Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 27
Found at i:3738259 original size:2 final size:2
Alignment explanation
Indices: 3738254--3738280 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3738244 TTTTTTTTAA
3738254 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 A
3738281 GTAGTATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3743603 original size:22 final size:22
Alignment explanation
Indices: 3743575--3743639 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
3743565 TTCACGGTAC
3743575 TGTTCATGGTATTGTTTA-ACAT
1 TGTTCATGGTATTGTTTATAC-T
3743597 TGTTCATGGTATTGTTTATTACT
1 TGTTCATGGTATTGTTTA-TACT
*
3743620 T-TTCATGGTATTGTTCATAC
1 TGTTCATGGTATTGTTTATAC
3743640 AGTATTTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 3 0.08
22 33 0.82
23 2 0.05
24 2 0.05
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (22 bp):
TGTTCATGGTATTGTTTATACT
Found at i:3750379 original size:29 final size:29
Alignment explanation
Indices: 3750311--3750389 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
3750301 AATTATGCAT
* *
3750311 TTACTATCTAAACTATT-ATTTTTCTATA
1 TTACTATCTAAACTTTTAATTTTTCTAAA
* *
3750339 TTAATATATAAACTTTTAATTTTTCTAAAA
1 TTACTATCTAAACTTTTAATTTTTCT-AAA
3750369 TT-CTATCTAAA--TTTAATTTTT
1 TTACTATCTAAACTTTTAATTTTT
3750390 ATATTGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 10 0.23
28 14 0.33
29 15 0.35
30 4 0.09
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.54
Consensus pattern (29 bp):
TTACTATCTAAACTTTTAATTTTTCTAAA
Found at i:3750840 original size:23 final size:24
Alignment explanation
Indices: 3750800--3750866 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
3750790 CTATAAAATT
3750800 TCAAGAAAAATATA-CATTTTGCTA
1 TCAA-AAAAATATATCATTTTGCTA
3750824 TC-AAAAAATATATCATTTTGCTA
1 TCAAAAAAATATATCATTTTGCTA
3750847 TCAAAAAAATATATCATTTT
1 TCAAAAAAATATATCATTTT
3750867 AAAAAATGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.22
23 13 0.32
24 19 0.46
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
TCAAAAAAATATATCATTTTGCTA
Found at i:3751572 original size:13 final size:13
Alignment explanation
Indices: 3751554--3751614 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
3751544 TTATTATTGA
3751554 AAATATTTTAAAT
1 AAATATTTTAAAT
*
3751567 AAATATTATTACTTAT
1 AAATATT-TTA--AAT
*
3751583 AAATATTTTAGAT
1 AAATATTTTAAAT
*
3751596 TAATA-TTTAAAT
1 AAATATTTTAAAT
3751608 AAATATT
1 AAATATT
3751615 AAAACAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
12 10 0.26
13 14 0.36
14 3 0.08
15 3 0.08
16 9 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (13 bp):
AAATATTTTAAAT
Found at i:3752614 original size:21 final size:21
Alignment explanation
Indices: 3752575--3752615 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3752565 TAAAGCGCTC
* *
3752575 AATAATAATATTTTCGGTAAA
1 AATAATAATATCTTAGGTAAA
*
3752596 AATAATAATCTCTTAGGTAA
1 AATAATAATATCTTAGGTAA
3752616 TTTATTATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (21 bp):
AATAATAATATCTTAGGTAAA
Found at i:3753009 original size:198 final size:201
Alignment explanation
Indices: 3752620--3753020 Score: 639
Period size: 198 Copynumber: 2.0 Consensus size: 201
3752610 AGGTAATTTA
3752620 TTATCAAAAATATTACAAAATAATAATAATTATGATAATAAATTTCTTTAATCGTATATTAAGAT
1 TTATCAAAAATATTACAAAATAATAATAATTATGATAATAAATTTCTTTAATCGTATATTAAGA-
*
3752685 GTCGTACGTGAAATTTTTCGATTTAAATACCACGACATAATACAAAGGTAAGGGAAAATGGGATT
65 -TCGTA---GAAATTTTTCGATTTAAATACCACGACATAATACAAAGGTAAGCGAAAATGGGATT
* * *
3752750 GGTGAGATGGTGACACCTACTGGAGAGGATAGTCCTATCCTTTTTCTTGCTCTCCAAAATCCATT
126 GGTGAGATGGTGACACCTACGGGAGAGGAGAGTCCTATCCTTTTTCTTGCTCTCAAAAATCCATT
*
3752815 CATCGATTTTT
191 CACCGATTTTT
* *
3752826 TTATCAAAAATATTA-AAAATAATAATATTTATGATAATAATTTTCTTTAATCGTATATTAAGA-
1 TTATCAAAAATATTACAAAATAATAATAATTATGATAATAAATTTCTTTAATCGTATATTAAGAT
* *
3752889 CGTA-AACTTTTTCGATTTAAATACCACGACATAATACAAAGGTAAGCGAAAATGGGGTTGGTGA
66 CGTAGAAATTTTTCGATTTAAATACCACGACATAATACAAAGGTAAGCGAAAATGGGATTGGTGA
3752953 GATGGTGACACCTACGGGAGAGGAGAG-CCTATCCTTTTTCTTGCTCTACAAAAATCCATTCACC
131 GATGGTGACACCTACGGGAGAGGAGAGTCCTATCCTTTTTCTTGCTCT-CAAAAATCCATTCACC
3753017 GATT
195 GATT
3753021 CACACCTACT
Statistics
Matches: 185, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
197 20 0.11
198 100 0.54
202 4 0.02
205 46 0.25
206 15 0.08
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (201 bp):
TTATCAAAAATATTACAAAATAATAATAATTATGATAATAAATTTCTTTAATCGTATATTAAGAT
CGTAGAAATTTTTCGATTTAAATACCACGACATAATACAAAGGTAAGCGAAAATGGGATTGGTGA
GATGGTGACACCTACGGGAGAGGAGAGTCCTATCCTTTTTCTTGCTCTCAAAAATCCATTCACCG
ATTTTT
Found at i:3756485 original size:17 final size:17
Alignment explanation
Indices: 3756463--3756497 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3756453 AAAATTAGAG
3756463 GGTCTTACGGTTATTTT
1 GGTCTTACGGTTATTTT
*
3756480 GGTCTTTCGGTTATTTT
1 GGTCTTACGGTTATTTT
3756497 G
1 G
3756498 TGATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.11, G:0.26, T:0.54
Consensus pattern (17 bp):
GGTCTTACGGTTATTTT
Found at i:3757517 original size:27 final size:28
Alignment explanation
Indices: 3757460--3757517 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
3757450 AGAGGTGCAC
3757460 AAAAAATCCGAATATCCGATTTTGCGTAA
1 AAAAAATCCGAATATCCGATTTTGCG-AA
* * *
3757489 AAAATATCCGAA-ATCGGA-TTTGGGAA
1 AAAAAATCCGAATATCCGATTTTGCGAA
3757515 AAA
1 AAA
3757518 CCGGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 5 0.19
28 5 0.19
29 11 0.42
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGCGAA
Found at i:3757705 original size:21 final size:20
Alignment explanation
Indices: 3757660--3757703 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3757650 TATCCGGAAG
*
3757660 AAAATCCGGTATGGGGTTTA
1 AAAATCCGGTATGAGGTTTA
*
3757680 AAAATCCGGTCTGAGGTTTA
1 AAAATCCGGTATGAGGTTTA
3757700 AAAA
1 AAAA
3757704 ATTGGATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (20 bp):
AAAATCCGGTATGAGGTTTA
Found at i:3758306 original size:121 final size:121
Alignment explanation
Indices: 3758092--3758333 Score: 457
Period size: 121 Copynumber: 2.0 Consensus size: 121
3758082 TTAAAATTAT
3758092 TACTTTAAATTAAAAATATTAAATCAATTTTATTTTAAAAGTTACATTTTGTATGGATTATCTTC
1 TACTTTAAATTAAAAATATTAAATCAATTTTATTTTAAAAGTTACATTTTGTATGGATTATCTTC
* *
3758157 TCATTTTGTTAAAGGGGAGAGATTTAAATTAGGAAAATTCTATGACGATCTACGAA
66 TCATTTTGTTAAAGGGGAGAGAATTAAATTAGAAAAATTCTATGACGATCTACGAA
*
3758213 TACTTTAAATTAAAAATATTAAATGAATTTTATTTTAAAAGTTACATTTTGTATGGATTATCTTC
1 TACTTTAAATTAAAAATATTAAATCAATTTTATTTTAAAAGTTACATTTTGTATGGATTATCTTC
3758278 TCATTTTGTTAAAGGGGAGAGAATTAAATTAGAAAAATTCTATGACGATCTACGAA
66 TCATTTTGTTAAAGGGGAGAGAATTAAATTAGAAAAATTCTATGACGATCTACGAA
3758334 CATTGTTTTA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (121 bp):
TACTTTAAATTAAAAATATTAAATCAATTTTATTTTAAAAGTTACATTTTGTATGGATTATCTTC
TCATTTTGTTAAAGGGGAGAGAATTAAATTAGAAAAATTCTATGACGATCTACGAA
Found at i:3761985 original size:32 final size:32
Alignment explanation
Indices: 3761944--3762006 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3761934 AATCAAACGC
3761944 ACCCTGAGGTTTTATGATGTTACCAGAGACGT
1 ACCCTGAGGTTTTATGATGTTACCAGAGACGT
*
3761976 ACCCTGAGGTTTTATGATGTTATCAGAGACG
1 ACCCTGAGGTTTTATGATGTTACCAGAGACG
3762007 CACCTGTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (32 bp):
ACCCTGAGGTTTTATGATGTTACCAGAGACGT
Found at i:3768068 original size:22 final size:23
Alignment explanation
Indices: 3768043--3768085 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3768033 CAATTCCTTT
*
3768043 ATCTTTTCTC-TATCTTGTTTTA
1 ATCTTTTCTCTTACCTTGTTTTA
*
3768065 ATCTTTTTTCTTACCTTGTTT
1 ATCTTTTCTCTTACCTTGTTT
3768086 CCATCACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.12, C:0.19, G:0.05, T:0.65
Consensus pattern (23 bp):
ATCTTTTCTCTTACCTTGTTTTA
Found at i:3770199 original size:2 final size:2
Alignment explanation
Indices: 3770192--3770231 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3770182 CTTTGCAATA
3770192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3770232 CAAACCCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3785768 original size:21 final size:23
Alignment explanation
Indices: 3785744--3785787 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3785734 AAAATATTGT
*
3785744 AAAC-TACCA-AAAGATAGAGAA
1 AAACATACCACAAAGACAGAGAA
*
3785765 AAACATGCCACAAAGACAGAGAA
1 AAACATACCACAAAGACAGAGAA
3785788 CATATCACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.59, C:0.18, G:0.16, T:0.07
Consensus pattern (23 bp):
AAACATACCACAAAGACAGAGAA
Found at i:3788867 original size:60 final size:60
Alignment explanation
Indices: 3788764--3788943 Score: 247
Period size: 60 Copynumber: 3.0 Consensus size: 60
3788754 ATACCCGAGA
* * *
3788764 ACAAGCATCCATAAGGGCTTACCCTAAACCTA-TAGGATCTAGGAGTCTAATATGGAAGAT
1 ACAATCATCCATAAGGACTTACCCTAAACC-ACTAGGATCTAGGAGTCCAATATGGAAGAT
* *
3788824 ACAATCATCCATAAGGACTTACCCTATACCACTAGGATATAGGAGTCCAATATGGAAGAT
1 ACAATCATCCATAAGGACTTACCCTAAACCACTAGGATCTAGGAGTCCAATATGGAAGAT
* * * *
3788884 ACAGAT-ATTCATAAGGACTTACCCTAGACCACTATGATCTAGGAGGCCAATATGGAAGAT
1 ACA-ATCATCCATAAGGACTTACCCTAAACCACTAGGATCTAGGAGTCCAATATGGAAGAT
3788944 TAGAACAGAC
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
59 1 0.01
60 105 0.97
61 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (60 bp):
ACAATCATCCATAAGGACTTACCCTAAACCACTAGGATCTAGGAGTCCAATATGGAAGAT
Found at i:3790021 original size:23 final size:23
Alignment explanation
Indices: 3789966--3790023 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
3789956 CTCGTATAAA
*
3789966 TACACCAAAGTGCCACGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
*
3789989 TACACCGAAGTGCCGCGTAGAAT
1 TACACCGAAGTGCCACGTAGAAT
* *
3790012 TGCACTGAAGTG
1 TACACCGAAGTG
3790024 TCATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
TACACCGAAGTGCCACGTAGAAT
Found at i:3796675 original size:24 final size:21
Alignment explanation
Indices: 3796632--3796675 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
3796622 TCATGTGATG
*
3796632 TGTGATAGAAGAAAATACATA
1 TGTGATACAAGAAAATACATA
3796653 TGTGATTACAAGAGAAATGACAT
1 TGTGA-TACAAGA-AAAT-ACAT
3796676 GAGTACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 4 0.21
24 4 0.21
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (21 bp):
TGTGATACAAGAAAATACATA
Found at i:3796812 original size:22 final size:22
Alignment explanation
