices: 33591312--33591458 Score: 127
Period size: 49 Copynumber: 3.0 Consensus size: 48
33591302 CATCCCGACA
* * * **
33591312 TATGGTTCTTACGAGCTTCCCGATTAAAGGCTCTCCCATGAGCTTCCCAAT
1 TATGGCTCTTACGAGCTTCCCG-TTAATGG--CTCACATGAGCTTCCTGAT
* * *
33591363 TAATGGCTCTT-CGGAG-TTACCCGATATTGGCTCGCATGAGCTTCCTGAT
1 T-ATGGCTCTTAC-GAGCTT-CCCGTTAATGGCTCACATGAGCTTCCTGAT
* *
33591412 TATGGCTCTTATGAGCTTCCCGTTACATGGCTCACATTAGCTTCCTG
1 TATGGCTCTTACGAGCTTCCCGTTA-ATGGCTCACATGAGCTTCCTG
33591459 TTACATGGCT
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
48 18 0.23
49 37 0.47
51 8 0.10
52 15 0.19
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (48 bp):
TATGGCTCTTACGAGCTTCCCGTTAATGGCTCACATGAGCTTCCTGAT
Found at i:33594742 original size:27 final size:27
Alignment explanation
Indices: 33594670--33594767 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
33594660 CGGAGTACAT
*
33594670 CACAAAGGCTA-TCTTTACAGGATTCGC
1 CACAAAGGCTATTCTTT-CAGAATTCGC
* * * * * * *
33594697 CATAGAGGTTATCCCTTCATAATTTGC
1 CACAAAGGCTATTCTTTCAGAATTCGC
* *
33594724 CACTAAGGCTATTCTTTCAGAGTTCGC
1 CACAAAGGCTATTCTTTCAGAATTCGC
33594751 CACAAAGGCTATTCTTT
1 CACAAAGGCTATTCTTT
33594768 TAGATTTTAC
Statistics
Matches: 52, Mismatches: 18, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
27 49 0.94
28 3 0.06
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (27 bp):
CACAAAGGCTATTCTTTCAGAATTCGC
Found at i:33594784 original size:27 final size:27
Alignment explanation
Indices: 33594723--33594795 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
33594713 TCATAATTTG
* *
33594723 CCACTAAGGCTATTCTTTCAGAGTTCG
1 CCACAAAGGCTATTCTTTCAGAGTTCA
* * *
33594750 CCACAAAGGCTATTCTTTTAGATTTTA
1 CCACAAAGGCTATTCTTTCAGAGTTCA
* * *
33594777 CCATAAAGGTTTTTCTTTC
1 CCACAAAGGCTATTCTTTC
33594796 CTTATGTGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (27 bp):
CCACAAAGGCTATTCTTTCAGAGTTCA
Found at i:33597853 original size:23 final size:22
Alignment explanation
Indices: 33597800--33597858 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
33597790 AGCATACGAT
* *
33597800 AAAATTA-TATTTTAATTTTTA
1 AAAATTATTAATTTATTTTTTA
33597821 AAAATT-TTAATTTATTTTGTTA
1 AAAATTATTAATTTATTTT-TTA
*
33597843 AAAATTATTAAATTAT
1 AAAATTATTAATTTAT
33597859 AAATTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 15 0.47
22 9 0.28
23 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
AAAATTATTAATTTATTTTTTA
Found at i:33599745 original size:52 final size:52
Alignment explanation
Indices: 33599684--33599789 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
33599674 ATCAATGAAA
*
33599684 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAGTTAAGAATTT
1 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
33599736 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
1 AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
33599788 AA
1 AA
33599790 GGATTTTTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (52 bp):
AATCATGCAATAATATTTAAACACAATCCTTTAAAACCCTAATTAAGAATTT
Found at i:33600188 original size:22 final size:22
Alignment explanation
Indices: 33600158--33600215 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
33600148 ATTTCCTCTC
33600158 AATTCCTCTCAAATTCATTCCAA
1 AATT-CTCTCAAATTCATTCCAA
* *
33600181 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAAATTCATTCCAA
33600203 AATTCTCTCAAAT
1 AATTCTCTCAAAT
33600216 CTATATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTCTCTCAAATTCATTCCAA
Found at i:33600243 original size:51 final size:51
Alignment explanation
Indices: 33600185--33600300 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
33600175 TTCCAAAATT
* * *
33600185 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
*
33600236 CTCTCAATTTCCTTCAAAAATTTTCTCAAATCCATATTTAATTTAAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
*
33600287 TTCTCAATTTCCTT
1 CTCTCAATTTCCTT
33600301 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTAAATTTC
Found at i:33601453 original size:7 final size:7
Alignment explanation
Indices: 33601443--33601467 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33601433 ATTCGATTGA
33601443 TATTTAG
1 TATTTAG
33601450 TATTTAG
1 TATTTAG
33601457 TATTTAG
1 TATTTAG
33601464 TATT
1 TATT
33601468 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33602146 original size:18 final size:18
Alignment explanation
Indices: 33602120--33602154 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33602110 AGGTGCGTTT
*
33602120 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
33602138 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
33602155 TCCTTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:33605171 original size:126 final size:125
Alignment explanation
Indices: 33604875--33605226 Score: 510
Period size: 126 Copynumber: 2.8 Consensus size: 125
33604865 CCCAAACATG
* * *
33604875 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
33604940 TATAAGCGATTTTATATTATTTTATCAGAAACGTC-AAAAAAAATTATACATTAAAAGAC
66 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAAAAAAAAATTATACATTAAAAGAC
* ** *
33604999 TTACTGTAGCAAAAGCGCGTTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
* ** * ****
33605064 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTC-TTTCGTGAC
66 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAAAAAAA-AATTA-TACATTAAAAGAC
* *
33605125 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
33605190 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
33605227 CTCAAAATTA
Statistics
Matches: 200, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
124 89 0.44
125 6 0.03
126 103 0.51
127 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAAAAAAAAATTATACATTAAAAGAC
Found at i:33605659 original size:16 final size:16
Alignment explanation
Indices: 33605638--33605674 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
33605628 ATTTTAAATT
* *
33605638 TTTTATGTTAATAAAC
1 TTTTATGTCAACAAAC
33605654 TTTTATGTCAACAAAC
1 TTTTATGTCAACAAAC
33605670 TTTTA
1 TTTTA
33605675 AATTCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (16 bp):
TTTTATGTCAACAAAC
Found at i:33605839 original size:24 final size:24
Alignment explanation
Indices: 33605806--33605857 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
33605796 TTTGTAGGTC
*
33605806 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
*
33605830 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
33605854 AAAT
1 AAAT
33605858 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:33606021 original size:16 final size:16
Alignment explanation
Indices: 33606000--33606030 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33605990 GCCTATCTTG
33606000 AACTATGTAGGGAATT
1 AACTATGTAGGGAATT
33606016 AACTATGTAGGGAAT
1 AACTATGTAGGGAAT
33606031 GTGCTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
AACTATGTAGGGAATT
Found at i:33612724 original size:51 final size:50
Alignment explanation
Indices: 33612658--33612777 Score: 143
Period size: 51 Copynumber: 2.4 Consensus size: 50
33612648 TAAATTCAAA
* * * *
33612658 TTCATTT-TTCATTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGGT
1 TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAAT-GT
* *
33612708 TTCATTTCTCCATTTTCATTTTGGAGTAAACCATAATAATTTCCAAATGT
1 TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGT
*
33612758 TTCCCATTTCTCAATTTTCA
1 TT--CATTTCTCCATTTTCA
33612778 CCATTTCTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 11 0.18
51 34 0.57
52 15 0.25
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (50 bp):
TTCATTTCTCCATTTTCATTTTGGAGAAAACCACAATAATTTCCAAATGT
Found at i:33614617 original size:27 final size:25
Alignment explanation
Indices: 33614561--33614618 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
33614551 ATTAATTGTG
33614561 ATATTAGTTATTTATGTTCTTAATT
1 ATATTAGTTATTTATGTTCTTAATT
*
33614586 ATATTAGTTATACTTATGTT-TTATTT
1 ATATTAGTTAT--TTATGTTCTTAATT
33614612 ATTATTA
1 A-TATTA
33614619 ATTTGGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 6 0.21
27 12 0.41
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.60
Consensus pattern (25 bp):
ATATTAGTTATTTATGTTCTTAATT
Found at i:33616302 original size:15 final size:17
Alignment explanation
Indices: 33616267--33616304 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
33616257 ATTAAACATA
*
33616267 AAAATGAAAATAAACTT
1 AAAATTAAAATAAACTT
33616284 AAAATTAAAA-AAA-TT
1 AAAATTAAAATAAACTT
33616299 AAAATT
1 AAAATT
33616305 CCTTTTAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 3 0.15
17 9 0.45
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATTAAAATAAACTT
Found at i:33620024 original size:20 final size:19
Alignment explanation
Indices: 33619984--33620029 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
33619974 ATAAATACGA
*
33619984 TATCGAT-AACTTTTTTTG
1 TATCGATAAACTTTTTTAG
*
33620002 TATCGATAAAGTTATTTTAG
1 TATCGATAAACTT-TTTTAG
33620022 TATCGATA
1 TATCGATA
33620030 GTGTTGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 4 0.17
20 13 0.54
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (19 bp):
TATCGATAAACTTTTTTAG
Found at i:33631220 original size:21 final size:21
Alignment explanation
Indices: 33631182--33631238 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
33631172 TCAAATTATT
*
33631182 ATTAATTTTTAAATTAATTGCAC
1 ATTAATTTGT-AA-TAATTGCAC
*
33631205 ATTGAA-TTGTAATAATTGCAT
1 ATT-AATTTGTAATAATTGCAC
33631226 ATTAATTTGTAAT
1 ATTAATTTGTAAT
33631239 TTTTGTGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 18 0.60
22 2 0.07
23 6 0.20
24 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (21 bp):
ATTAATTTGTAATAATTGCAC
Found at i:33632717 original size:32 final size:32
Alignment explanation
