Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 46 of 77
Found at i:8891935 original size:25 final size:26
Alignment explanation
Indices: 8891907--8891967 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
8891897 AATGCATAGG
8891907 ATGATATG-ATAATGCATAGAATGAA
1 ATGATATGAATAATGCATAGAATGAA
*
8891932 ATGATATGGAAATGATGCATAGAATGAA
1 ATGATAT-G-AATAATGCATAGAATGAA
8891960 ATGATATG
1 ATGATATG
8891968 GAAGTGATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.22
26 1 0.03
27 1 0.03
28 23 0.72
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (26 bp):
ATGATATGAATAATGCATAGAATGAA
Found at i:8891957 original size:28 final size:28
Alignment explanation
Indices: 8891918--8891978 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
8891908 TGATATGATA
8891918 ATGCATAGAATGAAATGATATGGAAATG
1 ATGCATAGAATGAAATGATATGGAAATG
*
8891946 ATGCATAGAATGAAATGATATGGAAGTG
1 ATGCATAGAATGAAATGATATGGAAATG
8891974 ATGCA
1 ATGCA
8891979 GATGCATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (28 bp):
ATGCATAGAATGAAATGATATGGAAATG
Found at i:8891962 original size:17 final size:17
Alignment explanation
Indices: 8891918--8891964 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
8891908 TGATATGATA
8891918 ATGCATAGAATGAAATG
1 ATGCATAGAATGAAATG
8891935 AT--AT-G---GAAATG
1 ATGCATAGAATGAAATG
8891946 ATGCATAGAATGAAATG
1 ATGCATAGAATGAAATG
8891963 AT
1 AT
8891965 ATGGAAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 12
0.67 0.00 0.33
Matches are distributed among these distances:
11 8 0.33
13 2 0.08
14 2 0.08
15 2 0.08
17 10 0.42
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (17 bp):
ATGCATAGAATGAAATG
Found at i:8893155 original size:52 final size:53
Alignment explanation
Indices: 8892998--8893179 Score: 183
Period size: 53 Copynumber: 3.5 Consensus size: 53
8892988 CTAATTATTC
* * *
8892998 CACAATTTGGGTCAAATTAGAAATATTTTCTCTTTTTTAATTTCTAAA-TTTT
1 CACAATTTGGGCCAATTTAGAAATATTTTCTATTTTTTAATTTCTAAATTTTT
* * * *
8893050 CTACCATTTGGG-CATATTCAGAAAT-TCTTTTTATTTTTTTATTTCTAAATTTTT
1 C-ACAATTTGGGCCA-ATTTAGAAATAT-TTTCTATTTTTTAATTTCTAAATTTTT
***
8893104 CACAATTTGGGCCAATTTAGAAATATTTTCT-TTTCAAAATTTCTAAATTTTT
1 CACAATTTGGGCCAATTTAGAAATATTTTCTATTTTTTAATTTCTAAATTTTT
* * * *
8893156 TACCATTTGAGCCTATTTAGAAAT
1 CACAATTTGGGCCAATTTAGAAAT
8893180 TCTTTTTTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
52 41 0.38
53 58 0.54
54 8 0.07
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (53 bp):
CACAATTTGGGCCAATTTAGAAATATTTTCTATTTTTTAATTTCTAAATTTTT
Found at i:8893181 original size:105 final size:105
Alignment explanation
Indices: 8892998--8893193 Score: 295
Period size: 105 Copynumber: 1.9 Consensus size: 105
8892988 CTAATTATTC
* *** *
8892998 CACAATTTGGGTCAAATTAGAAATATTTTCTCTTTTTTAATTTCTAAATTTTCTACCATTTGGGC
1 CACAATTTGGGCCAAATTAGAAATATTTTCTCTTTCAAAATTTCTAAATTTTCTACCATTTGAGC
8893063 ATATTCAGAAATTCTTTTTATTTTTTTATTTCTAAATTTTT
66 ATATTCAGAAATTCTTTTT-TTTTTTTATTTCTAAATTTTT
* *
8893104 CACAATTTGGGCCAATTTAGAAATATTTTCT-TTTCAAAATTTCTAAATTTTTTACCATTTGAGC
1 CACAATTTGGGCCAAATTAGAAATATTTTCTCTTTCAAAATTTCTAAATTTTCTACCATTTGAGC
* *
8893168 CTATTTAGAAATTCTTTTTTTTTTTT
66 ATATTCAGAAATTCTTTTTTTTTTTT
8893194 GTTTTTGGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 7 0.09
105 45 0.56
106 29 0.36
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.52
Consensus pattern (105 bp):
CACAATTTGGGCCAAATTAGAAATATTTTCTCTTTCAAAATTTCTAAATTTTCTACCATTTGAGC
ATATTCAGAAATTCTTTTTTTTTTTTATTTCTAAATTTTT
Found at i:8893708 original size:26 final size:25
Alignment explanation
Indices: 8893654--8893708 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
8893644 CTCACATAGG
*
8893654 AATTTTATAAAAATTTACCATTTGA
1 AATTTTATAAAAATTTACCATTAGA
* *
8893679 AATTTT-TATAAATTCTATCATTAGA
1 AATTTTATAAAAATT-TACCATTAGA
8893704 TAATT
1 -AATT
8893709 AATATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 14 0.56
26 4 0.16
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTACCATTAGA
Found at i:8893729 original size:186 final size:189
Alignment explanation
Indices: 8893393--8893749 Score: 460
Period size: 187 Copynumber: 1.9 Consensus size: 189
8893383 AAAATAATAC
* * *
8893393 AATTACTTTTATTAAAATTTTATATAAATTATTCCACAATTTGTGTCAAATTTAGAAGAAATTTC
1 AATTACTTTTATTAAAACTTTATATAAATTATTCCACAATTTGGGACAAATTTAGAAGAAATTTC
* * * * * *
8893458 TCACCTAAAGATTTCTTAAAAAATTTATCATTTGAAATTTTAACAAATCTCATCCTTGGGTAATT
66 TCACATAAAGAATTCTTAAAAAATTTACCATTTGAAATTTTAACAAATCTCATCATTAGATAATT
**
8893523 TGCATTTAATTCCAAAATTTTTA-TATTTTTTA-TTTTTTTGGATTGAAAATAAATATT
131 AACATTTAATTCCAAAATTTTTATTATTTTTTACTTTTTTTGGATTGAAAATAAATATT
* *
8893580 AATTA-TTGTTATTGAAACTTTATCTAAATTATTCCACAATTTGGGACAAATTTAGATAG-AATT
1 AATTACTT-TTATTAAAACTTTATATAAATTATTCCACAATTTGGGACAAATTTAGA-AGAAATT
* * *
8893643 TCTCACAT-AGGAATT-TTATAAAAATTTACCATTTGAAATTTTTATAAAT-TCTATCATTAGAT
64 TCTCACATAAAGAATTCTTA-AAAAATTTACCATTTGAAATTTTAACAAATCTC-ATCATTAGAT
*
8893705 AATTAATATTT-ATTCCCAAAATTTTTATTATTTTTTACTTTTTTT
127 AATTAACATTTAATT-CCAAAATTTTTATTATTTTTTACTTTTTTT
8893750 ATTTTTTCAA
Statistics
Matches: 146, Mismatches: 17, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
185 8 0.05
186 61 0.42
187 68 0.47
188 9 0.06
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (189 bp):
AATTACTTTTATTAAAACTTTATATAAATTATTCCACAATTTGGGACAAATTTAGAAGAAATTTC
TCACATAAAGAATTCTTAAAAAATTTACCATTTGAAATTTTAACAAATCTCATCATTAGATAATT
AACATTTAATTCCAAAATTTTTATTATTTTTTACTTTTTTTGGATTGAAAATAAATATT
Found at i:8895683 original size:22 final size:23
Alignment explanation
Indices: 8895658--8895704 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8895648 TTATTTAATA
8895658 ATAGATACTTTCAATA-TA-AAAT
1 ATAGATA-TTTCAATAGTATAAAT
*
8895680 ATAGATATTTTAATAGTATAAAT