Indices: 3796766--3796813 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
3796756 AGTCGAGAGT
* * *
3796766 TACATAGGTCATTCAGGACATA
1 TACAGAGGTCATTCAAGACAAA
*
3796788 TACAGAGGTCATTCAAGATAAA
1 TACAGAGGTCATTCAAGACAAA
3796810 TACA
1 TACA
3796814 CATGTCCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (22 bp):
TACAGAGGTCATTCAAGACAAA
Found at i:3799562 original size:119 final size:119
Alignment explanation
Indices: 3799351--3799588 Score: 460
Period size: 119 Copynumber: 2.0 Consensus size: 119
3799341 AGAAGTGAAA
3799351 TTTCAAATTGAGATAATGTCGGGAACAACACCTATTGCAATAGCACCATACAAATGGCTCTAAAG
1 TTTCAAATTGAGATAATGTCGGGAACAACACCTATTGCAATAGCACCATACAAATGGCTCTAAAG
3799416 GAGTTGCAGGAGTTAAAGATTCAGTTACAGGAATTATTGGATAAAGGATTCATT
66 GAGTTGCAGGAGTTAAAGATTCAGTTACAGGAATTATTGGATAAAGGATTCATT
3799470 TTTCAAATTGAGATAATGTCGGGAACAACACCTATTGCAATAGCACCATACAAAATGGCTC-AAA
1 TTTCAAATTGAGATAATGTCGGGAACAACACCTATTGCAATAGCACCATAC-AAATGGCTCTAAA
3799534 GGAGTTGCAGGAGTTAAAGATTCAGTTACAGGAATTATTGGATAAAGGATTCATT
65 GGAGTTGCAGGAGTTAAAGATTCAGTTACAGGAATTATTGGATAAAGGATTCATT
3799589 AGACCTATTA
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
119 109 0.92
120 9 0.08
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (119 bp):
TTTCAAATTGAGATAATGTCGGGAACAACACCTATTGCAATAGCACCATACAAATGGCTCTAAAG
GAGTTGCAGGAGTTAAAGATTCAGTTACAGGAATTATTGGATAAAGGATTCATT
Found at i:3803884 original size:23 final size:23
Alignment explanation
Indices: 3803844--3803887 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3803834 CGTTAGTTTT
*
3803844 ATATTTTTTATATTTTTAATTAA
1 ATATTTTTTATATATTTAATTAA
3803867 ATATTATTTT-TATATTTAATT
1 ATATT-TTTTATATATTTAATT
3803888 TTTATGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATATTTTTTATATATTTAATTAA
Found at i:3803959 original size:12 final size:12
Alignment explanation
Indices: 3803925--3803959 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3803915 AATATTGCGT
3803925 TTTAATGTTATG
1 TTTAATGTTATG
* *
3803937 TTTTATATTATG
1 TTTAATGTTATG
3803949 TTTAATGTTAT
1 TTTAATGTTAT
3803960 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (12 bp):
TTTAATGTTATG
Found at i:3803999 original size:20 final size:19
Alignment explanation
Indices: 3803949--3803999 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
3803939 TTATATTATG
3803949 TTTAATGTTATAATTTTAA
1 TTTAATGTTATAATTTTAA
* * *
3803968 ATTAAGTATTATAATTTTTTA
1 TTTAA-TGTTATAA-TTTTAA
3803989 TTTAATGTTAT
1 TTTAATGTTAT
3804000 GCTTTTAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTAATGTTATAATTTTAA
Found at i:3804019 original size:12 final size:13
Alignment explanation
Indices: 3803924--3804020 Score: 51
Period size: 12 Copynumber: 7.5 Consensus size: 13
3803914 GAATATTGCG
*
3803924 TTTTAATGTTATG
1 TTTTAATGTTATA
*
3803937 TTTT-ATATTAT-
1 TTTTAATGTTATA
*
3803948 GTTTAATGTTATAA
1 TTTTAATGTTAT-A
*
3803962 TTTTAAAT-TAAGTA
1 TTTT-AATGTTA-TA
* * *
3803976 TTATAATTTTTTA
1 TTTTAATGTTATA
*
3803989 -TTTAATGTTATGC
1 TTTTAATGTTAT-A
3804002 TTTTAATGTTAT-
1 TTTTAATGTTATA
3804014 TTTTAAT
1 TTTTAAT
3804021 AAATATTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
11 3 0.05
12 27 0.42
13 9 0.14
14 21 0.33
15 4 0.06
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (13 bp):
TTTTAATGTTATA
Found at i:3805973 original size:31 final size:31
Alignment explanation
Indices: 3805937--3805997 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
3805927 CTGGGAAGGA
*
3805937 AGAGAAATATTTTCTGTGAAATAGATATTAG
1 AGAGAAATATTTTATGTGAAATAGATATTAG
3805968 AGAGAAATATTTTATGTGAAATAGATATTA
1 AGAGAAATATTTTATGTGAAATAGATATTA
3805998 AACTCATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (31 bp):
AGAGAAATATTTTATGTGAAATAGATATTAG
Found at i:3806667 original size:15 final size:15
Alignment explanation
Indices: 3806647--3806755 Score: 102
Period size: 15 Copynumber: 7.4 Consensus size: 15
3806637 TAATAAGGTT
3806647 TTTATTTTAAAATAA
1 TTTATTTTAAAATAA
3806662 TTTA-TTT-AAATAA
1 TTTATTTTAAAATAA
*
3806675 TTTATTATAAAATAA
1 TTTATTTTAAAATAA
*
3806690 TTTA--TTATAA-AA
1 TTTATTTTAAAATAA
*
3806702 TTTACTTTAAAATAA
1 TTTATTTTAAAATAA
* * *
3806717 ATTATTATAAATAATTGA
1 TTTATT-TTAA-AA-TAA
3806735 TTTATTTTAAAATAA
1 TTTATTTTAAAATAA
3806750 TTTATT
1 TTTATT
3806756 AGTATGGATT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
12 6 0.08
13 14 0.19
14 10 0.13
15 28 0.37
16 5 0.07
17 5 0.07
18 7 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (15 bp):
TTTATTTTAAAATAA
Found at i:3806685 original size:28 final size:28
Alignment explanation
Indices: 3806647--3806755 Score: 123
Period size: 28 Copynumber: 3.8 Consensus size: 28
3806637 TAATAAGGTT
3806647 TTTATTTTAAAATAATTTATTTAAATAA
1 TTTATTTTAAAATAATTTATTTAAATAA
*
3806675 TTTATTATAAAATAATTTA-TTATAA-AA
1 TTTATTTTAAAATAATTTATTTA-AATAA
* *
3806702 TTTACTTTAAAATAAATTATTATAAATAATTGA
1 TTTATTTTAAAATAATTTATT-TAAAT-A---A
3806735 TTTATTTTAAAATAATTTATT
1 TTTATTTTAAAATAATTTATT
3806756 AGTATGGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
27 21 0.31
28 23 0.34
29 2 0.03
30 1 0.01
33 20 0.30
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
TTTATTTTAAAATAATTTATTTAAATAA
Found at i:3806703 original size:12 final size:13
Alignment explanation
Indices: 3806656--3806738 Score: 80
Period size: 14 Copynumber: 6.1 Consensus size: 13
3806646 TTTTATTTTA
3806656 AAATAATTTATTT
1 AAATAATTTATTT
3806669 AAATAATTTATTAT
1 AAATAATTTATT-T
3806683 AAAATAATTTA-TT
1 -AAATAATTTATTT
3806696 ATAA-AATTTACTTT
1 A-AATAATTTA-TTT
*
3806710 AAAATAAATTATTAT
1 -AAATAATTTATT-T
*
3806725 AAATAATTGATTT
1 AAATAATTTATTT
3806738 A
1 A
3806739 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
12 7 0.12
13 17 0.29
14 18 0.31
15 17 0.29
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (13 bp):
AAATAATTTATTT
Found at i:3806712 original size:27 final size:26
Alignment explanation
Indices: 3806647--3806727 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
3806637 TAATAAGGTT
3806647 TTTATTTTAAAATAATTTATT-TAAATAA
1 TTTA-TTTAAAATAATTTATTAT-AA-AA
3806675 TTTATTATAAAATAATTTATTATAAAA
1 TTTATT-TAAAATAATTTATTATAAAA
*
3806702 TTTACTTTAAAATAAATTATTATAAA
1 TTTA-TTTAAAATAATTTATTATAAA
3806728 TAATTGATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
27 26 0.53
28 22 0.45
29 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTATTTAAAATAATTTATTATAAAA
Found at i:3806738 original size:33 final size:33
Alignment explanation
Indices: 3806701--3806781 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
3806691 TTATTATAAA
*
3806701 ATTTACTTTAAAATAAATTATTA-TAAAT-AATTG
1 ATTTATTTTAAAATAAATTATTAGT--ATGAATTG
* *
3806734 ATTTATTTTAAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATAAATTATTAGTATGAATTG
3806767 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
3806782 TGTATTGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 2 0.05
33 40 0.93
34 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (33 bp):
ATTTATTTTAAAATAAATTATTAGTATGAATTG
Found at i:3806749 original size:60 final size:55
Alignment explanation
Indices: 3806647--3806756 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 55
3806637 TAATAAGGTT
* *
3806647 TTTATTTTAAAATAATTTATTTAAATAATTTATTATAAAATAATTTATTATAAAA
1 TTTACTTTAAAATAAATTATTTAAATAATTTATTATAAAATAATTTATTATAAAA
*
3806702 TTTACTTTAAAATAAATTATTATAAATAATTGATTTATTTTAAAATAATTTATTA
1 TTTACTTTAAAATAAATTATT-TAAAT-A---ATTTATTATAAAATAATTTATTA
3806757 GTATGGATTG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
55 19 0.40
56 5 0.11
57 1 0.02
60 22 0.47
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (55 bp):
TTTACTTTAAAATAAATTATTTAAATAATTTATTATAAAATAATTTATTATAAAA
Found at i:3806783 original size:22 final size:22
Alignment explanation
Indices: 3806758--3806800 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3806748 AATTTATTAG
3806758 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
3806780 TATGTATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3806801 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3806809 original size:22 final size:22
Alignment explanation
Indices: 3806763--3806836 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 22
3806753 ATTAGTATGG
*
3806763 ATTGATTTATTTTAAA-ATATGT
1 ATTGATTTATTTTAAATA-ATTT
3806785 ATTGATTTATTTTAAATAATTT
1 ATTGATTTATTTTAAATAATTT
3806807 ATTAGTATGTTTATTTTTAAATAATTT
1 ATT-G-A--TTTA-TTTTAAATAATTT
3806834 ATT
1 ATT
3806837 AGTATGATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
22 22 0.49
23 2 0.04
24 1 0.02
26 4 0.09
27 16 0.36
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (22 bp):
ATTGATTTATTTTAAATAATTT
Found at i:3806824 original size:27 final size:26
Alignment explanation
Indices: 3806790--3807076 Score: 97
Period size: 32 Copynumber: 10.0 Consensus size: 26
3806780 TATGTATTGA
3806790 TTTATTTTAAATAATTTATTAGTATG
1 TTTATTTTAAATAATTTATTAGTATG
3806816 TTTATTTTTAAATAATTTATTAGTATGATTG
1 TTTA-TTTTAAATAATTTATTAG--T-A-TG
**
3806847 ATTTATTTTAAA-ATATGGATT-G-A--
1 -TTTATTTTAAATA-ATTTATTAGTATG
3806870 TTTA-TTTAAATAATTTATTAGTATGAATTG
1 TTTATTTTAAATAATTTATTAG--T--A-TG
*
3806900 ATTTATTTTAAATAATTTATTTGTATGG
1 -TTTATTTTAAATAATTTATTAGTAT-G
* ** **
3806928 ATTGA-TTTATTTTAAAATA-TAG-ATTG
1 -TTTATTTTA-AATAATTTATTAGTA-TG
3806954 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 -TTTATTTTAAATAATTTATTAG--T--A-TG
*
3806986 ATTTATTTTAAATAATTTATTAATATGGATTG
1 -TTTATTTTAAATAATTTA-T--TA-GTA-TG
*
3807018 ATTTATTTTAAATAATTTATTTGTATAG
1 -TTTATTTTAAATAATTTATTAGTAT-G
3807046 ATTAATTTATTTTAAATAATTTATTAGTATG
1 -----TTTATTTTAAATAATTTATTAGTATG
3807077 GATTGATTTA
Statistics
Matches: 203, Mismatches: 20, Indels: 71
0.69 0.07 0.24
Matches are distributed among these distances:
21 11 0.05
22 6 0.03
26 16 0.08
27 35 0.17
28 14 0.07
29 2 0.01
30 4 0.02
31 20 0.10
32 91 0.45
33 1 0.00
35 2 0.01
36 1 0.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (26 bp):
TTTATTTTAAATAATTTATTAGTATG
Found at i:3806915 original size:32 final size:32
Alignment explanation
Indices: 3806860--3807211 Score: 467
Period size: 32 Copynumber: 11.7 Consensus size: 32
3806850 TATTTTAAAA
3806860 TATGGATTGATTTA-TTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
3806891 TATGAATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
3806923 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
3806947 TA--GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
3806977 TATGAATTGATTTATTTTAAATAATTTATTAA