Indices: 33632674--33632751 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
33632664 AATTAGTTTC
*
33632674 TTGGATTTTGAAATTATTATGTTTTAAACTTG
1 TTGGATATTGAAATTATTATGTTTTAAACTTG
* * * *
33632706 TTTGATATTGAATTTATTATTTTTTAAGCTTG
1 TTGGATATTGAAATTATTATGTTTTAAACTTG
*
33632738 TTGGATATTAAAAT
1 TTGGATATTGAAAT
33632752 GATTGACAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (32 bp):
TTGGATATTGAAATTATTATGTTTTAAACTTG
Found at i:33634216 original size:15 final size:15
Alignment explanation
Indices: 33634174--33634216 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
33634164 CCAAAAAAGT
*
33634174 AAATCATTTTCCA-A
1 AAATCATTTTCTAGA
33634188 AAATCATTTTCTAGA
1 AAATCATTTTCTAGA
33634203 AAAT-ATTTTACTAG
1 AAATCATTTT-CTAG
33634217 CAAACAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.40
Consensus pattern (15 bp):
AAATCATTTTCTAGA
Found at i:33658959 original size:29 final size:29
Alignment explanation
Indices: 33658926--33658986 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
33658916 CAGAATGAAG
33658926 AGATTTGTTGCAAATCCTATGACGACCCT
1 AGATTTGTTGCAAATCCTATGACGACCCT
33658955 AGATTTGTTGCAAATCCTATGACGACCCT
1 AGATTTGTTGCAAATCCTATGACGACCCT
33658984 AGA
1 AGA
33658987 ATACGATTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (29 bp):
AGATTTGTTGCAAATCCTATGACGACCCT
Found at i:33668068 original size:94 final size:94
Alignment explanation
Indices: 33667943--33668474 Score: 500
Period size: 94 Copynumber: 5.7 Consensus size: 94
33667933 TGAAATAGTG
* * ** **
33667943 AATCCTATACCCCTTGAAGTTGCAGTGGGTT-GAATTGAAGCTACCATAGTGAATCTTATCTCTT
1 AATCCTATACCCC-TAAAGTTGCAGTGGGTTGGAA-TGAAACTACCATAGCAAATCTTATCTCCC
* *
33668007 TGAAGTTGTAGTGGAGCAAGACGAAGCTACA
64 TAAAGTTGCAGTGGAGCAAGACGAAGCTACA
* * *
33668038 AATCCTATACCCCTAAAGTTGCAATGGGTTGGAATAAAACTA-CA-ACGCCAAATCTTATCTCTC
1 AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAATGAAACTACCATA-G-CAAATCTTATCTCCC
* *
33668101 TAAAGTTACAGTGGAGAAAGACGAAGCTACA
64 TAAAGTTGCAGTGGAGCAAGACGAAGCTACA
* * * * ** *
33668132 AATCCTATACCCCTGAAGTTGTAGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTA
1 AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCAAATCTTATCTCCCTA
33668197 AAGTTGCAGTGGAGCAAGACGAAGCTACA
66 AAGTTGCAGTGGAGCAAGACGAAGCTACA
* ** * * * * *
33668226 AATCCTATACCCTTAAAGTTATAGTAGGTTGGAATGAAACTACAATGGCAAATCTTATCTCCATG
1 AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCAAATCTTATCTCCCTA
* *
33668291 AAGTTGCAATGGAGCAAGATGAAGCTACAA
66 AAGTTGCAGTGGAGCAAGACGAAGCTAC-A
** * * * ** * * * *
33668321 AATCCTATTTCCCTGAAGATGCAGTGGATCAG-ATCAAA-GACAATGGCAAATCTTATCTCCCTA
1 AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCAAATCTTATCTCCCTA
* * *
33668384 AAGTTACAATGGAGCAAGATGAAGCTACA
66 AAGTTGCAGTGGAGCAAGACGAAGCTACA
* * * * ** * *
33668413 AATCATATACCCTTGAAGTTGTAGTGGGTT-GAAGTGAAACTATAACATCAAATCTTATCTCC
1 AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAA-TGAAACTACCATAGCAAATCTTATCTCC
33668475 ATGAAGTTAC
Statistics
Matches: 360, Mismatches: 68, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
91 1 0.00
92 25 0.07
93 56 0.16
94 236 0.66
95 41 0.11
96 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
AATCCTATACCCCTAAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCAAATCTTATCTCCCTA
AAGTTGCAGTGGAGCAAGACGAAGCTACA
Found at i:33668158 original size:44 final size:44
Alignment explanation
Indices: 33668009--33668250 Score: 114
Period size: 44 Copynumber: 5.2 Consensus size: 44
33667999 TATCTCTTTG
*
33668009 AAGTTGTAGTGGAGCAAGACGAAGCTACAAATCCTATACCCCTA
1 AAGTTGTAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTA
* * * * ** * *
33668053 AAGTTGCAATGGGTTGGA-ATAAAACTACAACGCCAAATCTTAT-CTCTCTA
1 AAGTTG---T-AG-TGGAGA-AAGACGA-AGCTACAAATCCTATAC-CCCTA
** *
33668103 AAGTTACAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTG
1 AAGTTGTAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTA
*** * * *
33668147 AAGTTGTAGTGG-GTCGGATTGAAGTTACCATAGCGAATCTTAT-CTCCCTA
1 AAGTTGTAGTGGAGAAAGA-CGAAG----C-TA-CAAATCCTATAC-CCCTA
* * *
33668197 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTA
1 AAGTTGTAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTA
*
33668241 AAGTTATAGT
1 AAGTTGTAGT
33668251 AGGTTGGAAT
Statistics
Matches: 139, Mismatches: 39, Indels: 40
0.64 0.18 0.18
Matches are distributed among these distances:
43 3 0.02
44 54 0.39
45 13 0.09
46 3 0.02
47 1 0.01
48 2 0.01
49 13 0.09
50 47 0.34
51 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (44 bp):
AAGTTGTAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTA
Found at i:33668188 original size:188 final size:188
Alignment explanation
Indices: 33667943--33668490 Score: 672
Period size: 188 Copynumber: 2.9 Consensus size: 188
33667933 TGAAATAGTG
* * * **
33667943 AATCCTATACCCCTTGAAGTTGCAGTGGGTTGAATTGAAGCTACCATAGTGAATCTTATCTCTTT
1 AATCCTATACCCC-TGAAGTTGCAGTGGGTCGGATTGAAG-TACCATAGCGAATCTTATCTCCCT
* * * * *
33668008 GAAGTTGTAGTGGAGCAAGACGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTTGGAAT
64 AAAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAAT
* * *
33668073 AAAACTACAACGCCAAATCTTATCTCTC-TAAAGTTACAGTGGAGAAAGACGAAGCTAC-A
129 GAAACTACAACGCCAAATCTTATCTC-CATGAAGTTACAATGGAGAAAGACGAAGCTACAA
*
33668132 AATCCTATACCCCTGAAGTTGTAGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTA
1 AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAG-TACCATAGCGAATCTTATCTCCCTA
* *
33668197 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTATAGTAGGTTGGAATG
65 AAGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAATG
* * * * *
33668262 AAACTACAATGGCAAATCTTATCTCCATGAAGTTGCAATGGAGCAAGATGAAGCTACAA
130 AAACTACAACGCCAAATCTTATCTCCATGAAGTTACAATGGAGAAAGACGAAGCTACAA
** * * * ** * * *
33668321 AATCCTATTTCCCTGAAGATGCAGTGGATCAGATCAAAG-ACAATGGCAAATCTTATCTCCCTAA
1 AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTACCATAGCGAATCTTATCTCCCTAA
* * * * *
33668385 AGTTACAATGGAGCAAGATGAAGCTACAAATCATATACCCTTGAAGTTGTAGTGGGTT-GAAGTG
66 AGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAA-TG
* **
33668449 AAACTATAACATCAAATCTTATCTCCATGAAGTTACAATGGA
130 AAACTACAACGCCAAATCTTATCTCCATGAAGTTACAATGGA
33668491 TCAAGATGAA
Statistics
Matches: 311, Mismatches: 45, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
186 3 0.01
187 113 0.36
188 150 0.48
189 45 0.14
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (188 bp):
AATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTACCATAGCGAATCTTATCTCCCTAA
AGTTGCAGTGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAATGA
AACTACAACGCCAAATCTTATCTCCATGAAGTTACAATGGAGAAAGACGAAGCTACAA
Found at i:33668425 original size:187 final size:187
Alignment explanation
Indices: 33668018--33668500 Score: 612
Period size: 187 Copynumber: 2.6 Consensus size: 187
33668008 GAAGTTGTAG
* * * *
33668018 TGGAGCAAGACGAAGCTACAAATCCTATACCCCTAAAGTTGCAATGGGTTGGAATAAAACTACAA
1 TGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAATGAAACTACAA
* * * *
33668083 CGCCAAATCTTATCTCTC-TAAAGTTACAGTGGAGAAAGACGAAGCTACAAATCCTATACCCCTG
66 CGCCAAATCTTATCTC-CATGAAGTTACAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTG
* * * * ** * * * *
33668147 AAGTTGTAGTGGGTCGGATTGAAGTTACCATAGCGAATCTTATCTCCCTAAAGTTGCAG
130 AAGATGCAGTGGATCAGATCAAAG-TACAATAGCAAATCTTATCTCCCTAAAGTTACAA
* *
33668206 TGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTATAGTAGGTTGGAATGAAACTACAA
1 TGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAATGAAACTACAA
* * * **
33668271 TGGCAAATCTTATCTCCATGAAGTTGCAATGGAGCAAGATGAAGCTACAAAATCCTATTTCCCTG
66 CGCCAAATCTTATCTCCATGAAGTTACAATGGAGCAAGATGAAGCTAC-AAATCCTATACCCCTG
*
33668336 AAGATGCAGTGGATCAGATCAAAG-ACAATGGCAAATCTTATCTCCCTAAAGTTACAA
130 AAGATGCAGTGGATCAGATCAAAGTACAATAGCAAATCTTATCTCCCTAAAGTTACAA
* * * *
33668393 TGGAGCAAGATGAAGCTACAAATCATATACCCTTGAAGTTGTAGTGGGTT-GAAGTGAAACTATA
1 TGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAA-TGAAACTACA
** *
33668457 ACATCAAATCTTATCTCCATGAAGTTACAATGGATCAAGATGAA
65 ACGCCAAATCTTATCTCCATGAAGTTACAATGGAGCAAGATGAA
33668501 ACTGTGACAC
Statistics
Matches: 255, Mismatches: 37, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
186 3 0.01
187 122 0.48
188 98 0.38
189 32 0.13
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (187 bp):
TGGAGCAAGACGAAGCTACAAATCCTATACCCTTAAAGTTGTAGTGGGTTGGAATGAAACTACAA
CGCCAAATCTTATCTCCATGAAGTTACAATGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
AGATGCAGTGGATCAGATCAAAGTACAATAGCAAATCTTATCTCCCTAAAGTTACAA
Found at i:33674172 original size:54 final size:54
Alignment explanation
Indices: 33674105--33674222 Score: 193
Period size: 54 Copynumber: 2.2 Consensus size: 54
33674095 ATCAAAAGAA
* *
33674105 TAAATC-ATTAGCTCTTATAAGCATCTGTGGCCATTAGGTCTACGTAAACCAAT
1 TAAATCGAATAGCTCTTATAAGCATCTGTGGCCATTAAGTCTACGTAAACCAAT
*
33674158 TAAATCGAATAGCTCTTATAAGCATGTGTGGCCATTAAGTCTACGTAAACCAAT
1 TAAATCGAATAGCTCTTATAAGCATCTGTGGCCATTAAGTCTACGTAAACCAAT
*
33674212 TAAATTGAATA
1 TAAATCGAATA
33674223 AAATATCCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.10
54 54 0.90
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
TAAATCGAATAGCTCTTATAAGCATCTGTGGCCATTAAGTCTACGTAAACCAAT
Found at i:33676673 original size:23 final size:23
Alignment explanation
Indices: 33676642--33676692 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
33676632 ACCTACTTTC
* * *
33676642 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
33676665 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
33676688 TTACA
1 TTACA
33676693 ACTATACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:33682668 original size:3 final size:3
Alignment explanation
Indices: 33682662--33682686 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33682652 ATAATGATAA