1 ATAGATATTTCAATAGTATAAAT
8895703 AT
1 AT
8895705 TTTAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 9 0.41
23 6 0.27
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (23 bp):
ATAGATATTTCAATAGTATAAAT
Found at i:8895704 original size:17 final size:16
Alignment explanation
Indices: 8895678--8895720 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
8895668 TCAATATAAA
*
8895678 ATATAGATATTTTAAT
1 ATATAAATATTTTAAT
8895694 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
8895711 A-ATAAATATT
1 ATATAAATATT
8895721 AATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:8895867 original size:13 final size:13
Alignment explanation
Indices: 8895827--8895869 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
8895817 AAGTATTTTT
*
8895827 ATATTAATATAAT
1 ATATTAATATAAA
* *
8895840 ATTTTAATATTAA
1 ATATTAATATAAA
*
8895853 ATATTATTATAAA
1 ATATTAATATAAA
8895866 ATAT
1 ATAT
8895870 AATTATTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTAATATAAA
Found at i:8896188 original size:22 final size:22
Alignment explanation
Indices: 8896171--8896212 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8896161 ATCATTTTTT
8896171 AGCCTTATCATTTCCATTTCCA
1 AGCCTTATCATTTCCATTTCCA
*
8896193 AGCTTTATCATTTCCATTTC
1 AGCCTTATCATTTCCATTTC
8896213 GACAACGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.29, G:0.05, T:0.45
Consensus pattern (22 bp):
AGCCTTATCATTTCCATTTCCA
Found at i:8898946 original size:17 final size:17
Alignment explanation
Indices: 8898924--8898963 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8898914 AAAATCTAAT
**
8898924 AAATTTTTCTAAGTATA
1 AAATTTTTAAAAGTATA
*
8898941 AAATTTTTAAAATTATA
1 AAATTTTTAAAAGTATA
8898958 AAATTT
1 AAATTT
8898964 GTATGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
AAATTTTTAAAAGTATA
Found at i:8899876 original size:22 final size:22
Alignment explanation
Indices: 8899850--8899896 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
8899840 TTAGAATACA
8899850 TTTACAAATTAGTTTTAGTATT
1 TTTACAAATTAGTTTTAGTATT
*
8899872 TTTACAAGTTAGTTTTAGTATT
1 TTTACAAATTAGTTTTAGTATT
8899894 TTT
1 TTT
8899897 GAGTGCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (22 bp):
TTTACAAATTAGTTTTAGTATT
Found at i:8909079 original size:15 final size:15
Alignment explanation
Indices: 8909067--8909099 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8909057 AAAATTTTCG
8909067 AAAATAAATTTTTAA
1 AAAATAAATTTTTAA
*
8909082 AAAATATA-TTTTAA
1 AAAATAAATTTTTAA
8909096 AAAA
1 AAAA
8909100 CTTGTGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATAAATTTTTAA
Found at i:8909965 original size:3 final size:3
Alignment explanation
Indices: 8909854--8909945 Score: 60
Period size: 3 Copynumber: 30.3 Consensus size: 3
8909844 GGACTTGAGG
* * * * * * * *
8909854 AGA AAA AGA AGGA AGA AGG AGA GGA AGA GGA GGA AGA TGA GGA GGA
1 AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
8909900 AGA TGA AGA AGA AGA AGA AGA AGG AGA AGA AG- GGAA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
8909945 A
1 A
8909946 AATGATGATG
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
2 1 0.01
3 64 0.93
4 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:8915414 original size:582 final size:572
Alignment explanation
Indices: 8914289--8915433 Score: 1467
Period size: 571 Copynumber: 2.0 Consensus size: 572
8914279 TGCTTTCTTT
* * ** * *
8914289 TGGTTGTTAAGTAATGCTCCTTCGGTAAATCTTGTAACTTGTATTTATAGAGAACGAAAGATAAT
1 TGGTTGGTAAGTAATGCTCCTTCGGTAAATCTTGAAACTCATATGTATAGAGAACGAAAGATAAG
*
8914354 CTTCAACCAAACAGGGGTTTAAGTATTAATCCTTTTGGTGAATAGTAGTGACTTGCATTATTCAA
66 CTTCAACCAAACAGGGGTTTAAGTATTAATCCTTTTGATGAATAGTAGTGACTTGCATTATTCAA
* * * * * *
8914419 ATGCGTTTTACAGATGTGTTTTTTTTTATATGAACAACTTGGTAGAGGTTTCTACTCTCGTCATT
131 ATGCATCTCACAGATGTGTTTTTTTTTATATGAACAACTTGGTAGACGTTACTACTCTCGTCATA
* * * * * *
8914484 TTGAAAGATACGTGGTTGGTAGACTTGATAATTCATTTATCTAAATTTTGTTTATTTTATGTTAA
196 ATGAAAGATACGTGGTTAGTAAACTTAATAATTCATGTATCTAAATTTTGTTTATTTTATATTAA
* * * * * * * *
8914549 ATACATATAAAGTATGAAAATTATTGTGTTAAAATTTGTCTATATATGAATATAAAACACTTTTT
261 ATACATATAAAATATAAAAATTATCGTGATAAAATTTATCAATACAAGAATATAAAACACTTTTT
* * *
8914614 TTTTTATTTTTGTTAAATTTATATATAATTTTTGTTAAAATTTTAAATTATGTCATTTTTTATTG
326 TTTTAATTTTTATTAAATTTATATATAATTTTTGTTAAAATTTTAAATTATGTAATTTTTTATTG
** * * * *
8914679 TTTTCTTTTTATGTCATTGTTTAAATTTATCAAGTTATCTCACCTTTGGGGCATCGATTAATAAT
391 TTTTCTCATCATGTCATTGTTTAAAATTATCAAGTTATCTCACCTTCGAGGCATCGATTAATAAT
8914744 GAATGTCCTTTTCATAAATATTCTAGCAATTAACTCCTAACTAACGAAAAGTTCCCATGTTAAAA
456 GAATGTCCTTTTCATAAATATTCTAGCAATTAACTCCTAACTAACGAAAAGTTCCCATGTTAAAA
8914809 TCCTTGGAGAAAACCATT-AAAAAACTCACTTGCCTTCTGATTAAAAATCCA
521 TCCTTGGAGAAAACCATTAAAAAAACTCACTTGCCTTCTGATTAAAAATCCA
* * * *
8914860 TGGTTGGTAAGTAATGCTCCTTTGGTAACTCTTGAAACTCATATGTATAGAGAATGAAAGCTAAG
1 TGGTTGGTAAGTAATGCTCCTTCGGTAAATCTTGAAACTCATATGTATAGAGAACGAAAGATAAG
* * * *
8914925 CTTCAACCAAACAGGGGTTTAGGTATTAATCCTTTTGATGAATGGTAGT-ACCTTGTATTATTTA
66 CTTCAACCAAACAGGGGTTTAAGTATTAATCCTTTTGATGAATAGTAGTGA-CTTGCATTATTCA
* * * *
8914989 AATGCATCTCCCAGTTGTGTTTTTTCCTTACCTGATATGGACAACTTGGTAGACGTTACTAGTCT
130 AATGCATCTCACAGATGTGTTTTTT--TT---T-ATATGAACAACTTGGTAGACGTTACTACTCT
* * * * * * *
8915054 CGTCGTAATGAAAGATATGTTGTTAGTAAATTTAATAATTTATGTATTTGAATTTTGTTTATTTT
189 CGTCATAATGAAAGATACGTGGTTAGTAAACTTAATAATTCATGTATCTAAATTTTGTTTATTTT
** *
8915119 ATATTAAATATGTGTAAAATATAAAAATTATCGTGATAAAATTTATATCAATACAAGAATATAAA
254 ATATTAAATACATATAAAATATAAAAATTATCGTGATAAAA-TT-TATCAATACAAGAATATAAA
*
8915184 ACA-TATATATTTTTTAATTTTTATTAAATTTATATATAATTTTTGTTAAAATTTTAAATTATAT
317 ACACT-T-T-TTTTTTAATTTTTATTAAATTTATATATAATTTTTGTTAAAATTTTAAATTAT-G
* * *
8915248 TAATTTTTTA-TGTTTT-TGCATCATGTTATTGTTTAAAATTATCAAGTTTGTCTCGCC-TCGAA