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
3807009 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
3807041 TATAGATTAATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
3807073 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
3807095 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
3807127 TATGGATTGATTTATTTTAAATAATTTATTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
3807159 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
3807191 TATAGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3807212 ATATAGATTG
Statistics
Matches: 282, Mismatches: 18, Indels: 41
0.83 0.05 0.12
Matches are distributed among these distances:
22 28 0.10
23 4 0.01
24 3 0.01
25 4 0.01
26 4 0.01
28 4 0.01
29 5 0.02
30 3 0.01
31 17 0.06
32 210 0.74
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:3806973 original size:14 final size:14
Alignment explanation
Indices: 3806954--3807070 Score: 81
Period size: 14 Copynumber: 7.5 Consensus size: 14
3806944 ATATAGATTG
3806954 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
3806968 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
3806986 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
3807000 ATTTATTAATATGGATTG
1 ATTTATT--T-T-AAATA
3807018 ATTTATTTTAAATA
1 ATTTATTTTAAATA
3807032 ATTTATTTGTATAGATTA
1 ATTTATTT-TA-A-A-TA
3807050 ATTTATTTTAAATA
1 ATTTATTTTAAATA
3807064 ATTTATT
1 ATTTATT
3807071 AGTATGGATT
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
14 36 0.44
15 5 0.06
16 6 0.07
17 5 0.06
18 29 0.36
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:3807055 original size:150 final size:150
Alignment explanation
Indices: 3806858--3807211 Score: 631
Period size: 150 Copynumber: 2.4 Consensus size: 150
3806848 TTTATTTTAA
*
3806858 AATATGGATTGATTTA-TTTAAATAATTTATTAGTAT-GAATTGATTTATTTTAAATAATTTATT
1 AATATGGATTGATTTATTTTAAATAATTTATTTGTATAG-ATTGATTTATTTTAAATAATTTATT
*
3806921 TGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
65 AGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
3806986 ATTTATTTTAAATAATTTATT
130 ATTTATTTTAAATAATTTATT
*
3807007 AATATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTAATTTATTTTAAATAATTTATTA
1 AATATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAATAATTTATTA
* *
3807072 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
66 GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
3807137 TTTATTTTAAATAATTTATT
131 TTTATTTTAAATAATTTATT
*
3807157 ATTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAA
1 AATATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAA
3807212 ATATAGATTG
Statistics
Matches: 196, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
149 16 0.08
150 179 0.91
151 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.53
Consensus pattern (150 bp):
AATATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAATAATTTATTA
GTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGAATTGA
TTTATTTTAAATAATTTATT
Found at i:3807089 original size:22 final size:22
Alignment explanation
Indices: 3807073--3807115 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3807063 AATTTATTAG
3807073 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3807095 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3807116 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3807199 original size:118 final size:118
Alignment explanation
Indices: 3806780--3807243 Score: 632
Period size: 118 Copynumber: 4.0 Consensus size: 118
3806770 TATTTTAAAA
* * *
3806780 TATGTATTGATTTATTTTAAATAATTTATTAGTAT-G-TT--TAT-TTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGT
3806840 AT-GATTGATTTATTTTAAAATATGGATTGATTTA-TTTAAATAATTTATTAG
66 ATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3806891 TATGAATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTT-AA-AA--TA-TAG-
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGT
* * * * * *
3806950 ATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTATTAA
66 ATAGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
* *
3807009 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTAATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGT
*
3807074 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
66 ATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
3807127 TATGGATTGATTTATTTTAAATAATTTATTAT-TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATT-TGTATGGATTGATTTATTTTAAATAATTTATTAG
*
3807191 TATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTA
65 TATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
3807244 TTGTATTGTA
Statistics
Matches: 311, Mismatches: 22, Indels: 33
0.85 0.06 0.09
Matches are distributed among these distances:
110 2 0.01
111 41 0.13
112 6 0.02
113 2 0.01
114 4 0.01
115 4 0.01
116 8 0.03
117 14 0.05
118 204 0.66
119 7 0.02
120 2 0.01
121 2 0.01
122 2 0.01
123 6 0.02
124 7 0.02
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (118 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGT
ATAGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:3807216 original size:22 final size:22
Alignment explanation
Indices: 3807191--3807233 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3807181 AATTTATTTG
3807191 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
3807213 TATAGATTGATTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
3807234 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:3807245 original size:86 final size:86
Alignment explanation
Indices: 3806729--3807243 Score: 560
Period size: 86 Copynumber: 5.9 Consensus size: 86
3806719 TATTATAAAT
3806729 AATTGATTTATTTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GTATTGATTT
1 AATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG-ATTGATTT
3806793 ATTTTAAATAATTTATTAGTATG
64 ATTTTAAATAATTTATTAGTATG
* *
3806816 --TT--TAT-TTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTGATTTA-
1 AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
3806874 TTTAAATAATTTATTAGTATG
66 TTTAAATAATTTATTAGTATG
*
3806895 AATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1 AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
3806960 TTTAAATAATTTATTAGTATG
66 TTTAAATAATTTATTAGTATG
* * *
3806981 AATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTT--AA-ATA-ATTTATTT-G
1 AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
* *
3807041 TATAGATTAATTTATT--T-T-
66 TTTA-AATAATTTATTAGTATG
* * * * * *
3807059 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
1 AATTGATTTATT--T-T-AAATAATTTA--TT--AGTATGGATTGATTTATTTT--A-AA---A-
*
3807124 TAGTATGGATTGATTTATTTTAAATAATTTATTATTATG
51 TA-TA--GATTGATTTATTTTAAATAATTTATTAGTATG
* * *
3807163 GATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATAGATTGATTTAT
1 AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
3807228 TTTAAATAATTTATTA
66 TTTAAATAATTTATTA
3807244 TTGTATTGTA
Statistics
Matches: 364, Mismatches: 28, Indels: 73
0.78 0.06 0.16
Matches are distributed among these distances:
78 10 0.03
79 22 0.06
80 32 0.09
81 24 0.07
82 28 0.08
83 7 0.02
84 24 0.07
85 33 0.09
86 112 0.31
88 2 0.01
89 2 0.01
90 1 0.00
91 1 0.00
93 2 0.01
94 2 0.01
96 18 0.05
97 2 0.01
98 2 0.01
100 24 0.07
101 4 0.01
102 2 0.01
103 1 0.00
104 9 0.02
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (86 bp):
AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
TTTAAATAATTTATTAGTATG
Found at i:3810404 original size:70 final size:70
Alignment explanation
Indices: 3810291--3810431 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
3810281 TATTAGAAAA
*
3810291 ACTATCAAACATATGAAGAAAACGAAGGGAATTCTGGTATTTATCTGATTTTATGAATGATCAGC
1 ACTATCAAACATATGAAGAAAACGAAGGGAATTATGGTATTTATCTGATTTTATGAATGATCAGC
3810356 ATAAG
66 ATAAG
3810361 ACTATCAAACATATGAAGAAAACGAAGGGAATTATGGTATTTATCTGATTTTATGAATGATCAGC
1 ACTATCAAACATATGAAGAAAACGAAGGGAATTATGGTATTTATCTGATTTTATGAATGATCAGC
3810426 ATAAG
66 ATAAG
3810431 A
1 A
3810432 AATTTGCTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (70 bp):
ACTATCAAACATATGAAGAAAACGAAGGGAATTATGGTATTTATCTGATTTTATGAATGATCAGC
ATAAG
Found at i:3819630 original size:16 final size:16
Alignment explanation
Indices: 3819609--3819660 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
3819599 GTAAATTCAG
3819609 TATTTAGTCATCTAAT
1 TATTTAGTCATCTAAT
* *
3819625 TATTTAGACA-CT-TT
1 TATTTAGTCATCTAAT
*
3819639 TATTTTGATCATCTAAT
1 TATTTAG-TCATCTAAT
3819656 TATTT
1 TATTT
3819661 TTTCTAAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 7 0.25
15 4 0.14
16 11 0.39
17 6 0.21
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (16 bp):
TATTTAGTCATCTAAT
Found at i:3819660 original size:17 final size:17
Alignment explanation
Indices: 3819616--3819661 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
3819606 CAGTATTTAG
*
3819616 TCATCTAATTATTTAGA
1 TCATCTAATTATTTTGA
*
3819633 -CA-CT-TTTATTTTGA
1 TCATCTAATTATTTTGA
3819647 TCATCTAATTATTTT
1 TCATCTAATTATTTT
3819662 TTCTAAACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
14 8 0.35
15 4 0.17
16 4 0.17
17 7 0.30
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (17 bp):
TCATCTAATTATTTTGA
Found at i:3825799 original size:176 final size:172
Alignment explanation
Indices: 3825505--3825853 Score: 637
Period size: 176 Copynumber: 2.0 Consensus size: 172
3825495 GTTGGAGTGA
3825505 GGAGGAAGCAAAGTGAGCCGAAAGGGGAGGGTGGGGTTATGGTGGTGGATTCAGGGGAAGACGGT
1 GGAGGAAGCAAAGTGAGCCGAAAGGGGAGGGTGGGGTTATGGTGGTGGATTCAGGGGAAGACGGT
3825570 TGCTTGGAGAACAAGAAAAGGTGTGGGTGGGTCACACCCAATCCGGGTACGTTTTTACATGTTTT
66 TGCTTGGAGAACAAGAAAAGGTGTGGGTGGGTCACACCCAATCCGGGTACGTTTTTACATGTTTT
3825635 CGGGTGTTTTACAAGTTGAGATTATTGGTGTTATTC-TATATCTTTT
131 CGGGTG--TT-C--GTTGAGATTATTGGTGTTATTCTTATATCTTTT
3825681 GGAGGAAGCAAAGTGAGCCGAAAGGGGAGGGTGGGGTTATGGTGGTGGATTCAGGGGAAGACGGT
1 GGAGGAAGCAAAGTGAGCCGAAAGGGGAGGGTGGGGTTATGGTGGTGGATTCAGGGGAAGACGGT
3825746 TGCTTGGAGAACAAGAAAAGGTGTGGGTGGGTCACACCCAATCCGGGTACGTTTTTACATGTTTT
66 TGCTTGGAGAACAAGAAAAGGTGTGGGTGGGTCACACCCAATCCGGGTACGTTTTTACATGTTTT
*
3825811 CGGGTGTTCTTTGAGATTATTGGTGTTATTCTTATATCTTTT
131 CGGGTGTTCGTTGAGATTATTGGTGTTATTCTTATATCTTTT
3825853 G
1 G
3825854 TGCTTTGGAT
Statistics
Matches: 171, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
171 21 0.12
172 11 0.06
173 1 0.01
174 2 0.01
176 136 0.80
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.30