33682662 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
33682687 GTGATCTTAA
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):
TAT
Found at i:33684365 original size:43 final size:43
Alignment explanation
Indices: 33684299--33684420 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 43
33684289 TTTTAGAAAT
*
33684299 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCCAC
* * *
33684342 AAACGCCGCTATAGGTTAGGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCCAC
* * * * *
33684385 AAACACCGCTAAAAATCAAGACCTTTAGCGACGCTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTT
33684421 CTCGCAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTCCCCAC
Found at i:33684440 original size:43 final size:43
Alignment explanation
Indices: 33684361--33684442 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
33684351 TATAGGTTAG
* * *
33684361 GACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAATCAA
1 GACCTTTAGCGACGCTTCTCCCACAAACACCACTAAAAATCAA
* *
33684404 GACCTTTAGCGACGCTTCTCGCA-ATAACGCCACTAAAAA
1 GACCTTTAGCGACGCTTCTCCCACA-AACACCACTAAAAA
33684443 CATAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.21
Consensus pattern (43 bp):
GACCTTTAGCGACGCTTCTCCCACAAACACCACTAAAAATCAA
Found at i:33684746 original size:85 final size:84
Alignment explanation
Indices: 33684592--33684763 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 84
33684582 TTTTAGAAAT
* * * * * * * *
33684592 AAACACTGCTATAGATCATGATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGGTTAGGAA
1 AAACACTGCTATAGATCAGGACCTTTAGCGACACTTTCCCCACAAACGCCGCTAAAGATCAAGAA
*
33684657 CTTTAGCGGCGCTTTTCCAC
66 CTTTAGCGACGCTTTT-CAC
* *
33684677 AAACACTGCTATAGATCAGGACCTTTAGCGACACTTTTCCCACAAACGCCGCTAAAGATCAAGAC
1 AAACACTGCTATAGATCAGGACCTTTAGCGACACTTTCCCCACAAACGCCGCTAAAGATCAAGAA
33684742 CTTTAGCGACGCTTTTCAC
66 CTTTAGCGACGCTTTTCAC
33684761 AAA
1 AAA
33684764 AACGCCGCTA
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
84 6 0.08
85 70 0.92
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
AAACACTGCTATAGATCAGGACCTTTAGCGACACTTTCCCCACAAACGCCGCTAAAGATCAAGAA
CTTTAGCGACGCTTTTCAC
Found at i:33684775 original size:43 final size:43
Alignment explanation
Indices: 33684599--33684773 Score: 208
Period size: 43 Copynumber: 4.1 Consensus size: 43
33684589 AATAAACACT
* * * *
33684599 GCTATAGATCATGATCTTTAGCGGCGCTTTCCCCACAAACGCC
1 GCTATAGATCAGGACCTTTAGCGACGCTTTTCCCACAAACGCC
* * * * * *
33684642 GCTATAGGTTAGGAACTTTAGCGGCGCTTTT-CCACAAACACT
1 GCTATAGATCAGGACCTTTAGCGACGCTTTTCCCACAAACGCC
*
33684684 GCTATAGATCAGGACCTTTAGCGACACTTTTCCCACAAACGCC
1 GCTATAGATCAGGACCTTTAGCGACGCTTTTCCCACAAACGCC
* * * *
33684727 GCTAAAGATCAAGACCTTTAGCGACGCTTTTCACAAAAACGCC
1 GCTATAGATCAGGACCTTTAGCGACGCTTTTCCCACAAACGCC
33684770 GCTA
1 GCTA
33684774 AAAACATAAC
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 35 0.31
43 77 0.69
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
GCTATAGATCAGGACCTTTAGCGACGCTTTTCCCACAAACGCC
Found at i:33684912 original size:336 final size:336
Alignment explanation
Indices: 33684299--33684915 Score: 995
Period size: 336 Copynumber: 1.8 Consensus size: 336
33684289 TTTTAGAAAT
* * * * *
33684299 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAGGTTAGGAC
1 AAACGCCGCTATAGATCAGGAACTTTAGCGGCGCTTTCCCCACAAACACCGCTATAGATCAGGAC
* * * *
33684364 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAATCAAGACCTTTAGCGACGCTTCTCGCAAT
66 CTTTAGCGACACTTTTCCCACAAACACCGCTAAAAATCAAGACCTTTAGCGACGCTTCTCACAAA
* *
33684429 AACGCCACTAAAAACATAAATTTAAAAAATTTATTTTAATCAATTAATATTTATTTTTATGATAA
131 AACGCCACTAAAAACATAAATTTAAAAAATTTATTTTAATCAAATAATATTTATTTCTATGATAA
* *
33684494 ATATTATATTATGTTTTATTTTTTAAATTTGAACTTGAAATATACTTTTCAGGATAGTTAAAAAA
196 ATATTATATTATGTTTTATTTTTTAAATTTGAACTTGAAATATACTTTTAAGGATAATTAAAAAA
33684559 TATTATTTAAATTAAATTTGCGTTTTTAGAAATAAACACTGCTATAGATCATGATCTTTAGCGGC
261 TATTATTTAAATTAAATTTGCGTTTTTAGAAATAAACACTGCTATAGATCATGATCTTTAGCGGC
33684624 GCTTTCCCCAC
326 GCTTTCCCCAC
* * * *
33684635 AAACGCCGCTATAGGTTAGGAACTTTAGCGGCGCTTT-TCCACAAACACTGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGAACTTTAGCGGCGCTTTCCCCACAAACACCGCTATAGATCAGGAC
* * *
33684699 CTTTAGCGACACTTTTCCCACAAACGCCGCTAAAGATCAAGACCTTTAGCGACGCTTTTCACAAA
66 CTTTAGCGACACTTTTCCCACAAACACCGCTAAAAATCAAGACCTTTAGCGACGCTTCTCACAAA
*
33684764 AACGCCGCTAAAAACATAACATTTAAAACAA-TTATTTTAATCAAATAATATTTATTTCTATGAT
131 AACGCCACTAAAAACATAA-ATTTAAAA-AATTTATTTTAATCAAATAATATTTATTTCTATGAT
* *
33684828 AAATATTATATTATGTTTTATTTTTTAAATTTGAACTTTAAATGTACTTTTAAGGATAATTAAAA
194 AAATATTATATTATGTTTTATTTTTTAAATTTGAACTTGAAATATACTTTTAAGGATAATTAAAA
33684893 AATATTATTTAAATTAAATTTGC
259 AATATTATTTAAATTAAATTTGC
33684916 TATGAAAATT
Statistics
Matches: 256, Mismatches: 23, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
335 98 0.38
336 156 0.61
337 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (336 bp):
AAACGCCGCTATAGATCAGGAACTTTAGCGGCGCTTTCCCCACAAACACCGCTATAGATCAGGAC
CTTTAGCGACACTTTTCCCACAAACACCGCTAAAAATCAAGACCTTTAGCGACGCTTCTCACAAA
AACGCCACTAAAAACATAAATTTAAAAAATTTATTTTAATCAAATAATATTTATTTCTATGATAA
ATATTATATTATGTTTTATTTTTTAAATTTGAACTTGAAATATACTTTTAAGGATAATTAAAAAA
TATTATTTAAATTAAATTTGCGTTTTTAGAAATAAACACTGCTATAGATCATGATCTTTAGCGGC
GCTTTCCCCAC
Found at i:33685363 original size:5 final size:5
Alignment explanation
Indices: 33685353--33685378 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33685343 TGTAATGGCA
33685353 AAAAC AAAAC AAAAC AAAAC AAAAC A
1 AAAAC AAAAC AAAAC AAAAC AAAAC A
33685379 TGCTGACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:33688705 original size:23 final size:23
Alignment explanation
Indices: 33688675--33688729 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
33688665 TCATATTAAT
33688675 TTTAAGTAAATAAATTTTTAAAA
1 TTTAAGTAAATAAATTTTTAAAA
33688698 TTTAAGTAAATAAATTTTTAAAA
1 TTTAAGTAAATAAATTTTTAAAA
33688721 TTTAAGTAA
1 TTTAAGTAA
33688730 TATTTAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTAAGTAAATAAATTTTTAAAA
Found at i:33689468 original size:6 final size:7
Alignment explanation
Indices: 33689452--33689482 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33689442 CTCTTAATCT
33689452 CTAACCC
1 CTAACCC
33689459 CTAA-CC
1 CTAACCC
33689465 CTAACCC
1 CTAACCC
33689472 CTAACCC
1 CTAACCC
33689479 CTAA
1 CTAA
33689483 ATTACAACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:33689470 original size:13 final size:13
Alignment explanation
Indices: 33689452--33689478 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33689442 CTCTTAATCT
33689452 CTAACCCCTAACC
1 CTAACCCCTAACC
33689465 CTAACCCCTAACC
1 CTAACCCCTAACC
33689478 C
1 C
33689479 CTAAATTACA
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:0.56, G:0.00, T:0.15
Consensus pattern (13 bp):
CTAACCCCTAACC
Found at i:33689901 original size:13 final size:13
Alignment explanation
Indices: 33689869--33689942 Score: 71
Period size: 13 Copynumber: 5.7 Consensus size: 13
33689859 ATTAACTTTT
*
33689869 AATTAAAATAAATG
1 AATT-AAATAAATA
* *
33689883 AATTAATTACATA
1 AATTAAATAAATA
33689896 AATTAAATAGAA-A
1 AATTAAATA-AATA
33689909 AATTAAATAAATA
1 AATTAAATAAATA
* *
33689922 AA-CAATTAAATA
1 AATTAAATAAATA
33689934 AATTAAATA
1 AATTAAATA
33689943 GACAATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
12 12 0.25
13 31 0.65
14 5 0.10
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (13 bp):
AATTAAATAAATA
Found at i:33689929 original size:38 final size:40
Alignment explanation
Indices: 33689869--33689944 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
33689859 ATTAACTTTT
** *
33689869 AATTAAAATAAATGAATTAATTACATAAATTAAATAGAAA
1 AATTAAAATAAATGAAACAATTAAATAAATTAAATAGAAA
33689909 AATT-AAATAAAT-AAACAATTAAATAAATTAAATAGA
1 AATTAAAATAAATGAAACAATTAAATAAATTAAATAGA
33689945 CAATTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 21 0.64
39 8 0.24
40 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (40 bp):
AATTAAAATAAATGAAACAATTAAATAAATTAAATAGAAA
Found at i:33689930 original size:16 final size:17
Alignment explanation
Indices: 33689894--33689936 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
33689884 ATTAATTACA
33689894 TAAATTAAATAGAAAAAT
1 TAAA-TAAATAGAAAAAT
*
33689912 TAAATAAATA-AACAAT
1 TAAATAAATAGAAAAAT
33689928 TAAATAAAT
1 TAAATAAAT
33689937 TAAATAGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.58
17 6 0.25
18 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAATAAATAGAAAAAT
Found at i:33689932 original size:21 final size:21
Alignment explanation
Indices: 33689887--33689949 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
33689877 TAAATGAATT
* *
33689887 AATTACATAAATTAAATAGA-
1 AATTAAATAAATTAAATAAAC
*
33689907 AA--AATTAAA-TAAATAAAC
1 AATTAAATAAATTAAATAAAC
*
33689925 AATTAAATAAATTAAATAGAC
1 AATTAAATAAATTAAATAAAC
33689946 AATT
1 AATT
33689950 TATTAAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (21 bp):
AATTAAATAAATTAAATAAAC
Found at i:33689956 original size:21 final size:21
Alignment explanation
Indices: 33689894--33689956 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
33689884 ATTAATTACA
33689894 TAAATTAAATAGA-AA--AAT
1 TAAATTAAATAGACAATTAAT
* *
33689912 TAAA-TAAATAAACAATTAAA
1 TAAATTAAATAGACAATTAAT
*
33689932 TAAATTAAATAGACAATTTAT
1 TAAATTAAATAGACAATTAAT
33689953 TAAA
1 TAAA
33689957 AACGCCGCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.19
18 6 0.17
20 6 0.17
21 17 0.47
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAATTAAATAGACAATTAAT
Found at i:33690261 original size:114 final size:114
Alignment explanation
Indices: 33689952--33690582 Score: 899
Period size: 114 Copynumber: 5.5 Consensus size: 114
33689942 AGACAATTTA
* * *
33689952 TTAAAAACGCCGCTAAGTCCCCGAAAACTCAGAAAACGGCGT--TTGGGCTTAGGTTTATTTTGC