378 TAATTTTTTATTGTTTTCT-CATCATGTCATTGTTTAAAATTATCAAG-TTATCTCACCTTCG-A
* * * * *
8915310 GGCATCGATTACTAATGAATGTCTTTTTCATAAATATTCTAGCATTTAACTCCTTACTAATGAAA
440 GGCATCGATTAATAATGAATGTCCTTTTCATAAATATTCTAGCAATTAACTCCTAACTAACGAAA
* *
8915375 AGTTCCCTTGGTTAACATCCTTGGAGAAAACCA-TAAAAAAACTCACTTGCCTTCTGATT
505 AGTTCCCAT-GTTAAAATCCTTGGAGAAAACCATTAAAAAAACTCACTTGCCTTCTGATT
8915434 TTCCGGTTTT
Statistics
Matches: 487, Mismatches: 69, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
570 1 0.00
571 132 0.27
573 2 0.00
576 1 0.00
577 112 0.23
578 3 0.01
579 20 0.04
580 2 0.00
581 82 0.17
582 86 0.18
583 46 0.09
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (572 bp):
TGGTTGGTAAGTAATGCTCCTTCGGTAAATCTTGAAACTCATATGTATAGAGAACGAAAGATAAG
CTTCAACCAAACAGGGGTTTAAGTATTAATCCTTTTGATGAATAGTAGTGACTTGCATTATTCAA
ATGCATCTCACAGATGTGTTTTTTTTTATATGAACAACTTGGTAGACGTTACTACTCTCGTCATA
ATGAAAGATACGTGGTTAGTAAACTTAATAATTCATGTATCTAAATTTTGTTTATTTTATATTAA
ATACATATAAAATATAAAAATTATCGTGATAAAATTTATCAATACAAGAATATAAAACACTTTTT
TTTTAATTTTTATTAAATTTATATATAATTTTTGTTAAAATTTTAAATTATGTAATTTTTTATTG
TTTTCTCATCATGTCATTGTTTAAAATTATCAAGTTATCTCACCTTCGAGGCATCGATTAATAAT
GAATGTCCTTTTCATAAATATTCTAGCAATTAACTCCTAACTAACGAAAAGTTCCCATGTTAAAA
TCCTTGGAGAAAACCATTAAAAAAACTCACTTGCCTTCTGATTAAAAATCCA
Found at i:8917216 original size:24 final size:23
Alignment explanation
Indices: 8917189--8917242 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
8917179 GATTGTTGTC
**
8917189 TATTGCTGTGGGTTTATTGTGAT
1 TATTGCTGTGGCATTATTGTGAT
* *
8917212 ATATTGCTTTTGCATTATTGTGAT
1 -TATTGCTGTGGCATTATTGTGAT
8917236 TATTGCT
1 TATTGCT
8917243 TCATGCCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.17, C:0.07, G:0.22, T:0.54
Consensus pattern (23 bp):
TATTGCTGTGGCATTATTGTGAT
Found at i:8918219 original size:19 final size:19
Alignment explanation
Indices: 8918195--8918238 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
8918185 ATCCCAACAT
8918195 TGAGTGGATAATTGATACA
1 TGAGTGGATAATTGATACA
8918214 TGAGTGGATAATTGATACA
1 TGAGTGGATAATTGATACA
*
8918233 AGAGTG
1 TGAGTG
8918239 ACATATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.30
Consensus pattern (19 bp):
TGAGTGGATAATTGATACA
Found at i:8928288 original size:15 final size:15
Alignment explanation
Indices: 8928268--8928303 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8928258 AAATTAATGG
*
8928268 ATTTTGGGTATCAAT
1 ATTTTGGGTAACAAT
*
8928283 ATTTTGGGTAAGAAT
1 ATTTTGGGTAACAAT
8928298 ATTTTG
1 ATTTTG
8928304 TGCTCCTTTT
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:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (15 bp):
ATTTTGGGTAACAAT
Found at i:8928527 original size:35 final size:35
Alignment explanation
Indices: 8928488--8928557 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
8928478 CAAGTAAGAA
8928488 GAAACTTTTATTTCTTAAATTTATGGATCAAATGG
1 GAAACTTTTATTTCTTAAATTTATGGATCAAATGG
8928523 GAAACTTTTATTTCTTAAATTTATGGATCAAATGG
1 GAAACTTTTATTTCTTAAATTTATGGATCAAATGG
8928558 CTGATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (35 bp):
GAAACTTTTATTTCTTAAATTTATGGATCAAATGG
Found at i:8931163 original size:2 final size:2
Alignment explanation
Indices: 8931156--8931198 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
8931146 CTAATCATGC
*
8931156 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8931198 A
1 A
8931199 AAGAAAGCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8937050 original size:2 final size:2
Alignment explanation
Indices: 8937043--8937076 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8937033 AAATCCTACT
8937043 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8937077 CGCAGGTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8939484 original size:35 final size:36
Alignment explanation
Indices: 8939445--8939527 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 36
8939435 ATGAAACCAA
*
8939445 TATATTAAATTTATAATA-AAATAAAAAT-AAAAAAT
1 TATATTAAATTTAAAATATAAA-AAAAATAAAAAAAT
* * * *
8939480 TATATTAGATATAAAATATTAAAAAAGTAAAAAAAT
1 TATATTAAATTTAAAATATAAAAAAAATAAAAAAAT
8939516 TATATATAAATT
1 TATAT-TAAATT
8939528 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 20 0.53
36 14 0.37
37 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (36 bp):
TATATTAAATTTAAAATATAAAAAAAATAAAAAAAT
Found at i:8943179 original size:2 final size:2
Alignment explanation
Indices: 8943157--8943196 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8943147 AGATTCCTTT
* * *
8943157 TA TA TT TA TA CA TA CA 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
8943197 GTAGCTTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:8948201 original size:100 final size:100
Alignment explanation
Indices: 8948021--8948317 Score: 452
Period size: 100 Copynumber: 3.0 Consensus size: 100
8948011 TGTATTAGCC
* * * *
8948021 CAAACAGGT-TCGATTCGGGTTTTATCGTTTTAGATATAGTTAGGACTAAGCCAAGTTCAGGTAT
1 CAAACAGGTCTAG-TTCGGGTTTTGTCATTTTAGATATAGTTAGG-CTAAGCCAAGTTCAAGTAT
*
8948085 AATTGAAATACTCAACCAAAATCGAAAGTTTTCAACT
64 AATTGAAATACCCAACCAAAATCGAAAGTTTTCAACT
*
8948122 CAAACAGGTCTAGTTCGAGTTTTGTCATTTTAGATATAGTTAGGCTAAGCCAAGTTCAAGTATAA
1 CAAACAGGTCTAGTTCGGGTTTTGTCATTTTAGATATAGTTAGGCTAAGCCAAGTTCAAGTATAA
* *
8948187 TTGAAATACCCAACCAAAATTGAAAGTTTTCAGCT
66 TTGAAATACCCAACCAAAATCGAAAGTTTTCAACT
*
8948222 CAAACAGGTCTAATTCGGGTTTTGTCATTTTAGATATAGTTAGGGCTAAGCCAAGTTCAAGTATA
1 CAAACAGGTCTAGTTCGGGTTTTGTCATTTTAGATATAGTTA-GGCTAAGCCAAGTTCAAGTATA
* * *
8948287 ATTGAAATGCCTAACCAAAATCGTAAGTTTT
65 ATTGAAATACCCAACCAAAATCGAAAGTTTT
8948318 AGTTAAATCG
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
100 92 0.51
101 86 0.48
102 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (100 bp):