Consensus pattern (172 bp):
GGAGGAAGCAAAGTGAGCCGAAAGGGGAGGGTGGGGTTATGGTGGTGGATTCAGGGGAAGACGGT
TGCTTGGAGAACAAGAAAAGGTGTGGGTGGGTCACACCCAATCCGGGTACGTTTTTACATGTTTT
CGGGTGTTCGTTGAGATTATTGGTGTTATTCTTATATCTTTT
Found at i:3830271 original size:15 final size:15
Alignment explanation
Indices: 3830253--3830283 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3830243 ATTATTTGAA
3830253 TTATTAGAATTTATT
1 TTATTAGAATTTATT
*
3830268 TTATTTGAATTTATT
1 TTATTAGAATTTATT
3830283 T
1 T
3830284 AAATAATTTT
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:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTATTAGAATTTATT
Found at i:3830634 original size:70 final size:70
Alignment explanation
Indices: 3830521--3830667 Score: 267
Period size: 70 Copynumber: 2.1 Consensus size: 70
3830511 CATGTTCCAT
* * *
3830521 CTACCATGTGGGGAGTGTATCATTACGCTAAAGGATGTTTCAATGTAATTGGGGCTCCCGATCGA
1 CTACCATGTGGGGAGTGTACCATTACGCTAAAGGATGTTTCAATGCAACTGGGGCTCCCGATCGA
3830586 TGGAA
66 TGGAA
3830591 CTACCATGTGGGGAGTGTACCATTACGCTAAAGGATGTTTCAATGCAACTGGGGCTCCCGATCGA
1 CTACCATGTGGGGAGTGTACCATTACGCTAAAGGATGTTTCAATGCAACTGGGGCTCCCGATCGA
3830656 TGGAA
66 TGGAA
3830661 CTACCAT
1 CTACCAT
3830668 TTGTGGTGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (70 bp):
CTACCATGTGGGGAGTGTACCATTACGCTAAAGGATGTTTCAATGCAACTGGGGCTCCCGATCGA
TGGAA
Found at i:3834578 original size:83 final size:82
Alignment explanation
Indices: 3834431--3835022 Score: 521
Period size: 83 Copynumber: 7.2 Consensus size: 82
3834421 TGTTATAGTG
* * * * *
3834431 TTTTCTATTATTATTCT-TAGAATCTCTATCATATCATAATGTTCCATCCCATCCGAAATGAAAG
1 TTTTCCATTATTATT-TAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAG
3834495 GCGCGTTCCAGGGGAACCA
65 GCGCGTTCCAGGGGAA-CA
* * *
3834514 TTTTCCATTATTATTTAGAGAATCTCTACCATGTTATAGTGTTCCATCCCATCCAAAATTAAAGG
1 TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
*** *
3834579 CATATTCCAGGGGAAGA
66 CGCGTTCCAGGGGAACA
* * * *
3834596 GTTTTCCATTATTATTTAAAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCCGAAATGAAAG
1 -TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAG
* * *
3834661 ACGTGTTCCAGTGGAAGCCA
65 GCGCGTTCCAGGGGAA--CA
* ** * ** * * *
3834681 TTTT-CATTATTATTAAGAGAATCTCTGTCATGTCATAGTGTTCTATCTTATTCAAAATGAAATG
1 TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
3834745 TGCATTCTAGGGGAAGCG
66 CGCGTTCCAGGGGAA-CA
* * * * * *
3834763 TTTTCCATTATTATTCAGAGAATCTCTACAATATCATAGTGTTACATCCCATTC--TATGAAAGG
1 TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
3834826 CGTGTTCTAGAGGAAATA
66 CGCGTTCCAG-GGGAACA
* * * * * *
3834844 TTTTCCATTATTATTCAGATAATCTCTTCCATGTCATAGTGTTCTATCTCATCCGAAATGAAAAG
1 TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
*
3834909 CGCGTTCCAGGGGAAGA
66 CGCGTTCCAGGGGAACA
* * ** * * *
3834926 GTTTTCCATTATTA-TT-CAGAATCTTTGTCATGTCATAGTGTTCCATACCATCTGAAATTAAAG
1 -TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAG
* * *
3834989 GTGCGTTCTAGGGGAAGCG
65 GCGCGTTCCAGGGGAA-CA
*
3835008 TTTTCTATTATTATT
1 TTTTCCATTATTATT
3835023 CAGCCCATCT
Statistics
Matches: 409, Mismatches: 89, Indels: 23
0.79 0.17 0.04
Matches are distributed among these distances:
81 122 0.30
82 18 0.04
83 264 0.65
84 4 0.01
85 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (82 bp):
TTTTCCATTATTATTTAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
CGCGTTCCAGGGGAACA
Found at i:3834999 original size:164 final size:165
Alignment explanation
Indices: 3834430--3835025 Score: 639
Period size: 166 Copynumber: 3.6 Consensus size: 165
3834420 ATGTTATAGT
* * *
3834430 GTTTTCTATTATTATTCTTAGAATCTCTATCATATCATAATGTTCCATCCCATCCGAAATGAAAG
1 GTTTTCCATTATTATTC-TAGAATCTCTGTCATATCATAGTGTTCCATCCCATCCGAAATGAAAG
* * * *
3834495 GCGCGTTCCAGGGGAACCATTTTCCATTATTATTTAGAGAATCTCTACCATGTTATAGTGTTCCA
65 GCGCGTTCCAGGGGAACCATTTTCCATTATTATTCAGAGAATCTCTTCCATGTCATAGTGTTCTA
* * * **
3834560 TCCCATCCAAAATTAAAGGCATATTCCAGGGGAAGA
130 TCTCATCCAAAATGAAAAGCGCATTCCAGGGGAAGA
* * * *
3834596 GTTTTCCATTATTATT-TAAAGAATCTCTGCCATGTCATAGTGTTTCATCCTATCCGAAATGAAA
1 GTTTTCCATTATTATTCT--AGAATCTCTGTCATATCATAGTGTTCCATCCCATCCGAAATGAAA
* * * *
3834660 GACGTGTTCCAGTGGAAGCCATTTT-CATTATTATTAAGAGAATCTCTGT-CATGTCATAGTGTT
64 GGCGCGTTCCAGGGGAA-CCATTTTCCATTATTATTCAGAGAATCTCT-TCCATGTCATAGTGTT
* * * * * *
3834723 CTATCTTATTCAAAATGAAATGTGCATTCTAGGGGAAGC
127 CTATCTCATCCAAAATGAAAAGCGCATTCCAGGGGAAGA
* * * * *
3834762 GTTTTCCATTATTATTCAGAGAATCTCT-ACAATATCATAGTGTTACATCCCATTC--TATGAAA
1 GTTTTCCATTATTATTC-TAGAATCTCTGTC-ATATCATAGTGTTCCATCCCATCCGAAATGAAA
* * * ** *
3834824 GGCGTGTTCTAGAGGAAATATTTTCCATTATTATTCAGATAATCTCTTCCATGTCATAGTGTTCT
64 GGCGCGTTCCAGGGGAACCATTTTCCATTATTATTCAGAGAATCTCTTCCATGTCATAGTGTTCT
* *
3834889 ATCTCATCCGAAATGAAAAGCGCGTTCCAGGGGAAGA
129 ATCTCATCCAAAATGAAAAGCGCATTCCAGGGGAAGA
* * * * *
3834926 GTTTTCCATTATTATTC-AGAATCTTTGTCATGTCATAGTGTTCCATACCATCTGAAATTAAAGG
1 GTTTTCCATTATTATTCTAGAATCTCTGTCATATCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * * *
3834990 TGCGTTCTAGGGGAAGCGTTTTCTATTATTATTCAG
66 CGCGTTCCAGGGGAACCATTTTCCATTATTATTCAG
3835026 CCCATCTAAA
Statistics
Matches: 356, Mismatches: 62, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
162 27 0.08
163 7 0.02
164 139 0.39
165 1 0.00
166 175 0.49
167 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (165 bp):
GTTTTCCATTATTATTCTAGAATCTCTGTCATATCATAGTGTTCCATCCCATCCGAAATGAAAGG
CGCGTTCCAGGGGAACCATTTTCCATTATTATTCAGAGAATCTCTTCCATGTCATAGTGTTCTAT
CTCATCCAAAATGAAAAGCGCATTCCAGGGGAAGA
Found at i:3835157 original size:137 final size:134
Alignment explanation
Indices: 3834899--3835162 Score: 307
Period size: 137 Copynumber: 1.9 Consensus size: 134
3834889 ATCTCATCCG
* * * ** *
3834899 AAATGAAAAGCGCGTTCCAGGGGAAGAGTTTTCCATTATTATTCAGAATCTTTGTCATGTCATAG
1 AAATGAAAAGCGCGTTCCAAGAGAAGAGTTTTCCATTATTATTCAGAATCTCTACCATGTCATAA
* ** * * * *
3834964 TGTTCCATACCATCTGAAATTAAAGGTGCGTTCTAGGGGAAGCGTTTTCTATTATTATTCAGCCC
66 TGCTCCATACCATCCAAAATGAAA-GTGCGTTCTAGAGGAAGCATTTTCCATTATTATTCAGCCC
3835029 ATCTA
130 ATCTA
* * *
3835034 AAATGAAAGGCGTGTTCCAAGAGAAGTGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCAT
1 AAATGAAAAGCGCGTTCCAAGAGAAGAGTTTTCCATTATTATTC--AGAATCTCTACCATGTCAT
*
3835099 AATGCTCCAT-CCAATCCAAAATGAAA-TGCGTATTTCAGAGGAAGCATTTTCCATTATTATTCA
64 AATGCTCCATACC-ATCCAAAATGAAAGTGCGT-TCT-AGAGGAAGCATTTTCCATTATTATTCA
3835162 G
126 G
3835163 AAAATCTATG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
135 44 0.41
136 4 0.04
137 59 0.55
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (134 bp):
AAATGAAAAGCGCGTTCCAAGAGAAGAGTTTTCCATTATTATTCAGAATCTCTACCATGTCATAA
TGCTCCATACCATCCAAAATGAAAGTGCGTTCTAGAGGAAGCATTTTCCATTATTATTCAGCCCA
TCTA
Found at i:3839404 original size:39 final size:40
Alignment explanation
Indices: 3839350--3839434 Score: 163
Period size: 39 Copynumber: 2.1 Consensus size: 40
3839340 TAGTGATTTC
3839350 GATCCAACTCCTTATGTGATGGATTTAGATGGCAATG-TT
1 GATCCAACTCCTTATGTGATGGATTTAGATGGCAATGTTT
3839389 GATCCAACTCCTTATGTGATGGATTTAGATGGCAATGTTT
1 GATCCAACTCCTTATGTGATGGATTTAGATGGCAATGTTT
3839429 GATCCA
1 GATCCA
3839435 CCTCATTCTG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 37 0.82
40 8 0.18
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (40 bp):
GATCCAACTCCTTATGTGATGGATTTAGATGGCAATGTTT
Found at i:3840004 original size:105 final size:105
Alignment explanation
Indices: 3839892--3840407 Score: 863
Period size: 105 Copynumber: 4.9 Consensus size: 105
3839882 TTTGTCGGAT
* * * * * *
3839892 GAGTTCTTCTCATTATGAACTCTTTTGGAAATGTCGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
3839957 GGAACATACTCTTCTCATTACGAACCTTCTCCTTTAAGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
3839997 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
3840062 TGAACATGCTCTTCTCATTACGAACCTTCTACTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* * *
3840102 GAGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTTTACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
3840167 GGAACGTGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
3840207 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTAAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
3840272 GGAACAGGCTCTTCTCATTACGAACATTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
3840312 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
3840377 GGAACA-GACTCTTCTCATTACGAACCTTCTC
66 GGAACATG-CTCTTCTCATTACGAACCTTCTC
3840408 ATTACGAACC
Statistics
Matches: 385, Mismatches: 25, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
104 1 0.00
105 384 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:3840254 original size:210 final size:210
Alignment explanation
Indices: 3839892--3840494 Score: 891
Period size: 210 Copynumber: 2.8 Consensus size: 210
3839882 TTTGTCGGAT
* * * * *
3839892 GAGTTCTTCTCATTATGAACTCTTTTGGAAATGTCGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
3839957 GGAACATACTCTTCTCATTACGAACCTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTC
66 GGAACGTACTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
* *
3840022 TGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAATGAACATGCTCTTCTCATTACGAAC
131 TGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAGGCTCTTCTCATTACGAAC
*
3840087 CTTCTACTTTAGGAC
196 ATTCTACTTTAGGAC
* *
3840102 GAGTTCTTCTCATTATGAACTCTTCTAGAAATGTTGGTTTACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
3840167 GGAACGTGCTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
66 GGAACGTACTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
*
3840232 TGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTAAAAGGAACAGGCTCTTCTCATTACGAAC
131 TGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAGGCTCTTCTCATTACGAAC
*
3840297 ATTCTCCTTTAGGAC
196 ATTCTACTTTAGGAC
*
3840312 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
3840377 GGAACAGACTCTTCTCATTACGAACCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCT
66 GGAAC-G-----------TAC---TCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCT
* * *
3840442 CATTATGAACTCTTCTGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGA
116 CATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGA
3840495 TTGTTGTTAA
Statistics
Matches: 354, Mismatches: 24, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
210 262 0.74
211 1 0.00
222 2 0.01
225 89 0.25
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (210 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
GGAACGTACTCTTCTCATTACGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
TGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAGGCTCTTCTCATTACGAAC
ATTCTACTTTAGGAC
Found at i:3840407 original size:15 final size:15
Alignment explanation
Indices: 3840387--3840422 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
3840377 GGAACAGACT
3840387 CTTCTCATTACGAAC
1 CTTCTCATTACGAAC
3840402 CTTCTCATTACGAAC
1 CTTCTCATTACGAAC
3840417 CTTCTC
1 CTTCTC
3840423 CTTTAGGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.36, G:0.06, T:0.36
Consensus pattern (15 bp):
CTTCTCATTACGAAC
Found at i:3841412 original size:8 final size:8
Alignment explanation
Indices: 3841399--3841474 Score: 68
Period size: 8 Copynumber: 9.4 Consensus size: 8
3841389 CGAACCCTCC
3841399 TTTTTCTT
1 TTTTTCTT
3841407 TTTTTC--
1 TTTTTCTT
3841413 -TTTTCATT
1 TTTTTC-TT
*
3841421 TTTTCCTT
1 TTTTTCTT
3841429 TTTTTCTTT
1 TTTTTC-TT
*
3841438 TTTTTCAT
1 TTTTTCTT
3841446 TTTTTCATT
1 TTTTTC-TT
*
3841455 TTTTTTTAT
1 TTTTTCT-T
3841464 TTTTTCTT
1 TTTTTCTT
3841472 TTT
1 TTT
3841475 CACTTTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 5 0.09
8 25 0.45
9 25 0.45
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:3841442 original size:18 final size:17
Alignment explanation
Indices: 3841398--3841474 Score: 75
Period size: 17 Copynumber: 4.4 Consensus size: 17
3841388 TCGAACCCTC
*
3841398 CTTTTTCTTTTTTTCTTTT
1 CTTTTT-TTTCTTT-TTTT
* *
3841417 CATTTTTTCCTTTTTTT
1 CTTTTTTTTCTTTTTTT
*
3841434 CTTTTTTTTCATTTTTT
1 CTTTTTTTTCTTTTTTT
3841451 CATTTTTTTT-TATTTTTT
1 C-TTTTTTTTCT-TTTTTT
3841469 CTTTTT
1 CTTTTT
3841475 CACTTTTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 24 0.49
18 20 0.41
19 5 0.10
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (17 bp):
CTTTTTTTTCTTTTTTT
Found at i:3841449 original size:26 final size:25
Alignment explanation
Indices: 3841400--3841482 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 25
3841390 GAACCCTCCT
3841400 TTTTCTTTTTTTCTTTTCATTTTTTCC
1 TTTT-TTTTTTT-TTTTCATTTTTTCC
*
3841427 TTTTTTTCTTTTTTTTCATTTTTTCA
1 TTTTTTT-TTTTTTTTCATTTTTTCC
3841453 TTTTTTTTTATTTTTTC--TTTTTCAC
1 TTTTTTTTT-TTTTTTCATTTTTTC-C
3841478 TTTTT
1 TTTTT
3841483 CATTTTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.12
25 7 0.14
26 30 0.59
27 8 0.16
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTCATTTTTTCC
Found at i:3841493 original size:8 final size:8
Alignment explanation
Indices: 3841413--3841494 Score: 78
Period size: 8 Copynumber: 10.0 Consensus size: 8
3841403 TCTTTTTTTC
3841413 TTTTCATT
1 TTTTCATT
*
3841421 TTTTCCTTT
1 TTTT-CATT
*
3841430 TTTTCTTTT
1 TTTTC-ATT
3841439 TTTTCATT
1 TTTTCATT
3841447 TTTTCATTTT
1 TTTTCA--TT
*
3841457 TTTTTATT
1 TTTTCATT
3841465 TTTTC--T
1 TTTTCATT
*
3841471 TTTTCACT
1 TTTTCATT
3841479 TTTTCATT
1 TTTTCATT
3841487 TTTTCATT
1 TTTTCATT
3841495 CATTCTCTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
6 6 0.10
8 35 0.56
9 15 0.24
10 7 0.11
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:3841504 original size:32 final size:31
Alignment explanation
Indices: 3841438--3841506 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
3841428 TTTTTTCTTT
* * *
3841438 TTTTTCATTTTTTCATTTTTTTTTATTTTTTC
1 TTTTTCACTTTTTCATTTTTTTTCA-TTTCTC
3841470 TTTTTCACTTTTTCATTTTTTCATTCA-TTCTC
1 TTTTTCACTTTTTCATTTTTT--TTCATTTCTC
3841502 TTTTT
1 TTTTT
3841507 TTTTCAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 29 0.91
34 3 0.09
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTTCACTTTTTCATTTTTTTTCATTTCTC
Found at i:3844993 original size:14 final size:14
Alignment explanation
Indices: 3844974--3845000 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3844964 AAATGAATGT
3844974 AAAGAATGAAGAAC
1 AAAGAATGAAGAAC
3844988 AAAGAATGAAGAA
1 AAAGAATGAAGAA
3845001 TGAAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (14 bp):
AAAGAATGAAGAAC
Found at i:3849131 original size:156 final size:158
Alignment explanation
Indices: 3848847--3849164 Score: 622
Period size: 156 Copynumber: 2.0 Consensus size: 158
3848837 TTCACATATA
3848847 CGGCCTAGCTCTTCTATTAAGCTCAGTAATTTCACTAATCATTCACAACATCTTCTTCCCACACT
1 CGGCCTAGCTCTTCTATTAAGCTCAGTAATTTCACTAATCATTCACAACATCTTCTTCCCACACT
3848912 TAGAAACCGGATTGATGTGGTGCTCGATGACCTTTGCTTCGACAGCTAGTTCTCCAATGTATCTG
66 TAGAAACCGGATTGATGTGGTGCTCGATGACCTTTGCTTCGACAGCTAGTTCTCCAATGTATCTG
3848977 GCAACTTCA-TCAT-TGTATTATGGCCT
131 GCAACTTCACTCATCTGTATTATGGCCT
3849003 CGGCCTAGCTCTTCTATTAAGCTCAGTAATTTCACTAATCATTCACAACATCTTCTTCCCACACT
1 CGGCCTAGCTCTTCTATTAAGCTCAGTAATTTCACTAATCATTCACAACATCTTCTTCCCACACT
3849068 TAGAAACCGGATTGATGTGGTGCTCGATGACCTTTGCTTCGACAGCTAGTTCTCCAATGTATCTG
66 TAGAAACCGGATTGATGTGGTGCTCGATGACCTTTGCTTCGACAGCTAGTTCTCCAATGTATCTG
3849133 GCAACTTCACTCATCTGTATTATGGCCT
131 GCAACTTCACTCATCTGTATTATGGCCT
3849161 CGGC
1 CGGC
3849165 TACCATGATG
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 139 0.87
157 4 0.03
158 17 0.11
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (158 bp):
CGGCCTAGCTCTTCTATTAAGCTCAGTAATTTCACTAATCATTCACAACATCTTCTTCCCACACT
TAGAAACCGGATTGATGTGGTGCTCGATGACCTTTGCTTCGACAGCTAGTTCTCCAATGTATCTG
GCAACTTCACTCATCTGTATTATGGCCT
Found at i:3855735 original size:26 final size:27
Alignment explanation
Indices: 3855705--3855768 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
3855695 CCAAATGAGG
3855705 TTCAGACTTAG-ACCAATTATACCAAA
1 TTCAGACTTAGCACCAATTATACCAAA
* *
3855731 TTCAGACTTAGCTTCCAATTATACCAGA
1 TTCAGACTTAGC-ACCAATTATACCAAA
*
3855759 TTAAGACTTA
1 TTCAGACTTA
3855769 TTAAAGAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 11 0.33
28 22 0.67
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TTCAGACTTAGCACCAATTATACCAAA
Found at i:3859381 original size:13 final size:13
Alignment explanation
Indices: 3859365--3859389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3859355 TATAAATATC
3859365 CCCTCATACAACT
1 CCCTCATACAACT
3859378 CCCTCATACAAC
1 CCCTCATACAAC
3859390 CCCAAACCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (13 bp):
CCCTCATACAACT
Found at i:3860475 original size:21 final size:21
Alignment explanation
Indices: 3860451--3860490 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3860441 TACTGAGTTC
3860451 GTATATAAAT-AATTTTTTTGA
1 GTATAT-AATGAATTTTTTTGA
3860472 GTATATAATGAATTTTTTT
1 GTATATAATGAATTTTTTT
3860491 ACAATGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
GTATATAATGAATTTTTTTGA
Found at i:3868348 original size:2 final size:2
Alignment explanation
Indices: 3868343--3868370 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3868333 TAAAATAAGA
3868343 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
3868371 TTAAAATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3869342 original size:43 final size:43
Alignment explanation
Indices: 3869295--3869378 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
3869285 TTAAAAATAT
* *
3869295 TTTTAATATGTTAGTTTGATGTATTTG-GTGATTGTTACTTTGA
1 TTTTAATATGTTAATTTGATGTATTTGTG-GATTATTACTTTGA
*
3869338 TTTTAATATGTTAATTTGGTGTATTTGTGGATTATTACTTT
1 TTTTAATATGTTAATTTGATGTATTTGTGGATTATTACTTT
3869379 AGAGTTTAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.57
Consensus pattern (43 bp):
TTTTAATATGTTAATTTGATGTATTTGTGGATTATTACTTTGA
Found at i:3869797 original size:30 final size:30
Alignment explanation
Indices: 3869745--3869801 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3869735 AATAAAATTT
* *
3869745 TAATTACATATTATCTATTTCAAAATATAA
1 TAATTACATATAAACTATTTCAAAATATAA
3869775 TAATTACATATAAACT-TGTTCAAAATA
1 TAATTACATATAAACTAT-TTCAAAATA
3869802 ATGTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (30 bp):
TAATTACATATAAACTATTTCAAAATATAA
Found at i:3873646 original size:43 final size:45
Alignment explanation
Indices: 3873551--3873880 Score: 191
Period size: 43 Copynumber: 7.6 Consensus size: 45
3873541 ATTCTATGAA
* * * *
3873551 ATTG-AAAAA-ATTAGAGGCCTCAATTATAAAGGTAGAAATTGAG
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* * *
3873594 ATTGGAAAAATA-TAGGTGTCTCAATTATAAAGGTAAAAAGTGGG
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* * * * * **
3873638 ATT-AAAAAA-ATTAGAGGCCACAATTACAAGGGTAGAAAGTGTA
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* * ** * *
3873681 ATTG-AAAAA-CTTAGGGGCCTCAAATATAAATTTAAAAGGTGGC
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* * * * *
3873724 ATT-AAAAAAAATTAGGGGTCTTAATTATAAAGGTAAAAAATGAG
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* *** * * * *
3873768 ATTG-AAACA-ATTAGAAACTTCAATTATAAAGATAGAAAGTGAG
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
* * * * **
3873811 ATTGAAAAAA-ATTA-AGACCTTAATTATAAAGGTAAAAAATAAG
1 ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
** *
3873854 ATTTTAAAAA-ATTAGGGGCCTTAATTA
1 ATTGAAAAAATATTAGGGGCCTCAATTA
3873881 CAAAAAAAAA
Statistics
Matches: 218, Mismatches: 60, Indels: 17
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.00
43 133 0.61
44 83 0.38
45 1 0.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (45 bp):
ATTGAAAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGGG
Found at i:3873732 original size:87 final size:87
Alignment explanation
Indices: 3873555--3873771 Score: 224
Period size: 87 Copynumber: 2.5 Consensus size: 87
3873545 TATGAAATTG
* * * * * *
3873555 AAAAAATTAGAGGCCTCAATTATAAAGGTAGAAATTGAGATTGGAAAAATATAGGTGTCTCAATT
1 AAAAAATTAGAGGCCACAATTACAAAGGTAGAAAGTGAGATTGGAAAAATATAGGGGCCTCAAAT
*
3873620 ATAAAGGTAAAAAGTGGGATTA
66 ATAAAGGTAAAAAGTGGCATTA
*
3873642 AAAAAATTAGAGGCCACAATTACAAGGGTAGAAAGTGTA-ATT-GAAAAACT-TAGGGGCCTCAA
1 AAAAAATTAGAGGCCACAATTACAAAGGTAGAAAGTG-AGATTGGAAAAA-TATAGGGGCCTCAA
** *
3873704 ATATAAATTTAAAAGGTGGCATTAA
64 ATATAAAGGTAAAAAGTGGCATT-A
* * ** * * *
3873729 AAAAAATTAGGGGTCTTAATTATAAAGGTAAAAAATGAGATTG
1 AAAAAATTAGAGGCCACAATTACAAAGGTAGAAAGTGAGATTG
3873772 AAACAATTAG
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
86 35 0.33
87 70 0.66
88 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.25
Consensus pattern (87 bp):
AAAAAATTAGAGGCCACAATTACAAAGGTAGAAAGTGAGATTGGAAAAATATAGGGGCCTCAAAT
ATAAAGGTAAAAAGTGGCATTA
Found at i:3873847 original size:130 final size:131
Alignment explanation
Indices: 3873550--3873847 Score: 293
Period size: 130 Copynumber: 2.3 Consensus size: 131
3873540 AATTCTATGA
* * * ** *