1 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTT-TTTTGC
* * * * *
33690015 GGCGCTTTCTTAAAAACACCGCTAAAGCCCTGAACATTAGTGGCCCTTTC
65 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* * * ** *
33690065 TTAAAAACGCCACTAAATCCCCCAAAAGCTCAGAAAACGATGTCGTTGGGCTTAGGTTTTTTTAC
1 TTAAAAACGCCGCTAAAT-CCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGC
* *
33690130 GGCGCTTTCCCAAAAACGCCGCTAAAGCCCT-ACGCATTAGCGGCACTTTC
65 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGA-GCATTAGCGGCGCTTTC
* * *
33690180 TTAAAAGCACCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCA
1 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
* *
33690245 GCACTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTC
66 GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* * *
33690294 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCATCATTGGGCTTAGTTTTTTTTGCG
1 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
* *
33690359 GCGCTTTCTCAAAAACACTGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
66 GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* ** *
33690408 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATAGCGTCGTTGGGCTTAGGTTTTTTTTCG
1 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
* **
33690473 GCGCTTTCTCAAAAACGCCACTAAAGCCCTGAGCATTAGCGATGCTTTC
66 GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
* *
33690522 TTAAAAACGCTGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCATTGGGCTTAGGTTTTTT
1 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTT
33690583 ACGACGCTTT
Statistics
Matches: 460, Mismatches: 53, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
113 16 0.03
114 367 0.80
115 63 0.14
116 14 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCG
GCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
Found at i:33698929 original size:3 final size:3
Alignment explanation
Indices: 33698923--33698962 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
33698913 AATAATAATA
33698923 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT A
33698963 TAGGGGCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
AGT
Found at i:33699483 original size:8 final size:8
Alignment explanation
Indices: 33699470--33699504 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
33699460 GCAATTTTTA
33699470 CATTCATG
1 CATTCATG
33699478 CATTCATG
1 CATTCATG
33699486 CATTCATG
1 CATTCATG
33699494 CATTCATG
1 CATTCATG
33699502 CAT
1 CAT
33699505 ATTTTGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (8 bp):
CATTCATG
Found at i:33703886 original size:16 final size:16
Alignment explanation
Indices: 33703867--33703920 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
33703857 ATTTTTTTTC
33703867 TTTTTTATTAATTATT
1 TTTTTTATTAATTATT
**
33703883 TTTTTTATTTTTTATT
1 TTTTTTATTAATTATT
** *
33703899 TTTCATATTTAGTTATT
1 TTTTTTA-TTAATTATT
33703916 TTTTT
1 TTTTT
33703921 AACTCTATGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTTATTAATTATT
Found at i:33704009 original size:21 final size:19
Alignment explanation
Indices: 33703983--33704030 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
33703973 GCATATTTAT
33703983 TTTTTTAATATAATATAATTA
1 TTTTTT-ATAT-ATATAATTA
*
33704004 TTTTTT-TATATGTAATTA
1 TTTTTTATATATATAATTA
33704022 TTTTTTATA
1 TTTTTTATA
33704031 ATCTATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 14 0.56
19 5 0.20
21 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTTATATATATAATTA
Found at i:33716520 original size:44 final size:45
Alignment explanation
Indices: 33716457--33716577 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 45
33716447 GATCTCATCT
*
33716457 AGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACT-AAG-TAGGCA
1 AGTCTTATCTCCCTAAAGTTGCAGGGGAGCAGACTGAAGAT-GGCA
*
33716501 AGTCTTATC-CTCCTAAAGTTGCA-GTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTAAAGTTGCAGGGGA-GCAGACTGAAGATGGCA
* * *
33716546 AATCTTATCTCCCTAAATTTGCAGTGGAGCAG
1 AGTCTTATCTCCCTAAAGTTGCAGGGGAGCAG
33716578 GTTAAAGCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
43 4 0.06
44 27 0.42
45 30 0.46
46 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTAAAGTTGCAGGGGAGCAGACTGAAGATGGCA
Found at i:33716612 original size:44 final size:44
Alignment explanation
Indices: 33716367--33716922 Score: 243
Period size: 44 Copynumber: 12.9 Consensus size: 44
33716357 CAGATCCATG
*
33716367 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAA
* * * * * * *
33716411 -ACATTGGATTTTATCTCTCTGAAGTTGCAG-AGAGCAGATCT-CA
1 GCCAAT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAA
* * * *
33716454 -TC--TAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--A
* * * *
33716497 GGC-A-AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGA
1 GCCAATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A
* * * *
33716541 TGGC-A-AATCTTATCTCCCTAAATTTGCAGTGGAGCAGGTTAAA
1 -GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
*
33716584 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* **** * * **
33716628 ACCTGGGATCTTATCTCTCTGAAGTTGCAG-AGAGCA-A--ATC
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * *
33716668 G-C-ATCTATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACT-AA
1 GCCAAT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * * * *
33716710 G-TAAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAT
1 GCCAA-TAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA
* * *
33716755 GACGGAA-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAA
1 G-C-CAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* * *
33716800 GCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAAC-GAATTAAA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAA
* **** * * * *
33716844 ACCTGGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
* *
33716887 -CC--TAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGA
1 GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
33716923 CTAAGTAAGC
Statistics
Matches: 389, Mismatches: 86, Indels: 77
0.70 0.16 0.14
Matches are distributed among these distances:
39 22 0.06
40 46 0.12
41 16 0.04
42 6 0.02
43 36 0.09
44 193 0.50
45 60 0.15
46 8 0.02
48 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
GCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
Found at i:33716753 original size:216 final size:217
Alignment explanation
Indices: 33716367--33717002 Score: 1026
Period size: 216 Copynumber: 2.9 Consensus size: 217
33716357 CAGATCCATG
* * *
33716367 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACATTGGATTTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCTGGGATCTTATCTCTCTG
* * *
33716432 AAGTTGCAGAGAGCAGATCTCATCTAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTA
* * *
33716497 GGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAA
131 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
*
33716562 ATTTGCAGTGGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
33716584 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAACCTGGGATCTTATCTCTCT
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGA-ATTAAAACCTGGGATCTTATCTCTCT
* * *
33716648 GAAGTTGCAGAGAGCAAATCGCATCTA-TCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAGT
65 GAAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGT
* * *
33716712 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGATGACGGAAAATCTTATCTCCCTG
130 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTG
*
33716777 AAGTTACAGTGGAGCAGGTTAAA
195 AAGTTGCAGTGGAGCAGGTTAAA
* *
33716800 GCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAACGAATTAAAACCTGGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCTGGGATCTTATCTCTCTG
*
33716865 AAGTTGCAGAGAGCAGATCACACCTAGTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACTAAGT
66 AAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAGT
* * *
33716929 AAGCAAGTCTTCTCCTCCTGAAGTTGCAATGAGGCAGACTCAAGATGGCAAATCTTATCTCCCTG
130 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTG
33716994 AAGTTGCAG
195 AAGTTGCAG
33717003 AGAGCAGATC
Statistics
Matches: 386, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
216 199 0.52
217 184 0.48
218 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (217 bp):
GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCTGGGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTA
AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTAAA
Found at i:33717010 original size:44 final size:44
Alignment explanation
Indices: 33716459--33717010 Score: 232
Period size: 44 Copynumber: 12.7 Consensus size: 44
33716449 TCTCATCTAG
*
33716459 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGAC-TAAG-TAGGCAAG
1 TCTTATCTCCCTGAAGTTGCA-GGGAGCAGACTTAAGAT-GGCAAA
* * *
33716503 TCTTATC-CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGGGA-GCAGACTTAAGATGGCAAA
* * * *
33716548 TCTTATCTCCCTAAATTTGCAGTGGAGCAG-GTTAA-A-GCCAATAA
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGATGGC-A-AA
* * *
33716592 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACCTGG--GA
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGA--TGGCAAA
* * *
33716636 TCTTATCTCTCTGAAGTTGCA--GAG-AG-C--AA-ATCGCATCTA
1 TCTTATCTCCCTGAAGTTGCAGGGAGCAGACTTAAGATGGCA--AA
* * * *
33716675 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGAC-TAAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGAT-GGCAAA
* * * * *
33716719 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGATGACGGAAAA
1 TCTTATCTC-CCTGAAGTTGCAGGGA-GCAGACTTAAGATGGCAAA
* * *
33716764 TCTTATCTCCCTGAAGTTACAGTGGAGCAG-GTTAA-A-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGATGGC-A-AA
* * * * *
33716808 TCCTATCTCCCTGAAGTTGCAGTGGAAC-GAATTAAAACCTGG--GA