CAAACAGGTCTAGTTCGGGTTTTGTCATTTTAGATATAGTTAGGCTAAGCCAAGTTCAAGTATAA
TTGAAATACCCAACCAAAATCGAAAGTTTTCAACT
Found at i:8954515 original size:12 final size:12
Alignment explanation
Indices: 8954492--8954537 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
8954482 ATTTTCAGTT
*
8954492 TAATATTAATAA
1 TAATATTGATAA
*
8954504 TAATTTTGATAA
1 TAATATTGATAA
*
8954516 TAATATTAATAA
1 TAATATTGATAA
8954528 TAATATTGAT
1 TAATATTGAT
8954538 TTAATTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (12 bp):
TAATATTGATAA
Found at i:8954536 original size:24 final size:24
Alignment explanation
Indices: 8954492--8954537 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8954482 ATTTTCAGTT
*
8954492 TAATATTAATAATAATTTTGATAA
1 TAATATTAATAATAATATTGATAA
8954516 TAATATTAATAATAATATTGAT
1 TAATATTAATAATAATATTGAT
8954538 TTAATTAAAA
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:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATATTAATAATAATATTGATAA
Found at i:8955864 original size:15 final size:15
Alignment explanation
Indices: 8955844--8955872 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8955834 TGGAAAATTA
8955844 TAAAAAAATTAAAAT
1 TAAAAAAATTAAAAT
8955859 TAAAAAAATTAAAA
1 TAAAAAAATTAAAA
8955873 AGTAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATTAAAAT
Found at i:8956070 original size:16 final size:16
Alignment explanation
Indices: 8956049--8956093 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8956039 CCCTAAAACC
*
8956049 AAACCCTAAAATTTTT
1 AAACCCTAAAATTTCT
* *
8956065 AAACCCCAAAATCTCT
1 AAACCCTAAAATTTCT
*
8956081 AAACCTTAAAATT
1 AAACCCTAAAATT
8956094 AAATTCCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (16 bp):
AAACCCTAAAATTTCT
Found at i:8956187 original size:15 final size:16
Alignment explanation
Indices: 8956152--8956216 Score: 68
Period size: 15 Copynumber: 4.2 Consensus size: 16
8956142 CCTAAAATAA
8956152 AAAATC-CAAAACCCT
1 AAAATCTCAAAACCCT
*
8956167 AAAAAATCT-AAAACCTT
1 --AAAATCTCAAAACCCT
8956184 AAAAT-TCAAAACCCT
1 AAAATCTCAAAACCCT
8956199 AAAATC-C-AAACCCT
1 AAAATCTCAAAACCCT
8956213 AAAA
1 AAAA
8956217 ACGAAACTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
14 12 0.28
15 18 0.42
17 13 0.30
ACGTcount: A:0.57, C:0.26, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATCTCAAAACCCT
Found at i:8956211 original size:14 final size:14
Alignment explanation
Indices: 8956152--8956231 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
8956142 CCTAAAATAA
8956152 AAAATCCAAAACCCT
1 AAAAT-CAAAACCCT
*
8956167 AAAAAATCTAAAACCTT
1 --AAAATC-AAAACCCT
8956184 AAAATTCAAAACCCT
1 AAAA-TCAAAACCCT
*
8956199 AAAATCCAAACCCT
1 AAAATCAAAACCCT
* * *
8956213 AAAAACGAAACTCT
1 AAAATCAAAACCCT
8956227 AAAAT
1 AAAAT
8956232 TTTCAAACCT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
14 24 0.44
15 15 0.28
16 3 0.06
17 12 0.22
ACGTcount: A:0.56, C:0.25, G:0.01, T:0.17
Consensus pattern (14 bp):
AAAATCAAAACCCT
Found at i:8956217 original size:15 final size:15
Alignment explanation
Indices: 8956151--8956249 Score: 67
Period size: 14 Copynumber: 6.5 Consensus size: 15
8956141 CCCTAAAATA
8956151 AAAAATCCAAAACCCT
1 AAAAATCC-AAACCCT
* *
8956167 AAAAAATCTAAAACCTT
1 -AAAAATC-CAAACCCT
* *
8956184 AAAATTCAAAACCCT
1 AAAAATCCAAACCCT
8956199 -AAAATCCAAACCCT
1 AAAAATCCAAACCCT
* *
8956213 AAAAA-CGAAACTCT
1 AAAAATCCAAACCCT
* * *
8956227 AAAATTTTCAAACCTT
1 AAAA-ATCCAAACCCT
8956243 AAAAATC
1 AAAAATC
8956250 AAAATTTCAA
Statistics
Matches: 63, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
14 23 0.37
15 12 0.19
16 15 0.24
17 13 0.21
ACGTcount: A:0.55, C:0.24, G:0.01, T:0.20
Consensus pattern (15 bp):
AAAAATCCAAACCCT
Found at i:8956260 original size:22 final size:23
Alignment explanation
Indices: 8956220--8956289 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
8956210 CCTAAAAACG
8956220 AAACTCTAAAATTTTCAAACCTTAA
1 AAAC-CTAAAA-TTTCAAACCTTAA
* *
8956245 AAATC-AAAATTTCAAACCTTCA
1 AAACCTAAAATTTCAAACCTTAA
*
8956267 AACCCTAAAA-TT-AAACCTTAA
1 AAACCTAAAATTTCAAACCTTAA
8956288 AA
1 AA
8956290 CCAAACCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 10 0.26
22 17 0.44
23 8 0.21
24 1 0.03
25 3 0.08
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACCTAAAATTTCAAACCTTAA
Found at i:8956288 original size:13 final size:13
Alignment explanation
Indices: 8956266--8956304 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
8956256 TCAAACCTTC
*
8956266 AAACCCTAAAATT
1 AAACCTTAAAATT
**
8956279 AAACCTTAAAACC
1 AAACCTTAAAATT
8956292 AAACCTTAAAATT
1 AAACCTTAAAATT
8956305 TTTAAACCCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AAACCTTAAAATT
Found at i:8956290 original size:29 final size:29
Alignment explanation
Indices: 8956258--8956406 Score: 96
Period size: 29 Copynumber: 5.1 Consensus size: 29
8956248 TCAAAATTTC
8956258 AAACCTTCAAACCCTAAAATTAAACCTTA
1 AAACCTTCAAACCCTAAAATTAAACCTTA
* **
8956287 AAA-C--CAAACCTTAAAATTTTTAAACCCCA
1 AAACCTTCAAACCCTAAAA---TTAAACCTTA
* *
8956316 AAACC-TCTAAACCTTAAAATTAAA--TTCC
1 AAACCTTC-AAACCCTAAAATTAAACCTT-A
* * *
8956344 AAACCTTCAAAGCCTATAATTAAACCCTA
1 AAACCTTCAAACCCTAAAATTAAACCTTA
*
8956373 AACTCCTT-AAACCCTAAAATTCAAAACCTTA
1 AA-ACCTTCAAACCCTAAAATT--AAACCTTA
8956404 AAA
1 AAA
8956407 TCCAAAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
26 11 0.12
28 19 0.21
29 34 0.37
30 6 0.07
31 10 0.11
32 11 0.12
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.25
Consensus pattern (29 bp):
AAACCTTCAAACCCTAAAATTAAACCTTA
Found at i:8956405 original size:15 final size:15
Alignment explanation
Indices: 8956365--8956413 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
8956355 GCCTATAATT
* *
8956365 AAACCCTAAACTCCTT
1 AAACCCTAAAATCC-A
*
8956381 AAACCCTAAAATTCA
1 AAACCCTAAAATCCA
*