3873550 AATTGAAAAAATTAGAGGCCTCAATTATAAAGGTAGAAA-TTGAG-ATT-GGAAAAATATAGGTG
1 AATTGAAAAAATTAGAGACCTCAAATATAAAGGTA-AAAGGTG-GCATTAAAAAAAATATAGGGG
* * ** * *
3873612 TCTCAATTATAAAGGTAAAAAGTGGGATTAAAAAAATTAGAGGCCACAATTACAAGGGTAGAAAG
64 TCTCAATTATAAAGGTAAAAAATGAGATTAAAAAAATTAGAAACCACAATTACAAAGATAGAAAG
3873677 TGT
129 TGT
* * * **
3873680 AATTGAAAAACTTAGGGGCCTCAAATATAAATTTAAAAGGTGGCATTAAAAAAAAT-TAGGGGTC
1 AATTGAAAAAATTAGAGACCTCAAATATAAAGGTAAAAGGTGGCATTAAAAAAAATATAGGGGTC
* * * ** *
3873744 TTAATTATAAAGGTAAAAAATGAGATTGAAACAATTAGAAACTTCAATTATAAAGATAGAAAGTG
66 TCAATTATAAAGGTAAAAAATGAGATTAAAAAAATTAGAAACCACAATTACAAAGATAGAAAGTG
3873809 -
131 T
* *
3873809 AGATTGAAAAAAATTA-AGACCTTAATTATAAAGGTAAAA
1 A-ATTG-AAAAAATTAGAGACCTCAAATATAAAGGTAAAA
3873848 AATAAGATTT
Statistics
Matches: 135, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
129 5 0.04
130 116 0.86
131 14 0.10
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (131 bp):
AATTGAAAAAATTAGAGACCTCAAATATAAAGGTAAAAGGTGGCATTAAAAAAAATATAGGGGTC
TCAATTATAAAGGTAAAAAATGAGATTAAAAAAATTAGAAACCACAATTACAAAGATAGAAAGTG
T
Found at i:3874331 original size:2 final size:2
Alignment explanation
Indices: 3874324--3874394 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
3874314 AAATCCGTAA
3874324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3874366 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 A
3874395 GGTTAAATTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3877030 original size:21 final size:22
Alignment explanation
Indices: 3877005--3877051 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3876995 TAAAAATAAT
*
3877005 AAAATTATA-ATTTAGTT-TTAA
1 AAAATAATATATTTA-TTATTAA
3877026 AAAATAATATATTTATTATTAA
1 AAAATAATATATTTATTATTAA
3877048 AAAA
1 AAAA
3877052 ATAAGGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATAATATATTTATTATTAA
Found at i:3881281 original size:26 final size:26
Alignment explanation
Indices: 3881252--3881304 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3881242 GAATGATTCA
* *
3881252 TTTGACTTATTGATTGTAAGTTTTTT
1 TTTGACTAATAGATTGTAAGTTTTTT
**
3881278 TTTGGGTAATAGATTGTAAGTTTTTT
1 TTTGACTAATAGATTGTAAGTTTTTT
3881304 T
1 T
3881305 AATAAAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (26 bp):
TTTGACTAATAGATTGTAAGTTTTTT
Found at i:3888596 original size:165 final size:165
Alignment explanation
Indices: 3888320--3888644 Score: 632
Period size: 165 Copynumber: 2.0 Consensus size: 165
3888310 AGCTAGAAAT
3888320 CATCTCCCACCTTGACTTGGATGATAAAACCCCCAACTTTCTCTTGCAAACGAAGAACACATGGC
1 CATCTCCCACCTTGACTTGGATGATAAAACCCCCAACTTTCTCTTGCAAACGAAGAACACATGGC
*
3888385 TTGAATGGTTAAATCCATGTTGCCTGGGGGATTAAGAACGAAAATAAAACTTGAAAGAGACAAGA
66 TTGAATGGTTAAATCCATGTTGCCTGGGGGATTAAGAACAAAAATAAAACTTGAAAGAGACAAGA
3888450 AATGACCTAAATGACTCACCTTTAACTTGAAGAGC
131 AATGACCTAAATGACTCACCTTTAACTTGAAGAGC
*
3888485 CATCTCCCACCTTGACTTGGATGATAAAACCCCCAACTTTCTCTTGCAAACGAAGAACCCATGGC
1 CATCTCCCACCTTGACTTGGATGATAAAACCCCCAACTTTCTCTTGCAAACGAAGAACACATGGC
3888550 TTGAATGGTTAAATCCATGTTGCCTGGGGGATTAAGAACAAAAATAAAACTTGAAAGAGACAAGA
66 TTGAATGGTTAAATCCATGTTGCCTGGGGGATTAAGAACAAAAATAAAACTTGAAAGAGACAAGA
3888615 AATGACCTAAATGACTCACCTTTAACTTGA
131 AATGACCTAAATGACTCACCTTTAACTTGA
3888645 GGAGATTGAG
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 158 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (165 bp):
CATCTCCCACCTTGACTTGGATGATAAAACCCCCAACTTTCTCTTGCAAACGAAGAACACATGGC
TTGAATGGTTAAATCCATGTTGCCTGGGGGATTAAGAACAAAAATAAAACTTGAAAGAGACAAGA
AATGACCTAAATGACTCACCTTTAACTTGAAGAGC
Found at i:3889302 original size:128 final size:128
Alignment explanation
Indices: 3889064--3889325 Score: 461
Period size: 128 Copynumber: 2.0 Consensus size: 128
3889054 TAAATTCATG
*
3889064 ATGGATGCTCAACTTAGTCTTCTAAGTTCAATGTACTCAAATGAAGCTATGAAAAGACTCATAGC
1 ATGGATGCTCAACTTAGTCTTCTAAGTTCAATGTACTCAAACGAAGCTATGAAAAGACTCATAGC
* *
3889129 GCAAACTTTTATATATCCTTAAGGCAAACAATATACATGCCTAAGGTTGAGCTTTTGCTCTTA
66 ACAAACTTTTATATATCCTTAAGGCAAACAATATACATGCATAAGGTTGAGCTTTTGCTCTTA
* *
3889192 ATGGGTGCTCAACTTAGTCTTCTAAGTTTAATGTACTCAAACGAAGCTATGAAAAGACTCATAGC
1 ATGGATGCTCAACTTAGTCTTCTAAGTTCAATGTACTCAAACGAAGCTATGAAAAGACTCATAGC
* *
3889257 ACAAACTTTTATCTATCCTTAAGGCAAACAATATACATGCATAAGGTTGAGCTTTTTCTCTTA
66 ACAAACTTTTATATATCCTTAAGGCAAACAATATACATGCATAAGGTTGAGCTTTTGCTCTTA
3889320 ATGGAT
1 ATGGAT
3889326 TCATAACCTA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 126 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (128 bp):
ATGGATGCTCAACTTAGTCTTCTAAGTTCAATGTACTCAAACGAAGCTATGAAAAGACTCATAGC
ACAAACTTTTATATATCCTTAAGGCAAACAATATACATGCATAAGGTTGAGCTTTTGCTCTTA
Found at i:3890409 original size:74 final size:75
Alignment explanation
Indices: 3890324--3890469 Score: 174
Period size: 74 Copynumber: 2.0 Consensus size: 75
3890314 TTATTACTAT
* * *
3890324 CAAATGTATGATTTTATATTAAGAGCA-AA-TTTATAAAATTTT-AA-GGTAAGATGCATTTATA
1 CAAATGCATGATTATATATTAAGAG-AGAATTTTAT-AAATTTTGAAGGGGAAG-TGCATTTATA
3890385 AAATTTTAGGGGA
63 AAATTTTAGGGGA
* * * *
3890398 CAAATGCATGATTATATGTTAAGAGAGAGTTTTATAAATTTTGAAGGGGATGTGTATTTATAAAA
1 CAAATGCATGATTATATATTAAGAGAGAATTTTATAAATTTTGAAGGGGAAGTGCATTTATAAAA
3890463 TTTTAGG
66 TTTTAGG
3890470 ATATTAAAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
73 1 0.02
74 30 0.49
75 26 0.43
76 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.38
Consensus pattern (75 bp):
CAAATGCATGATTATATATTAAGAGAGAATTTTATAAATTTTGAAGGGGAAGTGCATTTATAAAA
TTTTAGGGGA
Found at i:3892863 original size:16 final size:16
Alignment explanation
Indices: 3892842--3892874 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3892832 TAATAAATAA
3892842 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
3892858 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
3892874 A
1 A
3892875 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:3892961 original size:16 final size:16
Alignment explanation
Indices: 3892940--3892998 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
3892930 CATTTAATAA
3892940 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
3892956 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
3892972 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
*
3892988 ATAAACAAACA
1 ATAAACGAACA
3892999 AAACGTTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.59, C:0.22, G:0.10, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:3893313 original size:23 final size:23
Alignment explanation
Indices: 3893283--3893330 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
3893273 AAACCACCAT
3893283 TCAAAATTTTAACGTACCTAAAG
1 TCAAAATTTTAACGTACCTAAAG
3893306 TCAAAATTTTAACGTACCTAAAG
1 TCAAAATTTTAACGTACCTAAAG
3893329 TC
1 TC
3893331 TACTCCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (23 bp):
TCAAAATTTTAACGTACCTAAAG
Found at i:3903975 original size:32 final size:32
Alignment explanation
Indices: 3903934--3903994 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
3903924 AATTTCTAAA
3903934 AAAAATGATGTATTTGGTAAGCTATTATTTTT
1 AAAAATGATGTATTTGGTAAGCTATTATTTTT
* *
3903966 AAAAGTGATGTATTTGGTAAGGTATTATT
1 AAAAATGATGTATTTGGTAAGCTATTATT
3903995 ATTATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (32 bp):
AAAAATGATGTATTTGGTAAGCTATTATTTTT
Found at i:3904837 original size:22 final size:22
Alignment explanation
Indices: 3904812--3904862 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
3904802 ACGTGAGAAT
*
3904812 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
3904834 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
3904856 CACGGGT
1 CACGGGT
3904863 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:3904905 original size:23 final size:23
Alignment explanation
Indices: 3904879--3904922 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
3904869 TCCTGCAAGG
3904879 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGTC
3904902 CTGCACGTCTGCATGTGGGGG
1 CTGCACGTCTGCATGTGGGGG
3904923 GCATGCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.25, G:0.41, T:0.25
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGTC
Found at i:3904929 original size:23 final size:23
Alignment explanation
Indices: 3904880--3904929 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
3904870 CCTGCAAGGC
* *
3904880 TGCACGTCTGCATGTGGGGGTCC
1 TGCACGTCTGCATGTGGGGGGCA
3904903 TGCACGTCTGCATGTGGGGGGCA
1 TGCACGTCTGCATGTGGGGGGCA
3904926 TGCA
1 TGCA
3904930 ACTGTTGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.40, T:0.24
Consensus pattern (23 bp):
TGCACGTCTGCATGTGGGGGGCA
Found at i:3905662 original size:172 final size:173
Alignment explanation
Indices: 3905375--3905733 Score: 551
Period size: 172 Copynumber: 2.1 Consensus size: 173
3905365 TTGTAAAGTT
* * * * *
3905375 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTTCTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
3905440 ACTACGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTACGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
3905503 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * * *
3905547 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAAGAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
* * *
3905612 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTACGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
3905677 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
3905720 TTAGGGATCATTTT
1 TTAGGGATCATTTT
3905734 ATATTTGATG
Statistics
Matches: 168, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
172 107 0.64
173 60 0.36
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTACGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:3908004 original size:8 final size:8
Alignment explanation
Indices: 3907991--3908560 Score: 464
Period size: 8 Copynumber: 74.8 Consensus size: 8
3907981 AGTAATTATT
3907991 ATTAAATC
1 ATTAAATC
3907999 ATTAAA--
1 ATTAAATC
3908005 ATTAAATC
1 ATTAAATC
3908013 ATTAAA--
1 ATTAAATC
* *
3908019 ATTAAGTA
1 ATTAAATC
*
3908027 ATT--ATT
1 ATTAAATC
*
3908033 ATTAAATT
1 ATTAAATC
3908041 ATTAAA--
1 ATTAAATC
3908047 ATTAAATC
1 ATTAAATC
*
3908055 ATTAAAGTA
1 ATTAAA-TC
*
3908064 ATT--ATT
1 ATTAAATC
3908070 ATTAAATC
1 ATTAAATC
3908078 ATTAAATC
1 ATTAAATC
3908086 ATTAAATC
1 ATTAAATC
3908094 ATTAAATC
1 ATTAAATC
3908102 ATTAAATC
1 ATTAAATC
*
3908110 ATTAAAATA
1 ATT-AAATC
*
3908119 ATT--ATT
1 ATTAAATC
3908125 ATTAAATC
1 ATTAAATC
3908133 ATTAAATC
1 ATTAAATC
3908141 ATTAAATC