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGA--TGGCAAA
* * * * * * *
33716852 TCTTATCTCTCTGAAGTTGCAGAGAGCAGA--TCACA--CCTAG
1 TCTTATCTCCCTGAAGTTGCAGGGAGCAGACTTAAGATGGCAAA
* * *
33716892 TCTTATCTCCCTGAAATTGCAGTGGAGCAGAC-TAAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTTAAGAT-GGCAAA
* ** *
33716936 TCTTCTC-CTCCTGAAGTTGCAATGAGGCAGACTCAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGGGA-GCAGACTTAAGATGGCAAA
*
33716981 TCTTATCTCCCTGAAGTTGCAGAGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGGGAGCAGA
33717011 TCCCATCTAA
Statistics
Matches: 385, Mismatches: 71, Indels: 104
0.69 0.13 0.19
Matches are distributed among these distances:
35 2 0.01
37 1 0.00
38 2 0.01
39 20 0.05
40 22 0.06
41 10 0.03
42 11 0.03
43 20 0.05
44 192 0.50
45 91 0.24
46 12 0.03
48 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGGGAGCAGACTTAAGATGGCAAA
Found at i:33718358 original size:16 final size:16
Alignment explanation
Indices: 33718339--33718392 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
33718329 TTTGTTTTCC
33718339 TTTTTTATTAATTATT
1 TTTTTTATTAATTATT
**
33718355 TTTTTTATTTTTTATT
1 TTTTTTATTAATTATT
**
33718371 TTTCATATTTAATTATT
1 TTTTTTA-TTAATTATT
33718388 TTTTT
1 TTTTT
33718393 AAAACTATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATTAATTATT
Found at i:33718365 original size:29 final size:32
Alignment explanation
Indices: 33718317--33718392 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 32
33718307 TTACAGTTCA
*
33718317 AATTAGTTTTTTTT-TGTTTTCCTTTTT-TA-TT
1 AATTA-TTTTTTTTAT-TTTTCATTTTTATATTT
*
33718348 AATTATTTTTTTTATTTTTTATTTTTCATATTT
1 AATTATTTTTTTTATTTTTCATTTTT-ATATTT
33718381 AATTATTTTTTT
1 AATTATTTTTTT
33718393 AAAACTATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 17 0.44
31 6 0.15
32 2 0.05
33 14 0.36
ACGTcount: A:0.18, C:0.04, G:0.03, T:0.75
Consensus pattern (32 bp):
AATTATTTTTTTTATTTTTCATTTTTATATTT
Found at i:33718477 original size:22 final size:21
Alignment explanation
Indices: 33718451--33718548 Score: 69
Period size: 22 Copynumber: 4.6 Consensus size: 21
33718441 ATACGCATAT
33718451 TTATTTTTTTAATATAATGTAA
1 TTATTTTTTTAATAT-ATGTAA
33718473 TTA-TTTTTT--TATATGTAA
1 TTATTTTTTTAATATATGTAA
* **
33718491 TTATTTTTTATAATCTATACATA
1 TTATTTTTT-TAATATATGTA-A
*
33718514 TATATTTATTTTTATATATGT-A
1 T-TATTT-TTTTAATATATGTAA
*
33718536 TTAATATTTTTAA
1 TT-ATTTTTTTAA
33718549 CCAATTTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
18 9 0.15
19 8 0.14
20 1 0.02
21 12 0.20
22 13 0.22
23 2 0.03
24 11 0.19
25 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTTTTTTAATATATGTAA
Found at i:33718481 original size:21 final size:19
Alignment explanation
Indices: 33718455--33718502 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
33718445 GCATATTTAT
33718455 TTTTTTAATATAATGTAATTA
1 TTTTTT-ATAT-ATGTAATTA
33718476 TTTTTT-TATATGTAATTA
1 TTTTTTATATATGTAATTA
33718494 TTTTTTATA
1 TTTTTTATA
33718503 ATCTATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 15 0.58
19 5 0.19
21 6 0.23
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTTATATATGTAATTA
Found at i:33732971 original size:20 final size:20
Alignment explanation
Indices: 33732915--33732972 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
33732905 AAGAGAAGCA
*
33732915 AAAACTTGAGGTTTTATAGG
1 AAAACTTGAGTTTTTATAGG
** *
33732935 AAATTAAGTGGGTTTTTATAGG
1 AAA--ACTTGAGTTTTTATAGG
33732957 AAAACTTGAGTTTTTA
1 AAAACTTGAGTTTTTA
33732973 CAAGAAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 13 0.45
22 16 0.55
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.40
Consensus pattern (20 bp):
AAAACTTGAGTTTTTATAGG
Found at i:33733123 original size:23 final size:25
Alignment explanation
Indices: 33733093--33733138 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
33733083 ATAGGGGAAA
33733093 TTCA-TTTTATCTTTT-TAATTTCC
1 TTCATTTTTATCTTTTCTAATTTCC
*
33733116 TTCATTTTTTTCTTTTCTAATTT
1 TTCATTTTTATCTTTTCTAATTT
33733139 TAGCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (25 bp):
TTCATTTTTATCTTTTCTAATTTCC
Found at i:33734979 original size:18 final size:17
Alignment explanation
Indices: 33734956--33734991 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
33734946 ACAATTGTAA
33734956 AGCAACATGAAAAGACAG
1 AGCAACATGAAAA-ACAG
*
33734974 AGCAACATTAAAAACAG
1 AGCAACATGAAAAACAG
33734991 A
1 A
33734992 CGCCTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.58, C:0.17, G:0.17, T:0.08
Consensus pattern (17 bp):
AGCAACATGAAAAACAG
Found at i:33735591 original size:14 final size:15
Alignment explanation
Indices: 33735569--33735645 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
33735559 CAATCAAACA
33735569 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
33735583 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
33735598 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
33735618 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
33735632 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
33735646 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:33735610 original size:20 final size:20
Alignment explanation
Indices: 33735585--33735624 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33735575 AATATTTTCC
*
33735585 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
33735605 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
33735625 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:33735630 original size:34 final size:35
Alignment explanation
Indices: 33735573--33735639 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
33735563 CAAACACCAG
*
33735573 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
33735608 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
33735640 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:33746127 original size:45 final size:45
Alignment explanation
Indices: 33746058--33746145 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
33746048 TGTGAACCGA
* * *
33746058 ACATCATTTATTAGTAAGGTGGTTGCTATGTGCT-AATTCCACCAG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAA-TCCACCAG
*
33746103 ACATTATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACC
33746146 GAGTATCTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCAG
Found at i:33753623 original size:51 final size:50
Alignment explanation
Indices: 33753486--33753780 Score: 335
Period size: 51 Copynumber: 5.8 Consensus size: 50
33753476 ACTTTTATCA
*
33753486 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAG-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* *
33753535 TTACGGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
33753587 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* *
33753637 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * * * *
33753689 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* *
33753739 TATCGATACACGTAGTAGCCTTCACACAATACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
33753781 TTCATCGATA
Statistics
Matches: 205, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
49 6 0.03
50 44 0.21
51 147 0.72
52 6 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:33753673 original size:102 final size:102
Alignment explanation
Indices: 33753486--33753780 Score: 457
Period size: 102 Copynumber: 2.9 Consensus size: 102
33753476 ACTTTTATCA
* * * * * *** *
33753486 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
33753550 TAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
33753587 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
33753652 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* * *
33753689 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
*
33753754 TAGCCTTCACACAATACTACACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
33753781 TTCATCGATA
Statistics
Matches: 179, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 44 0.25
102 135 0.75
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:33753772 original size:153 final size:151
Alignment explanation
Indices: 33753487--33753776 Score: 386
Period size: 153 Copynumber: 1.9 Consensus size: 151
33753477 CTTTTATCAT
* * * * *
33753487 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
* ** *
33753552 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTAGCCTTCACACAATA
33753617 CTACACATGTGACCATCATTTA
130 CTACACATGTGACCATCATTTA
* *
33753639 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAG
* * * *
33753703 TAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATACACGTAGTAGCCTTCACACA
64 TAGCCTTCACATAGTACTACACACGTGACCAAAC-TTT-TCGATACACATAGTAGCCTTCACACA
33753767 ATACTACACA
127 ATACTACACA
33753777 CGTGTTCATC
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
151 1 0.01
152 44 0.37
153 71 0.60
154 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (151 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACGTGACCAAACTTTTCGATACACATAGTAGCCTTCACACAATAC
TACACATGTGACCATCATTTA
Found at i:33755824 original size:29 final size:29
Alignment explanation
Indices: 33755792--33755879 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
33755782 CATGATCATT
33755792 TATTTGGTTCTTTTGTAATCTCATATTAC
1 TATTTGGTTCTTTTGTAATCTCATATTAC
* ** * *
33755821 TA-TT-G-TGTAATGTAAGCATGATCATT--
1 TATTTGGTTCTTTTGTAATC-TCAT-ATTAC
*
33755847 TATTTGGTTCTTTTGTAATCTCGTATTAC
1 TATTTGGTTCTTTTGTAATCTCATATTAC
33755876 TATT
1 TATT
33755880 GTGTGTATAT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 10 0.24
27 9 0.22
28 8 0.20
29 14 0.34
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.52
Consensus pattern (29 bp):
TATTTGGTTCTTTTGTAATCTCATATTAC
Found at i:33755855 original size:55 final size:55
Alignment explanation
Indices: 33755771--33755883 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