8956396 AAACCTTAAAATCCA
1 AAACCCTAAAATCCA
8956411 AAA
1 AAA
8956414 TTTTGAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTAAAATCCA
Found at i:8967855 original size:26 final size:26
Alignment explanation
Indices: 8967824--8967879 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
8967814 TTTTGCTTAA
**
8967824 AAAAGAAAAAAAAGTGTAAAAAAA-AG
1 AAAAGAAAAAAAA-TCCAAAAAAAGAG
8967850 AAAAGAAAAAAAATCCAAAAAAAGAG
1 AAAAGAAAAAAAATCCAAAAAAAGAG
8967876 AAAA
1 AAAA
8967880 AAAGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.05
Consensus pattern (26 bp):
AAAAGAAAAAAAATCCAAAAAAAGAG
Found at i:8967879 original size:10 final size:10
Alignment explanation
Indices: 8967822--8967892 Score: 55
Period size: 10 Copynumber: 7.6 Consensus size: 10
8967812 TATTTTGCTT
8967822 AAAAAAGA-A
1 AAAAAAGAGA
*
8967831 AAAAAAGTGTA
1 AAAAAAGAG-A
8967842 AAAAAA-AG-
1 AAAAAAGAGA
8967850 --AAAAGA-A
1 AAAAAAGAGA
***
8967857 AAAAAATCCA
1 AAAAAAGAGA
8967867 AAAAAAGAGA
1 AAAAAAGAGA
8967877 AAAAAAGAGA
1 AAAAAAGAGA
8967887 AAAAAA
1 AAAAAA
8967893 TGGATAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 11 0.23
10 25 0.52
11 7 0.15
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.04
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:8967890 original size:21 final size:21
Alignment explanation
Indices: 8967822--8967892 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
8967812 TATTTTGCTT
*
8967822 AAAAAAGA-AAAAAAAGTGTAA
1 AAAAAAGAGAAAAAAAGAG-AA
**
8967843 AAAAAAGAAAAGAAAAAAA-ATCCA
1 AAAAAAG---AGAAAAAAAGA-GAA
8967867 AAAAAAGAGAAAAAAAGAGAA
1 AAAAAAGAGAAAAAAAGAGAA
8967888 AAAAA
1 AAAAA
8967893 TGGATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
21 22 0.56
22 1 0.03
24 9 0.23
25 7 0.18
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.04
Consensus pattern (21 bp):
AAAAAAGAGAAAAAAAGAGAA
Found at i:8969468 original size:39 final size:40
Alignment explanation
Indices: 8969422--8969510 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 40
8969412 TTTGACTCAT
8969422 GGTTTAATCCT-GATCATTTCTATAGTTTCCCTGACTTGC
1 GGTTTAATCCTCGATCATTTCTATAGTTTCCCTGACTTGC
* * *
8969461 GGTTTAAT-CTCGATCATTTCTATAGTTTTCTTGACTTGT
1 GGTTTAATCCTCGATCATTTCTATAGTTTCCCTGACTTGC
8969500 GGTTTAATCCT
1 GGTTTAATCCT
8969511 AGTCTCTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.04
39 41 0.91
40 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (40 bp):
GGTTTAATCCTCGATCATTTCTATAGTTTCCCTGACTTGC
Found at i:8969470 original size:110 final size:110
Alignment explanation
Indices: 8968942--8969471 Score: 629
Period size: 110 Copynumber: 4.8 Consensus size: 110
8968932 TAATTACCTG
* * *
8968942 ACTTACGGTTCAGTCCCTGTCATCTTTAA-TCTTGACTCGTAGTTTAATCCTGATTATTTCTATA
1 ACTTGCGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCGTAGTTTAATCCTGATCATTTCTATA
** *
8969006 GTTTTCCTGGCTTGCGATTTAATCCCAATCTTTTTTATTTTTCTA
66 GTTTTCCTAACTTGCGATTTAATCTCAATCTTTTTTATTTTTCTA
** * * *
8969051 ACTTGTAGTTCAGTCCCAGTCATCTTTAATTTTTGACTCGTTGTTTAATTCC-GATCATTTTTAT
1 ACTTGCGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCGTAGTTTAA-TCCTGATCATTTCTAT
* * * *
8969115 AGTTTTTCTAACTTACGATTTAATCCCAATCTCTTTTATTTTTCTA
65 AGTTTTCCTAACTTGCGATTTAATCTCAATCTTTTTTATTTTTCTA
* ** * * * *
8969161 GCTTATGATTCAGTCCCTGTCATTTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTTTATA
1 ACTTGCGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCGTAGTTTAATCCTGATCATTTCTATA
* ** * *
8969226 GTTTTCTTAACTTATGGTTTAATCTCAAT-TTCTTTCATTTTTCTA
66 GTTTTCCTAACTTGCGATTTAATCTCAATCTT-TTTTATTTTTCTA
* * * * *
8969271 ACTTGCGGTTCAATCCCTGTCATCTTTAATCTTTAACTCGT-GATTTAATTCTGATCATTTATAT
1 ACTTGCGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCGTAG-TTTAATCCTGATCATTTCTAT
* * *
8969335 AGTTTTCCTAACTTGCAATTTAATCTCAGTCTTTTTTATTTTTTTA
65 AGTTTTCCTAACTTGCGATTTAATCTCAATCTTTTTTATTTTTCTA
* *
8969381 ACTTGCGGTTCAGT-CCTAGTCATCTTTAATTTTTGACTCATGGTTTAATCCTGATCATTTCTAT
1 ACTTGCGGTTCAGTCCCT-GTCATCTTTAATTTTTGACTCGTAGTTTAATCCTGATCATTTCTAT
* * *
8969445 AGTTTCCCTGACTTGCGGTTTAATCTC
65 AGTTTTCCTAACTTGCGATTTAATCTC
8969472 GATCATTTCT
Statistics
Matches: 356, Mismatches: 57, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
109 33 0.09
110 317 0.89
111 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (110 bp):
ACTTGCGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCGTAGTTTAATCCTGATCATTTCTATA
GTTTTCCTAACTTGCGATTTAATCTCAATCTTTTTTATTTTTCTA
Found at i:8969470 original size:220 final size:220
Alignment explanation
Indices: 8968942--8969471 Score: 699
Period size: 220 Copynumber: 2.4 Consensus size: 220
8968932 TAATTACCTG
* * *
8968942 ACTTACGGTTCAGTCCCTGTCATCTTTAA-TCTTGACTCGTAGTTTAATCCTGATTATTTCTATA
1 ACTTACGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTCTATA
* * * * * *
8969006 GTTTTCCTGGCTTGCGATTTAATCCCAATCTTTTTTATTTTTCTAACTTGTAGTTCAGTCCCAGT
66 GTTTTCCTGACTTGCGGTTTAATCTCAATCTTTTTCATTTTTCTAACTTGCAGTTCAATCCCAGT
* * * * *
8969071 CATCTTTAATTTTTGACTCGTTGTTTAATTCCGATCATTTTTATAGTTTTTCTAACTTACGATTT
131 CATCTTTAATCTTTAACTCGTTGTTTAATTCCGATCATTTATATAGTTTTCCTAACTTACAATTT
8969136 AATCCCAATCTCTTTTATTTTTCTA
196 AATCCCAATCTCTTTTATTTTTCTA
* * * * *
8969161 GCTTATGATTCAGTCCCTGTCATTTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTTTATA
1 ACTTACGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTCTATA
* * ** * *
8969226 GTTTTCTTAACTTATGGTTTAATCTCAAT-TTCTTTCATTTTTCTAACTTGCGGTTCAATCCCTG
66 GTTTTCCTGACTTGCGGTTTAATCTCAATCTT-TTTCATTTTTCTAACTTGCAGTTCAATCCCAG
* *
8969290 TCATCTTTAATCTTTAACTCG-TGATTTAATTCTGATCATTTATATAGTTTTCCTAACTTGCAAT
130 TCATCTTTAATCTTTAACTCGTTG-TTTAATTCCGATCATTTATATAGTTTTCCTAACTTACAAT
* * * *
8969354 TTAATCTCAGTCTTTTTTATTTTTTTA
194 TTAATCCCAATCTCTTTTATTTTTCTA
* *
8969381 ACTTGCGGTTCAGT-CCTAGTCATCTTTAATTTTTGACTCATGGTTTAATCCTGATCATTTCTAT