1 ATTAAATC
*
3908149 ATTAAAGTA
1 ATTAAA-TC
*
3908158 ATT--ATT
1 ATTAAATC
3908164 ATTAAATC
1 ATTAAATC
3908172 ATTAAA--
1 ATTAAATC
*
3908178 GTTAAATC
1 ATTAAATC
*
3908186 ATTAAAGTA
1 ATTAAA-TC
*
3908195 ATT--ATT
1 ATTAAATC
3908201 ATTAAATC
1 ATTAAATC
3908209 ATTAAATC
1 ATTAAATC
3908217 ATTAAATC
1 ATTAAATC
3908225 ATTAAATC
1 ATTAAATC
3908233 ATTAAATC
1 ATTAAATC
*
3908241 ATTAAAGTA
1 ATTAAA-TC
*
3908250 ATT--ATT
1 ATTAAATC
3908256 ATTAAATC
1 ATTAAATC
3908264 ATTAAATC
1 ATTAAATC
3908272 ATTAAATC
1 ATTAAATC
*
3908280 ATTAAAGTA
1 ATTAAA-TC
*
3908289 ATT--ATT
1 ATTAAATC
3908295 ATTAAATC
1 ATTAAATC
3908303 ATTAAATC
1 ATTAAATC
3908311 ATTAAATC
1 ATTAAATC
3908319 ATTAAATC
1 ATTAAATC
*
3908327 ATTAAAATA
1 ATT-AAATC
*
3908336 ATT--ATT
1 ATTAAATC
3908342 ATTAAATC
1 ATTAAATC
3908350 ATTAAATC
1 ATTAAATC
3908358 ATTAAAGT-
1 ATTAAA-TC
* *
3908366 ATT-TATT
1 ATTAAATC
3908373 ATTAAATC
1 ATTAAATC
3908381 ATTAAA--
1 ATTAAATC
*
3908387 GTTAAATC
1 ATTAAATC
3908395 ATTAAAGT-
1 ATTAAA-TC
* *
3908403 ATT-TATT
1 ATTAAATC
*
3908410 ATTAAATT
1 ATTAAATC
3908418 ATTAAA--
1 ATTAAATC
3908424 ATTAAATC
1 ATTAAATC
*
3908432 ATTAAAGTA
1 ATTAAA-TC
*
3908441 ATT--ATT
1 ATTAAATC
3908447 ATTAAATC
1 ATTAAATC
3908455 ATTAAATC
1 ATTAAATC
3908463 ATTAAATC
1 ATTAAATC
3908471 ATTAAATC
1 ATTAAATC
*
3908479 ATTAAAATA
1 ATT-AAATC
*
3908488 ATT--ATT
1 ATTAAATC
3908494 ATTAAATC
1 ATTAAATC
3908502 ATTAAATC
1 ATTAAATC
3908510 ATTAAATC
1 ATTAAATC
*
3908518 ATTAAAGTA
1 ATTAAA-TC
*
3908527 ATT--ATT
1 ATTAAATC
3908533 ATTAAATC
1 ATTAAATC
3908541 ATTAAA--
1 ATTAAATC
*
3908547 GTTAAATC
1 ATTAAATC
3908555 ATTAAA
1 ATTAAA
3908561 GTAATTATTA
Statistics
Matches: 466, Mismatches: 44, Indels: 104
0.76 0.07 0.17
Matches are distributed among these distances:
6 87 0.19
7 15 0.03
8 313 0.67
9 51 0.11
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (8 bp):
ATTAAATC
Found at i:3908129 original size:39 final size:39
Alignment explanation
Indices: 3908086--3908580 Score: 506
Period size: 39 Copynumber: 12.3 Consensus size: 39
3908076 TCATTAAATC
3908086 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
*
3908125 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
* *
3908164 ATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
*
3908201 ATTAAATCATTAAATCATTAAATCATTAAATCATTAAATCATT
1 ATTAAATCATTAAATCATTAAATCATTAAA--A-T-AATTATT
* *
3908244 AAAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 --ATTAA--ATCATTAAATCATTAAATCA-T---T-A--AAA-TAATTATT
* *
3908295 ATTAAATCATTAAATCATTAAATCATT-AAATCATTA-A
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
* * * *
3908332 AATAATTATTATTAAATCATTAAATCATTAAAGTATTTATT
1 ATTAA--ATCATTAAATCATTAAATCATTAAAATAATTATT
* * *
3908373 ATTAAATCATTAAA--GTTAAATCATTAAAGTATTTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
* *
3908410 ATTAAATTATTAAA--ATTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATT-AA--AA-TA--ATT--ATT
3908455 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
*
3908494 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
* *
3908533 ATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
3908570 ATTAAATCATT
1 ATTAAATCATT
3908581 GGATTTTGTT
Statistics
Matches: 394, Mismatches: 31, Indels: 64
0.81 0.06 0.13
Matches are distributed among these distances:
37 118 0.30
38 7 0.02
39 151 0.38
40 7 0.02
41 9 0.02
42 1 0.00
43 11 0.03
44 2 0.01
45 19 0.05
46 3 0.01
47 49 0.12
48 1 0.00
49 4 0.01
51 7 0.02
52 3 0.01
54 2 0.01
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (39 bp):
ATTAAATCATTAAATCATTAAATCATTAAAATAATTATT
Found at i:3908129 original size:47 final size:47
Alignment explanation
Indices: 3907991--3908560 Score: 484
Period size: 47 Copynumber: 12.5 Consensus size: 47
3907981 AGTAATTATT
* *
3907991 ATTAAATCATTAAA--ATTAAATCATTAAAATTAAGTA--ATT--ATT
1 ATTAAATCATTAAATCATTAAATCATTAAAA-TAATTATTATTAAATC
* *
3908033 ATTAAATTATTAAA--ATTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
* * * *
3908078 ATTAAATCATTAAATCATTAAATCATT-AAATCATTA-AAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAA--ATC
*
3908125 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
* *
3908172 ATT--A------AA--GTTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
* * * *
3908209 ATTAAATCATTAAATCATTAAATCATT-AAATCATTA-AAGTAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAA--ATC
*
3908256 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
3908303 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
* * * *
3908350 ATTAAATCATTAAAGT-ATT-TATTATT-AAATCATTA-AAGTTAAATC
1 ATTAAATCATTAAA-TCATTAAATCATTAAAATAATTATTA-TTAAATC
* * * * * *
3908395 ATTAAAGT-ATT-TATTATTAAATTATTAAAATTAAATCATTAAAGTAATTATT
1 ATTAAA-TCATTAAATCATTAAATCATTAAAA-T-AATTATT--ATTAA--ATC
* * * *
3908447 ATTAAATCATTAAATCATTAAATCATT-AAATCATTA-AAATAATTATT
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAA--ATC
*
3908494 ATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTATTAAATC
1 ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
*
3908541 ATTAAA--GTTAAATCATTAAA
1 ATTAAATCATTAAATCATTAAA
3908561 GTAATTATTA
Statistics
Matches: 435, Mismatches: 52, Indels: 79
0.77 0.09 0.14
Matches are distributed among these distances:
37 33 0.08
39 3 0.01
41 5 0.01
42 27 0.06
43 4 0.01
44 5 0.01
45 69 0.16
46 23 0.05
47 194 0.45
48 25 0.06
49 12 0.03
50 6 0.01
51 3 0.01
52 14 0.03
53 12 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (47 bp):
ATTAAATCATTAAATCATTAAATCATTAAAATAATTATTATTAAATC
Found at i:3910319 original size:18 final size:18
Alignment explanation
Indices: 3910296--3910344 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
3910286 GTAAATTATT
3910296 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
* *
3910314 AATCTCACGTTTAAGACG
1 AATCTCACGCTTCAGACG
3910332 AATCTCACGCTTC
1 AATCTCACGCTTC
3910345 GGACACAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (18 bp):
AATCTCACGCTTCAGACG
Found at i:3911670 original size:21 final size:21
Alignment explanation
Indices: 3911634--3911688 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
3911624 TTATAAATAA
* *
3911634 ATATTATTTTATAATCATAGT
1 ATATTATTTAAAAATCATAGT
* *
3911655 ATATTATTTAAAAATCTTTGT
1 ATATTATTTAAAAATCATAGT
*
3911676 ATA-TATATAAAAA
1 ATATTATTTAAAAA
3911689 GAGAAGATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
ATATTATTTAAAAATCATAGT
Found at i:3912492 original size:17 final size:18
Alignment explanation
Indices: 3912460--3912493 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3912450 TTTAATATCA
3912460 AATAATTGAAAATTTTTG
1 AATAATTGAAAATTTTTG
*
3912478 AATAATT-ATAATTTTT
1 AATAATTGAAAATTTTT
3912494 ATATTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
AATAATTGAAAATTTTTG
Found at i:3918313 original size:14 final size:14
Alignment explanation
Indices: 3918291--3918346 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
3918281 GACCGGTCTG
*
3918291 GACCGGTCTGACCC
1 GACCCGTCTGACCC
3918305 GACCCGTCTGACCC
1 GACCCGTCTGACCC
3918319 GA-CC--C-GACCC
1 GACCCGTCTGACCC
3918329 GA-CCGT-TGACCC
1 GACCCGTCTGACCC
3918341 GACCCG
1 GACCCG
3918347 ACCGTTGACC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 7 0.19
13 5 0.14
14 15 0.41
ACGTcount: A:0.16, C:0.48, G:0.25, T:0.11
Consensus pattern (14 bp):
GACCCGTCTGACCC
Found at i:3918341 original size:17 final size:17
Alignment explanation
Indices: 3918319--3918356 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3918309 CGTCTGACCC
3918319 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
3918336 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
3918353 GACC
1 GACC
3918357 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:3918356 original size:7 final size:7
Alignment explanation
Indices: 3918346--3918387 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
3918336 GACCCGACCC
3918346 GACCGTT
1 GACCGTT
3918353 GACCGTT
1 GACCGTT
3918360 GACCGTT
1 GACCGTT
3918367 GACCGTT
1 GACCGTT
*
3918374 GTCCGTT
1 GACCGTT
3918381 GACCGTT
1 GACCGTT
3918388 TACTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.12, C:0.29, G:0.29, T:0.31
Consensus pattern (7 bp):
GACCGTT
Found at i:3925510 original size:9 final size:9
Alignment explanation
Indices: 3925478--3925556 Score: 86
Period size: 9 Copynumber: 8.3 Consensus size: 9
3925468 CTGCTGGAAA
3925478 ACCGGTTTG
1 ACCGGTTTG
*
3925487 ACCAGTTTTG
1 ACC-GGTTTG
3925497 AACCGGTTTG
1 -ACCGGTTTG
*
3925507 ACCGGTCTGG
1 ACCGGT-TTG
3925517 ACCGGTTTG
1 ACCGGTTTG
*
3925526 ACCGGTCTGG
1 ACCGGT-TTG
3925536 ACCGGTTTG
1 ACCGGTTTG
*
3925545 ACCGGTCTG
1 ACCGGTTTG
3925554 ACC
1 ACC
3925557 CGACCCGTCT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 30 0.51
10 26 0.44
11 3 0.05
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:3925522 original size:19 final size:19
Alignment explanation
Indices: 3925478--3925553 Score: 116
Period size: 19 Copynumber: 3.9 Consensus size: 19
3925468 CTGCTGGAAA
* * *
3925478 ACCGGTTTGACCAGTTTTGA
1 ACCGGTTTGACC-GGTCTGG
3925498 ACCGGTTTGACCGGTCTGG
1 ACCGGTTTGACCGGTCTGG
3925517 ACCGGTTTGACCGGTCTGG
1 ACCGGTTTGACCGGTCTGG
3925536 ACCGGTTTGACCGGTCTG
1 ACCGGTTTGACCGGTCTG
3925554 ACCCGACCCG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 41 0.77
20 12 0.23
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTGG
Found at i:3925566 original size:14 final size:14
Alignment explanation
Indices: 3925544--3925599 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
3925534 GGACCGGTTT
*
3925544 GACCGGTCTGACCC
1 GACCCGTCTGACCC
3925558 GACCCGTCTGACCC
1 GACCCGTCTGACCC
3925572 GA-CC--C-GACCC
1 GACCCGTCTGACCC
3925582 GA-CCGT-TGACCC
1 GACCCGTCTGACCC
3925594 GACCCG
1 GACCCG
3925600 ACCGTTGACC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
12 7 0.19
13 5 0.14
14 15 0.41
ACGTcount: A:0.16, C:0.48, G:0.25, T:0.11
Consensus pattern (14 bp):
GACCCGTCTGACCC
Found at i:3925594 original size:17 final size:17
Alignment explanation
Indices: 3925572--3925609 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
3925562 CGTCTGACCC
3925572 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
3925589 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
3925606 GACC
1 GACC
3925610 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:3925609 original size:7 final size:7
Alignment explanation
Indices: 3925599--3925640 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