33755761 AAAGAAAAAC
33755771 TGTAATGTAAGCATGATCATTTATTTGGTTCTTTTGTAATCTCATATTACTATTG
1 TGTAATGTAAGCATGATCATTTATTTGGTTCTTTTGTAATCTCATATTACTATTG
*
33755826 TGTAATGTAAGCATGATCATTTATTTGGTTCTTTTGTAATCTCGTATTACTATTG
1 TGTAATGTAAGCATGATCATTTATTTGGTTCTTTTGTAATCTCATATTACTATTG
33755881 TGT
1 TGT
33755884 GTATATATAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (55 bp):
TGTAATGTAAGCATGATCATTTATTTGGTTCTTTTGTAATCTCATATTACTATTG
Found at i:33760529 original size:13 final size:13
Alignment explanation
Indices: 33760511--33760537 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33760501 AGTTTGACAA
33760511 TATTTTTGAAAAG
1 TATTTTTGAAAAG
33760524 TATTTTTGAAAAG
1 TATTTTTGAAAAG
33760537 T
1 T
33760538 GCTGTGGAAA
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:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TATTTTTGAAAAG
Found at i:33767399 original size:18 final size:18
Alignment explanation
Indices: 33767363--33767399 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33767353 ACATGTTATG
*
33767363 AATCAACTCAAATCATTC
1 AATCAACTCAAACCATTC
*
33767381 AATCAACTCAAACCGTTC
1 AATCAACTCAAACCATTC
33767399 A
1 A
33767400 TCTATTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.30, G:0.03, T:0.24
Consensus pattern (18 bp):
AATCAACTCAAACCATTC
Found at i:33768896 original size:18 final size:19
Alignment explanation
Indices: 33768858--33768897 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
33768848 CTATTATAAC
*
33768858 TTTTTACAATTTCCTTAAA
1 TTTTTACAATTTCATTAAA
*
33768877 TTTTTACAATTT-ATTCAA
1 TTTTTACAATTTCATTAAA
33768895 TTT
1 TTT
33768898 AGTCCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTACAATTTCATTAAA
Found at i:33775190 original size:44 final size:44
Alignment explanation
Indices: 33775142--33775226 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
33775132 ACTGCCAATG
33775142 GCTGTGGACACACAGCCAAA-TCCCGCACATGAAATCTACCTCTA
1 GCTGTGGACACACAG-CAAAGTCCCGCACATGAAATCTACCTCTA
** ** *
33775186 GCTGTGGGTACACAGCAAAGTCTTGCAGATGAAATCTACCT
1 GCTGTGGACACACAGCAAAGTCCCGCACATGAAATCTACCT
33775227 TTGGCTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (44 bp):
GCTGTGGACACACAGCAAAGTCCCGCACATGAAATCTACCTCTA
Found at i:33776773 original size:19 final size:20
Alignment explanation
Indices: 33776734--33776775 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
33776724 GCAAAAGAGA
33776734 CTTTTAGCGGCGTTTTTTTAAG
1 CTTTTAGCGGCG--TTTTTAAG
33776756 CTTTTAGCGGCG-TTTTAAG
1 CTTTTAGCGGCGTTTTTAAG
33776775 C
1 C
33776776 GCCGCTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
22 12 0.60
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.45
Consensus pattern (20 bp):
CTTTTAGCGGCGTTTTTAAG
Found at i:33776890 original size:43 final size:43
Alignment explanation
Indices: 33776835--33777071 Score: 286
Period size: 43 Copynumber: 5.5 Consensus size: 43
33776825 TAGCGGCATT
* *
33776835 TTTTA-CATAAACGCCGCTAAAGATCAT-AGCCTTTAGCGGCGC
1 TTTTACCACAAACGCCGCTAAAGATCATGA-TCTTTAGCGGCGC
* *
33776877 TTTT-CCATCAAACGCCGCTAAAGATCATGGTCTTTAGTGGCGC
1 TTTTACCA-CAAACGCCGCTAAAGATCATGATCTTTAGCGGCGC
** * *
33776920 TTTTTTCACAAACACCGCTAAAGGTCATGATCTTTAGCGGCGC
1 TTTTACCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCGC
* *
33776963 TTTTACCACAAACGCCACTAAA-AGTCATGATCTTTAGCGGTGC
1 TTTTACCACAAACGCCGCTAAAGA-TCATGATCTTTAGCGGCGC
* *
33777006 TTTTTACCACAAACGTCGCTAGAAG-TCATGATCTTTAGCGACGC
1 -TTTTACCACAAACGCCGCTA-AAGATCATGATCTTTAGCGGCGC
33777050 TTTTACCACAAACGCCGCTAAA
1 TTTTACCACAAACGCCGCTAAA
33777072 AACATGACTT
Statistics
Matches: 167, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
42 8 0.05
43 120 0.72
44 37 0.22
45 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTTACCACAAACGCCGCTAAAGATCATGATCTTTAGCGGCGC
Found at i:33777266 original size:27 final size:26
Alignment explanation
Indices: 33777184--33777268 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
33777174 AGGTTAAAAG
**
33777184 AAAATTAATTAAA-TTAAATTTTCTATT
1 AAAATTAA-TAAATTTAAA-TTTAAATT
* * **
33777211 AAAATT-TTAACTTTAAAGCTAAATAT
1 AAAATTAATAAATTTAAATTTAAAT-T
33777237 AAAATTAATAAATTTAAATTTAGAATT
1 AAAATTAATAAATTTAAATTTA-AATT
33777264 AAAAT
1 AAAAT
33777269 ATTATGTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
25 6 0.14
26 12 0.27
27 23 0.52
28 3 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
AAAATTAATAAATTTAAATTTAAATT
Found at i:33778608 original size:16 final size:16
Alignment explanation
Indices: 33778587--33778623 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
33778577 ATTTTTGTAT
*
33778587 AAAGTGCATGTCTTAA
1 AAAGTGCATGCCTTAA
33778603 AAAGTGCATGCCTTAA
1 AAAGTGCATGCCTTAA
33778619 AAAGT
1 AAAGT
33778624 AATTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (16 bp):
AAAGTGCATGCCTTAA
Found at i:33786178 original size:21 final size:21
Alignment explanation
Indices: 33786154--33786206 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
33786144 CATTGTTTCT
*
33786154 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
33786175 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
33786196 AATCTCACCGC
1 AATCTCACCGC
33786207 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:33787603 original size:23 final size:23
Alignment explanation
Indices: 33787577--33787630 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
33787567 TATTTCTTAT
33787577 AAATTTTACATAAAGAATTATTA
1 AAATTTTACATAAAGAATTATTA
33787600 AAATTTTACATAAAGAATTATTA
1 AAATTTTACATAAAGAATTATTA
33787623 AATATTTT
1 AA-ATTTT
33787631 TAAATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AAATTTTACATAAAGAATTATTA
Found at i:33787912 original size:21 final size:21
Alignment explanation
Indices: 33787886--33787939 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
33787876 CGACCCTTGA
* *
33787886 AACCCTAAATCCCTAACTCTT
1 AACCCTAAACCCCTAACTCAT
*
33787907 AACCCTTAACCCCTAACTCAT
1 AACCCTAAACCCCTAACTCAT
33787928 AACCCCTAAACC
1 AA-CCCTAAACC
33787940 TTAAATCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.71
22 8 0.29
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAAACCCCTAACTCAT
Found at i:33787966 original size:20 final size:20
Alignment explanation
Indices: 33787929--33787968 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33787919 CTAACTCATA
*
33787929 ACCCCTAAACCTTAAATCCC
1 ACCCCTAAACCATAAATCCC
33787949 ACCCCTTAAACCAT-AATCCC
1 ACCCC-TAAACCATAAATCCC
33787969 TAATCCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (20 bp):
ACCCCTAAACCATAAATCCC
Found at i:33787988 original size:15 final size:15
Alignment explanation
Indices: 33787955--33787992 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
33787945 TCCCACCCCT
33787955 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
33787969 T-AATCCATAATTCC
1 TAAATCCATAATCCC
33787983 TAAATCCATA
1 TAAATCCATA
33787993 TATAATCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:33788177 original size:25 final size:24
Alignment explanation
Indices: 33788148--33788204 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
33788138 TATATGAAAT
33788148 TATTTAATATATAAATTAAAAAACA
1 TATTTAATATATAAATTAAAAAA-A
* *
33788173 TATTTAAAATGTAAATTAAAAAAA
1 TATTTAATATATAAATTAAAAAAA
*
33788197 TAATTAAT
1 TATTTAAT
33788205 CTAAACCCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAAAA
Found at i:33788283 original size:7 final size:7
Alignment explanation
Indices: 33788266--33788296 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
33788256 AACTCTTAAT
33788266 CCCTAAAC
1 CCCT-AAC
33788274 CCCTAAC
1 CCCTAAC
33788281 CCCTAAC
1 CCCTAAC
33788288 CCCTAAC
1 CCCTAAC
33788295 CC
1 CC
33788297 TTAAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.29, C:0.58, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCTAAC
Found at i:33788288 original size:14 final size:15
Alignment explanation
Indices: 33788266--33788303 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
33788256 AACTCTTAAT
33788266 CCCTAAACCCCTAAC
1 CCCTAAACCCCTAAC
33788281 CCCT-AACCCCTAAC
1 CCCTAAACCCCTAAC
*
33788295 CCTTAAACC
1 CCCTAAACC
33788304 TTAAATCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.32, C:0.53, G:0.00, T:0.16
Consensus pattern (15 bp):
CCCTAAACCCCTAAC
Found at i:33788319 original size:21 final size:21
Alignment explanation
Indices: 33788288--33788338 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
33788278 AACCCCTAAC
* *
33788288 CCCTAACCCTTAAACCTTAAAT
1 CCCTAATCCTTAAACCAT-AAT
33788310 CCC-AATCCTTAAACCATAAT
1 CCCTAATCCTTAAACCATAAT
33788330 CCCTAATCC
1 CCCTAATCC
33788339 ATAATCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 17 0.65
22 3 0.12
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAATCCTTAAACCATAAT
Found at i:33788330 original size:14 final size:14
Alignment explanation
Indices: 33788313--33788346 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33788303 CTTAAATCCC
33788313 AATCCTTAAACCAT
1 AATCCTTAAACCAT
* *
33788327 AATCCCTAATCCAT
1 AATCCTTAAACCAT
33788341 AATCCT
1 AATCCT
33788347 AAATTCATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (14 bp):
AATCCTTAAACCAT
Found at i:33788784 original size:41 final size:41
Alignment explanation
Indices: 33788714--33789025 Score: 356
Period size: 41 Copynumber: 7.6 Consensus size: 41
33788704 TAAAGTGTTT
* *
33788714 TTAGCGGCGCTTTTTGAAAAATGCCGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * ** *
33788755 TTAGTGACGCTTTTTGAAAAACGTTGCTAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * *
33788796 TTAGTGTCGCTTTTTGAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * *
33788837 TTAGCGGCGCTTTTTGAAAAATGCCGTTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * * *
33788878 TTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCCCCAGCG
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * *
33788919 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCTCAAGCA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
* * * * ** *
33788960 TTAGCGGCGCTTTCTCAAAAACACCGCTAAATCCCTGAACA
1 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
*
33789001 TTAGTGGCGCTTTTTTG-AAAACGCC
1 TTAGCGGCGC-TTTTTGAAAAACGCC
33789026 ACGAAAGCCT
Statistics
Matches: 237, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 233 0.98
42 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCCCAGCA
Found at i:33795133 original size:18 final size:18
Alignment explanation
Indices: 33795112--33795151 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33795102 TAGAGTTCGA
* *
33795112 AAATATATAAAAAGATAT
1 AAATAAATAAAAAGAAAT
*
33795130 AAATAAATAAAATGAAAT
1 AAATAAATAAAAAGAAAT
33795148 AAAT
1 AAAT
33795152 GTATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
AAATAAATAAAAAGAAAT
Found at i:33797586 original size:17 final size:17
Alignment explanation
Indices: 33797566--33797624 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
33797556 ATAATATGAT
33797566 TAAATAATTCAATAATA
1 TAAATAATTCAATAATA
* *
33797583 TAAATAATACAA-AATGT
1 TAAATAATTCAATAAT-A
*
33797600 TAAATTTAATTTAATAATA
1 TAAA--TAATTCAATAATA
33797619 TAAATA
1 TAAATA
33797625 GTAAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.09
17 17 0.52
19 10 0.30
20 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATAATTCAATAATA
Found at i:33798080 original size:33 final size:33
Alignment explanation
Indices: 33798030--33798104 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
33798020 AAACTAATCC
* * *
33798030 TCTCTCAAATTTCCTCTC-AGTTTCTTCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCAAAATT
*
33798063 TCCTCTCAATTTGCTCTCAAATTCCTTCAAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCAAAATT
33798097 TCTCTCAA
1 TCTCTCAA
33798105 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.50
34 18 0.50
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCAAAATT
Found at i:33798087 original size:22 final size:22
Alignment explanation
Indices: 33798030--33798106 Score: 88
Period size: 22 Copynumber: 3.5 Consensus size: 22
33798020 AAACTAATCC
*
33798030 TCTCTCAAATTTCCTCTCAGTT
1 TCTCTCAAATTTCCTCTCAATT
33798052 TCT-TCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTCTCAATT
33798074 TGCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
33798097 TCTCTCAAAT
1 TCTCTCAAAT
33798107 CCATATTTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.08
22 32 0.67
23 10 0.21
24 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.03, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:33798106 original size:11 final size:11
Alignment explanation
Indices: 33798030--33798106 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
33798020 AAACTAATCC
33798030 TCTCTCAAATT
1 TCTCTCAAATT
*
33798041 TCCTCTC-AGTT
1 T-CTCTCAAATT
33798052 TCT-TCTAAATT
1 TCTCTC-AAATT
33798063 TCCTCTC-AATT
1 T-CTCTCAAATT
33798074 TGCTCTCAAATT
1 T-CTCTCAAATT
*
33798086 CCT-TCAAAATT
1 TCTCTC-AAATT
33798097 TCTCTCAAAT
1 TCTCTCAAAT
33798107 CCATATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
9 2 0.04
10 4 0.08
11 32 0.60
12 13 0.25
13 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:33798129 original size:51 final size:51
Alignment explanation
Indices: 33798068--33798165 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
33798058 AAATTTCCTC
*
33798068 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTATCTCAAATCCATATTTATTT
* * * *
33798119 TCAATTTGCTCTCAAGTTCCTCTTAAATTTATCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTATCTCAAATCCATATTT
33798166 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTATCTCAAATCCATATTTATTT
Found at i:33799974 original size:18 final size:18
Alignment explanation
Indices: 33799947--33799986 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33799937 CAGGTGCGTT
* *
33799947 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
33799965 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
33799983 TCCT
1 TCCT
33799987 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:33800557 original size:22 final size:22
Alignment explanation
Indices: 33800523--33800746 Score: 238
Period size: 22 Copynumber: 10.2 Consensus size: 22
33800513 AATGCATAAT
* *
33800523 TTAATTTACAAAACCTTAAACCC
1 TTAACTTA-AAAACCCTAAACCC
*
33800546 TTAACCTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
33800568 TTAACCTAAAACCCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
33800590 TTAATTTAAAAACCCTAACCCC
1 TTAACTTAAAAACCCTAAACCC
* * * * *
33800612 TAAACCTAAAAACCAT-AGCCA
1 TTAACTTAAAAACCCTAAACCC
*
33800633 TTAACTTTAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
**
33800655 TTAACTTAAAAACCCT-AACTT
1 TTAACTTAAAAACCCTAAACCC
**
33800676 TTAACTTTTAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
* *
33800698 TTAAATTGAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAACCC
33800720 TTAACTT-AAAACCCATAAACCC
1 TTAACTTAAAAACCC-TAAACCC
33800742 TTAAC
1 TTAAC
33800747 CCAAATTCTT
Statistics
Matches: 167, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
21 39 0.23
22 122 0.73
23 6 0.04
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACCC
Found at i:33800610 original size:43 final size:43
Alignment explanation
Indices: 33800532--33800747 Score: 220
Period size: 43 Copynumber: 5.0 Consensus size: 43
33800522 TTTAATTTAC
* * *
33800532 AAAACCTTAAACCCTTAACCTAAAAACCCTAAACCCTTAACCTA
1 AAAACCCTAAACCCTTAA-TTTAAAACCCTAAACCCTTAACCTA
* * *
33800576 AAACCCCTAAACCCTTAATTTAAAAACCCTAACCCCTAAACCTA
1 AAAACCCTAAACCCTTAATTT-AAAACCCTAAACCCTTAACCTA
* * * *
33800620 AAAACCAT-AGCCATTAACTTTAAAACCCTAAACCCTTAACTTA
1 AAAACCCTAAACCCTTAA-TTTAAAACCCTAAACCCTTAACCTA
** * ** *
33800663 AAAACCCT-AACTTTTAACTTTTAAACCCTAAACCCTTAAATTG
1 AAAACCCTAAACCCTTAA-TTTAAAACCCTAAACCCTTAACCTA
*
33800706 AAAACCCTAAACCCTTAACTTAAAACCCATAAACCCTTAACC
1 AAAACCCTAAACCCTTAATTTAAAACCC-TAAACCCTTAACC
33800748 CAAATTCTTC
Statistics
Matches: 142, Mismatches: 26, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
43 79 0.56
44 63 0.44
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.24
Consensus pattern (43 bp):
AAAACCCTAAACCCTTAATTTAAAACCCTAAACCCTTAACCTA
Found at i:33800710 original size:65 final size:65
Alignment explanation
Indices: 33800523--33800747 Score: 222
Period size: 65 Copynumber: 3.4 Consensus size: 65
33800513 AATGCATAAT
* * * * *
33800523 TTAATTTACAAAACCTTAAACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCCTAAAC
1 TTAACTTA-AAAACCCTAACCCCTAAACCTAAAAACCCTAAACCCTTAACTTAAAA-CCCTAAAC
33800588 CC
64 CC
* * * *
33800590 TTAATTTAAAAACCCTAACCCCTAAACCTAAAAACCAT-AGCCATTAACTTTAAAACCCTAAACC
1 TTAACTTAAAAACCCTAACCCCTAAACCTAAAAACCCTAAACCCTTAAC-TTAAAACCCTAAACC
33800654 C
65 C
** * * ** *
33800655 TTAACTTAAAAACCCTAA-CTTTTAACTTTTAAACCCTAAACCCTTAAATTGAAAACCCTAAACC
1 TTAACTTAAAAACCCTAACCCCTAAACCTAAAAACCCTAAACCCTTAACTT-AAAACCCTAAACC
33800719 C
65 C
* *
33800720 TTAACTT-AAAACCCATAAACCCTTAACC
1 TTAACTTAAAAACCC-TAACCCCTAAACC
33800748 CAAATTCTTC
Statistics
Matches: 132, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
64 21 0.16
65 66 0.50
66 37 0.28
67 8 0.06
ACGTcount: A:0.43, C:0.31, G:0.01, T:0.25
Consensus pattern (65 bp):
TTAACTTAAAAACCCTAACCCCTAAACCTAAAAACCCTAAACCCTTAACTTAAAACCCTAAACCC
Found at i:33801121 original size:126 final size:125
Alignment explanation
Indices: 33800748--33801273 Score: 652
Period size: 125 Copynumber: 4.2 Consensus size: 125
33800738 ACCCTTAACC
* * * *
33800748 CAAATTCTTCTCATAAAGCATCCTGCTAGAAGC-TATTTTATACTATTTGCTCAGAAACGT-AAG
1 CAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAC
* * * *
33800811 TCGAAATTA-TTTTGCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCA
66 TCGAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCA
* * * * * *
33800870 CAAATTCTTCTCA-AATAGCATGCTACTTGCAGCGTTGTTTTATACTATTTGCCCAGAAACGTTA
1 CAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCA
* * *
33800934 ACTCAAAATTATTTTT-CAGGA-CATACTGTAGCAAAAGTGCGTCCACGTGGGCGCGACTTCA
64 ACTCGAAATTATTTTTCCAGGACCA-ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCA
* * *
33800995 CAAATTATTCTTATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAAC
1 CAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAC
* * * *
33801060 TCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGTGCGTCCACGAGAGCGCGATTTCA
66 TCGAAATTATTT-TTCCAGGACCAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCA
* *
33801121 CAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATTTTTTAAACTATTTGCTCAGAAACGTCAAG
1 CAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAC
* * * * *
33801186 TTGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCA
66 TCGAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCA
* * *
33801246 -AAAATCTTTCTGATAAATCATCCTGCTT
1 CAAATTC-TTCTCATAAAGCATCCTGCTT
33801274 TGATTTATCT
Statistics
Matches: 349, Mismatches: 44, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
121 2 0.01
122 26 0.07
123 1 0.00
124 66 0.19
125 137 0.39
126 115 0.33
127 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAC
TCGAAATTATTTTTCCAGGACCAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGACTTCA
Found at i:33817679 original size:17 final size:17
Alignment explanation
Indices: 33817636--33817687 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
33817626 AATTTGTAAA
*
33817636 ATATATAAATTCAAAA-
1 ATATATAAATTTAAAAT
* *
33817652 AGAATACAAATTTAAAAT
1 A-TATATAAATTTAAAAT
33817670 ATATATAAATTATAAAAT
1 ATATATAAATT-TAAAAT
33817688 TTATCAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 1 0.04
17 20 0.71
18 7 0.25
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATATAAATTTAAAAT
Found at i:33817696 original size:17 final size:19
Alignment explanation
Indices: 33817658--33817698 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
33817648 AAAAAGAATA
33817658 CAAATT-TAAAATATATAT
1 CAAATTATAAAATATATAT
33817676 -AAATTATAAAAT-T-TAT
1 CAAATTATAAAATATATAT
33817692 CAAATTA
1 CAAATTA
33817699 AAACTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 12 0.57
18 6 0.29
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
CAAATTATAAAATATATAT
Found at i:33817821 original size:13 final size:13
Alignment explanation
Indices: 33817782--33817835 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
33817772 AGTTTGACAA
33817782 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
33817795 TGAC-GTAGAAAAG
1 TG-CTTTTGAAAAG
*
33817808 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
33817821 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
33817834 TG
1 TG
33817836 TGGTTTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 1 0.03
13 31 0.94
14 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.33
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:33824020 original size:23 final size:23
Alignment explanation
Indices: 33823985--33824030 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
33823975 ATTAGTGGTT
**
33823985 ACATCATGAATGACGTGGGAAAA
1 ACATCATGAATGACAAGGGAAAA
33824008 ACATCATCG-ATGACAAGGGAAAA
1 ACATCAT-GAATGACAAGGGAAAA
33824031 GATTTGACGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (23 bp):
ACATCATGAATGACAAGGGAAAA
Found at i:33824342 original size:28 final size:28
Alignment explanation
Indices: 33824284--33824342 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
33824274 ACATGAACCG
* *
33824284 ATTATTTAACTAGTAAATGAAGTATAAA
1 ATTATTTAACTAATAAATCAAGTATAAA
33824312 ATTATTTAACTACATAAA-CAA-TATAATA
1 ATTATTTAACTA-ATAAATCAAGTATAA-A
33824340 ATT
1 ATT
33824343 TTGACTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 18 0.67
29 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (28 bp):
ATTATTTAACTAATAAATCAAGTATAAA
Found at i:33826130 original size:15 final size:14
Alignment explanation
Indices: 33826110--33826159 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
33826100 TCATAAATTG
33826110 TAAAATATTTATTA
1 TAAAATATTTATTA
*
33826124 TTAAAATA-TTAATA
1 -TAAAATATTTATTA
33826138 T-AAATATTT-TTAA
1 TAAAATATTTATT-A
33826151 TAAAATATT
1 TAAAATATT
33826160 AAGAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 12 0.40
15 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATATTTATTA
Found at i:33826158 original size:14 final size:14
Alignment explanation
Indices: 33826110--33826159 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
33826100 TCATAAATTG
*
33826110 TAAAATATTTATTAT
1 TAAAATATTT-TTAA
33826125 TAAAATA---TTAA
1 TAAAATATTTTTAA
33826136 TATAAATATTTTTAA
1 TA-AAATATTTTTAA
33826151 TAAAATATT
1 TAAAATATT
33826160 AAGAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
14 7 0.23
15 13 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAATATTTTTAA
Found at i:33826171 original size:26 final size:26
Alignment explanation
Indices: 33826111--33826173 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
33826101 CATAAATTGT
* *
33826111 AAAATATTTATTATTAAAATATTAAT
1 AAAATATTTATTAATAAAATATTAAG
33826137 ATAAATATTT-TTAATAAAATATTAAG
1 A-AAATATTTATTAATAAAATATTAAG
33826163 AAAATTATTTA
1 AAAA-TATTTA
33826174 AAATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 3 0.09
26 21 0.66
27 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAATATTTATTAATAAAATATTAAG
Found at i:33832622 original size:18 final size:18
Alignment explanation
Indices: 33832594--33832649 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
33832584 TGTAGGTGGG
* *
33832594 TGGCTTGTGGACGATGGT
1 TGGCCTGTGGATGATGGT
* *
33832612 TGGTCTGTGGATGGTGGT
1 TGGCCTGTGGATGATGGT
*
33832630 TGGCCTGTAGATGATGGT
1 TGGCCTGTGGATGATGGT
33832648 TG
1 TG
33832650 TGGAGGTGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.11, C:0.09, G:0.45, T:0.36
Consensus pattern (18 bp):
TGGCCTGTGGATGATGGT
Found at i:33838620 original size:56 final size:51
Alignment explanation
Indices: 33838546--33838832 Score: 241
Period size: 49 Copynumber: 5.6 Consensus size: 51
33838536 ATGAGATCCT
33838546 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C---GAGA-TATGAGAGGTCCC
*
33838602 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG--ATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATATGAGAGGTCCC
** * * **
33838652 CCGTAAGACCATGTCTGGGACATGGCATGGGCAC-CGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATATGAGAGGTCCC
* * * * **
33838702 ATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACA-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AGATATGAGAGGTCCC
* * * * * **
33838751 ATGTAAGACCATATCTGGGATATGACATTGGCA-GTACA-A-GAAACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AGATATGAGAGGTCCC
* *
33838800 ATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
33838833 TGTTATTATT
Statistics
Matches: 202, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
48 1 0.00
49 84 0.42
50 80 0.40
51 1 0.00
53 3 0.01
56 33 0.16
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (51 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATATGAGAGGTCCC
Found at i:33838705 original size:100 final size:103
Alignment explanation
Indices: 33838548--33838734 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 103
33838538 GAGATCCTAT
* **
33838548 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCA
* *
33838613 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
63 TATCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
*
33838654 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
*
33838716 CTGGGATATGGCATTGGCA
66 CTGGGACATGGCATTGGCA
33838735 GTACAAGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 41 0.55
101 2 0.03
105 1 0.01
106 30 0.41
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (103 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATAT
CTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:33841039 original size:24 final size:24
Alignment explanation
Indices: 33841001--33841046 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
33840991 CTAAACTATG
33841001 AGTAAGTTTTCATTTTTCTAATGA
1 AGTAAGTTTTCATTTTTCTAATGA
33841025 AGTAA-TTTTCTATTTTTCTAAT
1 AGTAAGTTTTC-ATTTTTCTAAT
33841047 TTTAATCACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.54
Consensus pattern (24 bp):
AGTAAGTTTTCATTTTTCTAATGA
Found at i:33841717 original size:16 final size:16
Alignment explanation
Indices: 33841698--33841740 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
33841688 GGTTTCCATC
33841698 TTTTCTATTTCTTCTCT
1 TTTTCT-TTTCTTCTCT
* *
33841715 TTTTCTTTTCTTTTCC
1 TTTTCTTTTCTTCTCT
*
33841731 TATTCTTTTC
1 TTTTCTTTTC
33841741 ATCATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCTTTTCTTCTCT
Found at i:33842744 original size:38 final size:38
Alignment explanation
Indices: 33842620--33842744 Score: 166
Period size: 38 Copynumber: 3.4 Consensus size: 38
33842610 ATTACCAAAC
**
33842620 ACATGTTAAGCATGCCT-A--CTACTATTGAACCCAAT
1 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAT
** * *
33842655 ACATGTTAAGCATATCTACTGTTACTATTGAACTGAAT
1 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAT
*
33842693 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAA
1 ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAT
33842731 ACATGTTAAGCATG
1 ACATGTTAAGCATG
33842745 TTAATTGTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
35 15 0.20
38 61 0.80
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (38 bp):
ACATGTTAAGCATGCCTAATGCTACTATTGAACTGAAT
Found at i:33846539 original size:13 final size:13
Alignment explanation
Indices: 33846521--33846547 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33846511 TTAATTTATA
33846521 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33846534 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33846547 T
1 T
33846548 ATCGTTTGTG
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:33854473 original size:13 final size:13
Alignment explanation
Indices: 33854455--33854481 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33854445 TTAATTTATA
33854455 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33854468 TGTGTGAAAATTT
1 TGTGTGAAAATTT
33854481 T
1 T
33854482 ATCGTTTGTG
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:33855714 original size:84 final size:85
Alignment explanation
Indices: 33855563--33855718 Score: 205
Period size: 84 Copynumber: 1.8 Consensus size: 85
33855553 TTCTGAAATG
* *
33855563 TGATATCGTGTAAGACCACTTCTGGAACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGT
1 TGATATCGTGTAAGACCACTTCTGGAACGTTGGCATCGATTTGAGA-TTACATGTAAGACCAAGT
33855628 CTGGGACATCGGTATCGTATA
65 CTGGGACATCGGTATCGTATA
*
33855649 TGATTTCGTGTAAGACC-CTTCTAGG-ACAG-TGGCATCGTTATTTGA-A-TACATGTAAGACCA
1 TGATATCGTGTAAGACCACTTCT-GGAAC-GTTGGCATCG--ATTTGAGATTACATGTAAGACCA
33855709 AGTCTGGGAC
62 AGTCTGGGAC
33855719 GTTGGCATTA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
84 22 0.35
85 15 0.24
86 20 0.32
87 6 0.10
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (85 bp):
TGATATCGTGTAAGACCACTTCTGGAACGTTGGCATCGATTTGAGATTACATGTAAGACCAAGTC
TGGGACATCGGTATCGTATA
Found at i:33867252 original size:13 final size:14
Alignment explanation
Indices: 33867234--33867263 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
33867224 TAATTGGTTA
33867234 TAATTAAG-TTAAT
1 TAATTAAGTTTAAT
33867247 TAATTAAGTTTAAT
1 TAATTAAGTTTAAT
33867261 TAA
1 TAA
33867264 AACTAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (14 bp):
TAATTAAGTTTAAT
Done.