1 ACTTACGGTTCAGTCCCT-GTCATCTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTCTAT
*
8969445 AGTTTCCCTGACTTGCGGTTTAATCTC
65 AGTTTTCCTGACTTGCGGTTTAATCTC
8969472 GATCATTTCT
Statistics
Matches: 264, Mismatches: 43, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
219 32 0.12
220 232 0.88
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (220 bp):
ACTTACGGTTCAGTCCCTGTCATCTTTAATTTTTGACTCATAGTTTAATCCTGATCATTTCTATA
GTTTTCCTGACTTGCGGTTTAATCTCAATCTTTTTCATTTTTCTAACTTGCAGTTCAATCCCAGT
CATCTTTAATCTTTAACTCGTTGTTTAATTCCGATCATTTATATAGTTTTCCTAACTTACAATTT
AATCCCAATCTCTTTTATTTTTCTA
Found at i:8969488 original size:149 final size:150
Alignment explanation
Indices: 8969312--8969618 Score: 399
Period size: 149 Copynumber: 2.1 Consensus size: 150
8969302 TTTAACTCGT
*
8969312 GATTTAAT-TCTGATCATTTATATAGTTTTCCTAACTTGCAATTTAAT-CTCAGTCTTTTTTATT
1 GATTTAATCTCTGATCATTTATATAGTTTTCCTAACTTGCAATTTAATCCT-AGTCTCTTTTATT
* * *
8969375 TTTTTAACTTGCGGTTCAGT-CCTAGTCATCTTTAATTTTTGACTCATGGTTTAATC-CTGATCA
65 TTTCTAACTTGCAGTTCAGTCCCTA-TCATCTTTAATTTTTGACTCATGATTTAATCTC-GATCA
*
8969438 TTTCTATAGTTTCCCTGACTTGC
128 TTTCTATAGTTTCCCTGACTTAC
* * * * ***
8969461 GGTTTAATCTC-GATCATTTCTATAGTTTTCTTGACTTGTGGTTTAATCCTAGTCTCTTTTATTT
1 GATTTAATCTCTGATCATTTATATAGTTTTCCTAACTTGCAATTTAATCCTAGTCTCTTTTATTT
* *
8969525 TTCTAACTTGCAGTTCAGTCCCTATTATCTTTAATTTTTGACTCGTGATTTAATCTCGATCATTT
66 TTCTAACTTGCAGTTCAGTCCCTATCATCTTTAATTTTTGACTCATGATTTAATCTCGATCATTT
* **
8969590 TTATAGTTTTTCTGACTTAC
131 CTATAGTTTCCCTGACTTAC
8969610 GATTTAATC
1 GATTTAATC
8969619 ACAGTCTCTT
Statistics
Matches: 136, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
149 127 0.93
150 9 0.07
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (150 bp):
GATTTAATCTCTGATCATTTATATAGTTTTCCTAACTTGCAATTTAATCCTAGTCTCTTTTATTT
TTCTAACTTGCAGTTCAGTCCCTATCATCTTTAATTTTTGACTCATGATTTAATCTCGATCATTT
CTATAGTTTCCCTGACTTAC
Found at i:8969902 original size:36 final size:35
Alignment explanation
Indices: 8969775--8969902 Score: 145
Period size: 34 Copynumber: 3.7 Consensus size: 35
8969765 CTTCATTTTT
8969775 TGACTCACGATTTAATCTCGATCTT-TTTATTCTC
1 TGACTCACGATTTAATCTCGATCTTCTTTATTCTC
* * * *
8969809 TAATTCACGATTTAATCCCAATC-TCTTTATTCTC
1 TGACTCACGATTTAATCTCGATCTTCTTTATTCTC
* **
8969843 TGATTCACGATTTAATC-CTGATCTTCAGTATTTCTC
1 TGACTCACGATTTAATCTC-GATCTTCTTTA-TTCTC
*
8969879 TGACTCATGATTTAATCTCGATCT
1 TGACTCACGATTTAATCTCGATCT
8969903 CTTCATTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
33 2 0.03
34 47 0.59
35 4 0.05
36 25 0.32
37 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (35 bp):
TGACTCACGATTTAATCTCGATCTTCTTTATTCTC
Found at i:8970271 original size:12 final size:12
Alignment explanation
Indices: 8970248--8970293 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8970238 ATTTTTAATT
*
8970248 TAATATTAATAA
1 TAATATTGATAA
*
8970260 TAATTTTGATAA
1 TAATATTGATAA
* *
8970272 TAATGTTAATAA
1 TAATATTGATAA
8970284 TAATATTGAT
1 TAATATTGAT
8970294 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (12 bp):
TAATATTGATAA
Found at i:8970292 original size:24 final size:24
Alignment explanation
Indices: 8970248--8970293 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8970238 ATTTTTAATT
*
8970248 TAATATTAATAATAATTTTGATAA
1 TAATATTAATAATAATATTGATAA
*
8970272 TAATGTTAATAATAATATTGAT
1 TAATATTAATAATAATATTGAT
8970294 TTAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (24 bp):
TAATATTAATAATAATATTGATAA
Found at i:8970435 original size:26 final size:26
Alignment explanation
Indices: 8970406--8970459 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
8970396 TTTGCTTGAC
*
8970406 CCCATCAAACAGCTACCCTACCCAGT
1 CCCATCAAACAGCCACCCTACCCAGT
* * *
8970432 CCCATCAGATAGCCACCCTACCTAGT
1 CCCATCAAACAGCCACCCTACCCAGT
8970458 CC
1 CC
8970460 TACTAGACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.46, G:0.09, T:0.17
Consensus pattern (26 bp):
CCCATCAAACAGCCACCCTACCCAGT
Found at i:8971631 original size:6 final size:6
Alignment explanation
Indices: 8971620--8971651 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8971610 GATTTATAAA
8971620 AAAATT AAAATT AAAA-- AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
8971652 AGTAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.17
6 20 0.83
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
AAAATT
Found at i:8971638 original size:16 final size:16
Alignment explanation
Indices: 8971617--8971652 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
8971607 GAAGATTTAT
8971617 AAAAAAATTAAAATTA
1 AAAAAAATTAAAATTA
8971633 AAAAAAATTAAAATTA
1 AAAAAAATTAAAATTA
8971649 AAAA
1 AAAA
8971653 GTAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAAATTAAAATTA
Found at i:8971904 original size:57 final size:58
Alignment explanation
Indices: 8971830--8971939 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
8971820 TCTAAAATTT
* * * *
8971830 TTAAACCCCAAAACCTCT-AACCCTTAAAATTAAATTTC-AAACCTTCAAATCCCATAA
1 TTAAACCCCAAAACCTCTGAACCC-TAAAATAAAAATCCAAAACCTTAAAATCCCATAA
* *
8971887 TTAAACCCTAAACCCTCTGAACCCTAAAATAAAAATCCAAAACCTTAAAATCC
1 TTAAACCCCAAAACCTCTGAACCCTAAAATAAAAATCCAAAACCTTAAAATCC
8971940 AAAACTCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 27 0.60
58 18 0.40
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.24
Consensus pattern (58 bp):
TTAAACCCCAAAACCTCTGAACCCTAAAATAAAAATCCAAAACCTTAAAATCCCATAA
Found at i:8971963 original size:14 final size:15
Alignment explanation
Indices: 8971918--8971965 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
8971908 CCCTAAAATA
*
8971918 AAAATCCAAAACCTT
1 AAAATCCAAAACCCT
*
8971933 AAAATCCAAAACTCT
1 AAAATCCAAAACCCT
8971948 AAAATCC-AAACCCT
1 AAAATCCAAAACCCT
8971962 AAAA