3925589 GACCCGACCC
3925599 GACCGTT
1 GACCGTT
3925606 GACCGTT
1 GACCGTT
3925613 GACCGTT
1 GACCGTT
*
3925620 GTCCGTT
1 GACCGTT
*
3925627 GTCCGTT
1 GACCGTT
3925634 GACCGTT
1 GACCGTT
3925641 TACTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.10, C:0.29, G:0.29, T:0.33
Consensus pattern (7 bp):
GACCGTT
Found at i:3928616 original size:19 final size:20
Alignment explanation
Indices: 3928586--3928623 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3928576 AAACATTCCC
3928586 CTCTTATTCTTCATCATTTT
1 CTCTTATTCTTCATCATTTT
*
3928606 CTCTT-TTCTTCTTCATTT
1 CTCTTATTCTTCATCATTT
3928624 CTTAATTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (20 bp):
CTCTTATTCTTCATCATTTT
Found at i:3930067 original size:45 final size:45
Alignment explanation
Indices: 3930018--3930105 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
3930008 AAAATAGCCA
*
3930018 GAGTGCATCGATGCATAGCT-TGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCAT-GCTATGTGCATCGATGCATAAAATGCACT
*
3930063 GAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
1 GAGTGCATCGATGCATGCTATGTGCATCGATGCATAAAATGCA
3930106 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (45 bp):
GAGTGCATCGATGCATGCTATGTGCATCGATGCATAAAATGCACT
Found at i:3936265 original size:15 final size:15
Alignment explanation
Indices: 3936245--3936280 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3936235 CAAAACAGAT
*
3936245 AGTAGAACATATAGC
1 AGTAGAACATATACC
*
3936260 AGTAGAACTTATACC
1 AGTAGAACATATACC
3936275 AGTAGA
1 AGTAGA
3936281 CTTGATAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (15 bp):
AGTAGAACATATACC
Found at i:3938323 original size:12 final size:12
Alignment explanation
Indices: 3938306--3938350 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
3938296 ATGGGAATAA
3938306 TATATTATTAAT
1 TATATTATTAAT
*
3938318 TATATTATTTAT
1 TATATTATTAAT
3938330 T-TATTATTAAT
1 TATATTATTAAT
*
3938341 AATATTATTA
1 TATATTATTA
3938351 TTAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTAAT
Found at i:3938395 original size:19 final size:19
Alignment explanation
Indices: 3938358--3938416 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
3938348 TTATTAAAAT
3938358 AATAAA-AATTATAATATTAA
1 AATAAAGAA-TAT-ATATTAA
*
3938378 AAT-AAGAATATTATATTAT
1 AATAAAGAATA-TATATTAA
*
3938397 AATAAAGAGTATATATTAA
1 AATAAAGAATATATATTAA
3938416 A
1 A
3938417 TATTCAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AATAAAGAATATATATTAA
Found at i:3939416 original size:2 final size:2
Alignment explanation
Indices: 3939404--3939479 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
3939394 AGATTCCCCT
3939404 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3939445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3939480 TAAGCCTAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3947122 original size:19 final size:20
Alignment explanation
Indices: 3947082--3947124 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3947072 GTAACTTACA
3947082 GTTTTTTGCCATTGTTTATC
1 GTTTTTTGCCATTGTTTATC
**
3947102 GTTTTTTGCTGTTGTTT-TC
1 GTTTTTTGCCATTGTTTATC
3947121 GTTT
1 GTTT
3947125 ATCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.05, C:0.12, G:0.19, T:0.65
Consensus pattern (20 bp):
GTTTTTTGCCATTGTTTATC
Found at i:3947641 original size:16 final size:16
Alignment explanation
Indices: 3947617--3947647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3947607 TAATATTGAA
3947617 ACTTCAACTCAAAAAG
1 ACTTCAACTCAAAAAG
*
3947633 ACTTGAACTCAAAAA
1 ACTTCAACTCAAAAA
3947648 AAATTAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
ACTTCAACTCAAAAAG
Found at i:3947719 original size:14 final size:14
Alignment explanation
Indices: 3947700--3947727 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3947690 AAGTGAAAGA
3947700 ATAGTTATATAATT
1 ATAGTTATATAATT
3947714 ATAGTTATATAATT
1 ATAGTTATATAATT
3947728 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:3952209 original size:80 final size:80
Alignment explanation
Indices: 3952076--3952235 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
3952066 CCATCAGACA
3952076 TGTTTCATGCAATGAATTGGCAGGGCTGATCCAATTGACACTAGGAAAGGTACATTTCATTGATA
1 TGTTTCATGCAATGAATTGGCAGGGCTGATCCAATTGACACTAGGAAAGGTACATTTCATTGATA
3952141 AAATTTACATAGTGT
66 AAATTTACATAGTGT
3952156 TGTTTCATGCAATGAATTGGCAGGGCTGATCCAATTGACACTAGGAAAGGTACATTTCATTGATA
1 TGTTTCATGCAATGAATTGGCAGGGCTGATCCAATTGACACTAGGAAAGGTACATTTCATTGATA
*
3952221 AAATTTACTTAGTGT
66 AAATTTACATAGTGT
3952236 GAAACATACC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (80 bp):
TGTTTCATGCAATGAATTGGCAGGGCTGATCCAATTGACACTAGGAAAGGTACATTTCATTGATA
AAATTTACATAGTGT
Found at i:3965840 original size:13 final size:13
Alignment explanation
Indices: 3965822--3965849 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3965812 AAACACACTA
3965822 ATCTTACATTCTT
1 ATCTTACATTCTT
3965835 ATCTTACATTCTT
1 ATCTTACATTCTT
3965848 AT
1 AT
3965850 TAAACCAACC
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:0.25, C:0.21, G:0.00, T:0.54
Consensus pattern (13 bp):
ATCTTACATTCTT
Found at i:3967122 original size:25 final size:26
Alignment explanation
Indices: 3967080--3967131 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3967070 GTTAATATAA
*
3967080 AAAATATTGTAAAGTTAA-TATTTAT
1 AAAATATTATAAAGTTAAGTATTTAT
* *
3967105 AAAATATTATGAATTTAAGTATTTAT
1 AAAATATTATAAAGTTAAGTATTTAT
3967131 A
1 A
3967132 CACTAAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
AAAATATTATAAAGTTAAGTATTTAT
Found at i:3967127 original size:26 final size:25
Alignment explanation
Indices: 3967068--3967131 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
3967058 ACAATTTAAT
* *
3967068 AAGTTAATA--TAAAAAATATTGTA
1 AAGTTAATATTTATAAAATATTATA
*
3967091 AAGTTAATATTTATAAAATATTATG
1 AAGTTAATATTTATAAAATATTATA
*
3967116 AATTTAAGTATTTATA
1 AAGTTAA-TATTTATA
3967132 CACTAAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.26
25 17 0.50
26 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (25 bp):
AAGTTAATATTTATAAAATATTATA
Found at i:3968269 original size:31 final size:31
Alignment explanation
Indices: 3968226--3968298 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
3968216 AAAAAAATTA
* * *
3968226 TTATTCGTGTTCATTCGTTAATGAATGTAGT
1 TTATCCGTGTTCATTCGTTAATAAACGTAGT
*
3968257 TTGTCCGTGTTCATTCGTTAATAAACGTAGT
1 TTATCCGTGTTCATTCGTTAATAAACGTAGT
*
3968288 TTATTCGTGTT
1 TTATCCGTGTT
3968299 TGTTCATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (31 bp):
TTATCCGTGTTCATTCGTTAATAAACGTAGT
Found at i:3968383 original size:23 final size:23
Alignment explanation
Indices: 3968314--3968394 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 23
3968304 ATTTAAATAA
* *
3968314 TAAACAAACACAAATGAATTAACG
1 TAAACAAACAC-AATAAATGAACG
3968338 TAAA-AGAACACAATAAAATGAACG
1 TAAACA-AACACAAT-AAATGAACG
*
3968362 TAAACAAACACAATAAATGAACA
1 TAAACAAACACAATAAATGAACG
3968385 TAAACAAACA
1 TAAACAAACA
3968395 AACAAACAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 22 0.43
24 28 0.55
25 1 0.02
ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14
Consensus pattern (23 bp):
TAAACAAACACAATAAATGAACG
Found at i:3968409 original size:22 final size:23
Alignment explanation
Indices: 3968362--3968410 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
3968352 AAAATGAACG
* **
3968362 TAAACAAACACAATAAATGAACA
1 TAAACAAACACAACAAACAAACA
3968385 TAAACAAACA-AACAAACAAACA
1 TAAACAAACACAACAAACAAACA
3968407 TAAA
1 TAAA
3968411 TTATAAAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.69, C:0.18, G:0.02, T:0.10
Consensus pattern (23 bp):
TAAACAAACACAACAAACAAACA
Found at i:3968989 original size:22 final size:22
Alignment explanation
Indices: 3968946--3968990 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3968936 CGAATCTAGC
*
3968946 AAATTTTTAAATACTTTCTATA
1 AAATTTTTAAATACTTTATATA
*
3968968 AAATTTTTATAA-ATTTTATATA
1 AAATTTTTA-AATACTTTATATA
3968990 A
1 A
3968991 GTTTACTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTTTTAAATACTTTATATA
Found at i:3970111 original size:14 final size:14
Alignment explanation
Indices: 3970088--3970145 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
3970078 TTGGGTAAAA
*
3970088 ATAAATGAACGAAC
1 ATAAACGAACGAAC
*
3970102 ATAAACGAACGAAA
1 ATAAACGAACGAAC
*
3970116 AT-AA--AA-TAAC
1 ATAAACGAACGAAC
3970126 ATAAACGAACGAAC
1 ATAAACGAACGAAC
3970140 ATAAAC
1 ATAAAC
3970146 AAACACACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.11
11 4 0.11
13 4 0.11
14 23 0.66
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (14 bp):
ATAAACGAACGAAC
Found at i:3970150 original size:24 final size:24
Alignment explanation
Indices: 3970099--3970144 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
3970089 TAAATGAACG
3970099 AACATAAACGAACGAAAATAAAAT
1 AACATAAACGAACGAAAATAAAAT
*
3970123 AACATAAACGAACGAACATAAA
1 AACATAAACGAACGAAAATAAA
3970145 CAAACACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.11
Consensus pattern (24 bp):
AACATAAACGAACGAAAATAAAAT
Found at i:3975876 original size:22 final size:22
Alignment explanation
Indices: 3975842--3975885 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3975832 CCTTTTAGTG
*
3975842 ATACTAAAACTCTGCCCGTTTT
1 ATACTAAAACTCTACCCGTTTT
* *
3975864 ATACTGAACCTCTACCCGTTTT
1 ATACTAAAACTCTACCCGTTTT
3975886 TCTTCGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (22 bp):
ATACTAAAACTCTACCCGTTTT
Found at i:3976473 original size:21 final size:22
Alignment explanation
Indices: 3976445--3976502 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
3976435 ACAGTCATAC
*
3976445 CAAGGACGAGAAGACTATTCAT
1 CAAGGACGAGAAGACAATTCAT
*
3976467 CAA-GACGAGAAGACAATTCGT
1 CAAGGACGAGAAGACAATTCAT
3976488 CAAGGACGAGAAGAC
1 CAAGGACGAGAAGAC
3976503 CCTTCATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (22 bp):
CAAGGACGAGAAGACAATTCAT
Found at i:3980937 original size:11 final size:10
Alignment explanation
Indices: 3980921--3980978 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 10
3980911 TCATAAAGAG
3980921 AAAGAAGAAAA
1 AAAGAA-AAAA
3980932 AAAGAAAAAA
1 AAAGAAAAAA
3980942 AATAGAAAAAA
1 AA-AGAAAAAA
*
3980953 TATAGAAGAAAA
1 -AAAGAA-AAAA
3980965 AAGAGAAAAGAA
1 AA-AGAAAA-AA
3980977 AA
1 AA
3980979 TTGAAATGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 6 0.15
11 21 0.52
12 13 0.32
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (10 bp):
AAAGAAAAAA
Done.