1 AAAA
8971966 ATGAAACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATCCAAAACCCT
Found at i:8971994 original size:28 final size:28
Alignment explanation
Indices: 8971918--8972029 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
8971908 CCCTAAAATA
* * *
8971918 AAAATCCAAAACCTTAAAATCCAAAACTCT
1 AAAATCCAAACCCTAAAAAT--GAAACTCT
8971948 AAAATCCAAACCCTAAAAATGAAACTCT
1 AAAATCCAAACCCTAAAAATGAAACTCT
* * *
8971976 AAATTTTCAAACCCT-AAAATTAAAC-CTT
1 AAA-ATCCAAACCCTAAAAATGAAACTC-T
** *
8972004 CAACCTCCAAACCTTAAAAATGAAAC
1 -AAAATCCAAACCCTAAAAATGAAAC
8972030 CATAAACCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.01
28 28 0.42
29 20 0.30
30 18 0.27
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (28 bp):
AAAATCCAAACCCTAAAAATGAAACTCT
Found at i:8972022 original size:57 final size:59
Alignment explanation
Indices: 8971952--8972078 Score: 163
Period size: 57 Copynumber: 2.2 Consensus size: 59
8971942 AACTCTAAAA
* * *
8971952 TCCAAACCCTAAAAATGAAACTC-TAAA-TTTTCAAACCCTAAAATTAAA-CCTTCAACC-
1 TCCAAACCCTAAAAATGAAAC-CATAAACCTTCCAAACCCTAAAATTAAATCATTC-ACCT
* *
8972009 TCCAAACCTTAAAAATGAAACCATAAACCTTCCAAACCTTAAAATTAAATCATTCACCT
1 TCCAAACCCTAAAAATGAAACCATAAACCTTCCAAACCCTAAAATTAAATCATTCACCT
8972068 TCCAAACCCTA
1 TCCAAACCCTA
8972079 TAATCAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 24 0.40
58 21 0.35
59 14 0.23
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (59 bp):
TCCAAACCCTAAAAATGAAACCATAAACCTTCCAAACCCTAAAATTAAATCATTCACCT
Found at i:8972053 original size:29 final size:29
Alignment explanation
Indices: 8971952--8972111 Score: 103
Period size: 29 Copynumber: 5.5 Consensus size: 29
8971942 AACTCTAAAA
* *
8971952 TCCAAACCCTAAAAATGAAACTC-TAAA-TT
1 TCCAAA-CCTTAAAATGAAAC-CATAAACCT
* * * * *
8971981 TTCAAACCCTAAAATTAAACCTTCAACC-
1 TCCAAACCTTAAAATGAAACCATAAACCT
8972009 TCCAAACCTTAAAAATGAAACCATAAACCT
1 TCCAAACCTT-AAAATGAAACCATAAACCT
* * **
8972039 TCCAAACCTTAAAATTAAATCATTCACCT
1 TCCAAACCTTAAAATGAAACCATAAACCT
* * * *
8972068 TCCAAACCCTATAATCAAAACCCTAAACC-
1 TCCAAACCTTAAAAT-GAAACCATAAACCT
* *
8972097 TCCAAGCTTTAAAAT
1 TCCAAACCTTAAAAT
8972112 CAAAACTCCA
Statistics
Matches: 100, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
27 1 0.01
28 22 0.22
29 59 0.59
30 18 0.18
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (29 bp):
TCCAAACCTTAAAATGAAACCATAAACCT
Found at i:8972101 original size:58 final size:58
Alignment explanation
Indices: 8971952--8972111 Score: 150
Period size: 58 Copynumber: 2.8 Consensus size: 58
8971942 AACTCTAAAA
* * * * *
8971952 TCCAAACCCTAAAAATGAAACTC-TAAA-TTTTCAAACCCTAAAATTAAACCTTCAACC
1 TCCAAACCCTAAAAATAAAAC-CATAAACCTTCCAAACCTTAAAATTAAACATTCAACC
* *
8972009 TCCAAACCTTAAAAATGAAACCATAAACCTTCCAAACCTTAAAATTAAATCATTC-ACC
1 TCCAAACCCTAAAAATAAAACCATAAACCTTCCAAACCTTAAAATTAAA-CATTCAACC
* * * *
8972067 TTCCAAACCCT-ATAATCAAAACCCTAAACC-TCCAAGCTTTAAAAT
1 -TCCAAACCCTAAAAAT-AAAACCATAAACCTTCCAAACCTTAAAAT
8972112 CAAAACTCCA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 24 0.28
58 38 0.44
59 24 0.28
ACGTcount: A:0.45, C:0.29, G:0.02, T:0.24
Consensus pattern (58 bp):
TCCAAACCCTAAAAATAAAACCATAAACCTTCCAAACCTTAAAATTAAACATTCAACC
Found at i:8972138 original size:29 final size:29
Alignment explanation
Indices: 8971926--8972144 Score: 99
Period size: 29 Copynumber: 7.6 Consensus size: 29
8971916 TAAAAATCCA
* * *
8971926 AAACCTTAAAATCCAAAACTCTAAA-ATCC
1 AAACCCTAAAAT-CAAAACCCTAAACCTCC
* * ** *
8971955 AAACCCTAAAAAT-GAAACTCTAAATTTTC
1 AAACCCT-AAAATCAAAACCCTAAACCTCC
* * *
8971984 AAACCCTAAAAT-TAAACCTTCAACCTCC
1 AAACCCTAAAATCAAAACCCTAAACCTCC
* * *
8972012 AAACCTTAAAAAT-GAAACCATAAACCTTCC
1 AAACCCT-AAAATCAAAACCCTAAACC-TCC
* * * * **
8972042 AAACCTTAAAAT-TAAATCATTCACCTTCC
1 AAACCCTAAAATCAAAACCCTAAACC-TCC
*
8972071 AAACCCTATAATCAAAACCCTAAACCTCC
1 AAACCCTAAAATCAAAACCCTAAACCTCC
* ** **
8972100 AAGCTTTAAAATCAAAACTCC-AAACCTTT
1 AAACCCTAAAATCAAAAC-CCTAAACCTCC
*
8972129 AAACCCTAAAACCAAA
1 AAACCCTAAAATCAAA
8972145 CACTAAAATT
Statistics
Matches: 148, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
28 30 0.20
29 93 0.63
30 25 0.17
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (29 bp):
AAACCCTAAAATCAAAACCCTAAACCTCC
Found at i:8972188 original size:29 final size:28
Alignment explanation
Indices: 8972156--8972243 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
8972146 ACTAAAATTT
*
8972156 TTAAACCCCAAATCCTCTAAACCTTAAAA
1 TTAAACCCCAAA-CCTCTAAACCCTAAAA
** *
8972185 TTAAATTCCAAACCT-TCAAACCCTATAA
1 TTAAACCCCAAACCTCT-AAACCCTAAAA
* *
8972213 TTAAACCCTAAACCCCCTAAACCCTAAAA
1 TTAAACCCCAAA-CCTCTAAACCCTAAAA
8972242 TT
1 TT
8972244 CAAAACCTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
27 1 0.02
28 21 0.45
29 24 0.51
30 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (28 bp):
TTAAACCCCAAACCTCTAAACCCTAAAA
Found at i:8975733 original size:15 final size:15
Alignment explanation
Indices: 8975710--8975744 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 15
8975700 TTTATTTTTC
8975710 CTTTCTTTTTCTTCTCT
1 CTTT-TTTTTC-TCTCT
8975727 CTTTTTTTTCTCTCT
1 CTTTTTTTTCTCTCT
8975742 CTT
1 CTT
8975745 CCATAATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTTTTTTTTCTCTCT
Found at i:8976040 original size:21 final size:21
Alignment explanation
Indices: 8976011--8976050 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8976001 CTACCAAGGG
* *
8976011 TTGTTTTTTTTTTTTTTGGGA
1 TTGTGTTTTTTTGTTTTGGGA
8976032 TTGTGTTTTTTTGTTTTGG
1 TTGTGTTTTTTTGTTTTGG
8976051 TGTTGGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.75
Consensus pattern (21 bp):
TTGTGTTTTTTTGTTTTGGGA
Found at i:8976237 original size:22 final size:23
Alignment explanation
Indices: 8976207--8976255 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
8976197 GAATGTGGTC
*
8976207 TAGGAGTCTGTAG-GTGTGGCTG
1 TAGGAGTCTGTAGAGCGTGGCTG
* *
8976229 TAGGTGTCTGTAGAGCGTGGTTG
1 TAGGAGTCTGTAGAGCGTGGCTG
8976252 TAGG
1 TAGG
8976256 GGTGACGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.14, C:0.08, G:0.45, T:0.33
Consensus pattern (23 bp):
TAGGAGTCTGTAGAGCGTGGCTG
Found at i:8976393 original size:12 final size:12
Alignment explanation
Indices: 8976376--8976412 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8976366 TTTTTTTTTA
*
8976376 ATTATTAATGTT
1 ATTATTAATATT
*
8976388 ATTATTAAAATT
1 ATTATTAATATT
8976400 ATTATTAATATT
1 ATTATTAATATT
8976412 A
1 A
8976413 AACTGGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:8976665 original size:46 final size:46
Alignment explanation
Indices: 8976614--8977300 Score: 716
Period size: 46 Copynumber: 14.5 Consensus size: 46
8976604 TCATCTTAAT
* * *
8976614 AGAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGCTCATCTCAGT
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * *
8976660 AGAGGCTCAACAACTTTAAAATTCTCATCTGGAAAAGCTTCTATCAGC
1 AGAGGCTCAACAACTTTAAAATTCTC-T-TGAAAAAGCTCCTCTCAGC
* * *
8976708 AGAGGCTCAATAACTTTAAAATTCTCTTAAAAAAGCTGCTCTCAGC
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * * ** *
8976754 AGAAGCTCAACAACTTTAAAATTATATTGAAAAAGCTAATCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * *
8976800 AGAGGCTCAACAACTTTAAAATTCTCTTGAAATAGCTCATCTCAGT
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * * *
8976846 AGAGGCTCAACAACTTTAAAATTTTTATCTGAAAAAACTCCTCAC-GC
1 AGAGGCTCAACAACTTTAAAA-TTCTCT-TGAAAAAGCTCCTCTCAGC
* *
8976893 -GAGGCTCAATAACTTTAAAATCTCATTTTGAAAAA-CTCCTCTCAGC
1 AGAGGCTCAACAACTTTAAAAT-TC-TCTTGAAAAAGCTCCTCTCAGC
* * *
8976939 AGAAGTTCAACAACTTTAAAAAAATCTCTCATCTTGGAAAAGCTCCTCTCAGC
1 AGAGGCTCAACAACTTT---AAAA--T-TC-TCTTGAAAAAGCTCCTCTCAGC
* * *
8976992 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAACTCATCTCAGT
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * * *
8977038 AGAGGCTTAATAACTTAAAAAAAAATCTCTCATCTTAGAAAAGCTCCTCTCAGC
1 AGAGGCTCAACAACTT----TAAAAT-TCTC-T-TGA-AAAAGCTCCTCTCAGC
* * *
8977092 AGAGGCTCAACAACTTTAAAATTCTCTTAAAAAAGATCCTCTCAAC
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * *
8977138 ATAGGTTCAACAACTTTAAAATTCTCTTGAAATAGCTCCTCTCAGC
1 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
* * *
8977184 AGAGGCTCAACAACTTTAAAATCTCATTTTGGAAAAAGCTTCTCTTAGC
1 AGAGGCTCAACAACTTTAAAAT-TC-TCTT-GAAAAAGCTCCTCTCAGC
*
8977233 AGAGGCTCAACAACTTTAAAATTTTCATTTGAAAAAGCTCCTCT-AGC
1 AGAGGCTCAACAACTTTAAAATTCTC--TTGAAAAAGCTCCTCTCAGC
8977280 AGAGGCTCAACAACTTTAAAA
1 AGAGGCTCAACAACTTTAAAA
8977301 AATTTTGATC
Statistics
Matches: 538, Mismatches: 76, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
45 8 0.01
46 274 0.51
47 53 0.10
48 69 0.13
49 43 0.08
50 18 0.03
51 4 0.01
52 14 0.03
53 28 0.05
54 27 0.05
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (46 bp):
AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCCTCTCAGC
Found at i:8989105 original size:12 final size:12
Alignment explanation
Indices: 8989076--8989106 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
8989066 TTTTTCAAAA
8989076 ATTTTATTAATT
1 ATTTTATTAATT
8989088 -TTTTATTAATT
1 ATTTTATTAATT
8989099 ATTTTATT
1 ATTTTATT
8989107 TTTAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTATTAATT
Found at i:8990477 original size:22 final size:23
Alignment explanation
Indices: 8990447--8990498 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8990437 GAAGGTGGTC
*
8990447 TAGGAGTCTGTAG-GTGTGGCTG
1 TAGGAGTCTGTAGAGCGTGGCTG
* *
8990469 TAGGTGTCTGTAGAGCGTGGTTG
1 TAGGAGTCTGTAGAGCGTGGCTG
8990492 TAGGAGT
1 TAGGAGT
8990499 GACGAAGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.15, C:0.08, G:0.44, T:0.33
Consensus pattern (23 bp):
TAGGAGTCTGTAGAGCGTGGCTG
Found at i:8990649 original size:21 final size:21
Alignment explanation
Indices: 8990624--8990669 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8990614 TTTTTTTTTA
* *
8990624 ATTATTAATATTGTTAATAAT
1 ATTATTAAAATTATTAATAAT
*
8990645 ATTATTAAAATTATTATTAAT
1 ATTATTAAAATTATTAATAAT
8990666 ATTA
1 ATTA
8990670 AACTGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTATTAAAATTATTAATAAT
Found at i:8990669 original size:12 final size:12
Alignment explanation
Indices: 8990624--8990669 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
8990614 TTTTTTTTTA
8990624 ATTATTAATATT
1 ATTATTAATATT
* *
8990636 GTTAATAATATT
1 ATTATTAATATT
8990648 ATTA--AA-ATT
1 ATTATTAATATT
8990657 ATTATTAATATT
1 ATTATTAATATT
8990669 A
1 A
8990670 AACTGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
11 2 0.07
12 17 0.61
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:8996729 original size:18 final size:19
Alignment explanation
Indices: 8996708--8996747 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
8996698 TACTTGTGAA
*
8996708 TTAAAATT-TTATTATATT
1 TTAAAATTGTAATTATATT
*
8996726 TTAAAATTGTAATTATTTT
1 TTAAAATTGTAATTATATT
8996745 TTA
1 TTA
8996748 TTATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTAAAATTGTAATTATATT
Found at i:8996749 original size:24 final size:22
Alignment explanation
Indices: 8996729--8996772 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8996719 TTATATTTTA
8996729 AAATTGTAATTATTTTTTATTAT
1 AAATTGTAA-TATTTTTTATTAT
* *
8996752 AAATTTTTATATTTTTTATTA
1 AAATTGTAATATTTTTTATTA
8996773 ATATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
AAATTGTAATATTTTTTATTAT
Found at i:8996779 original size:19 final size:20
Alignment explanation
Indices: 8996738--8996780 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
8996728 AAAATTGTAA
* *
8996738 TTATTTTTTATTATAAATTT
1 TTATATTTTATTATAAATAT
*
8996758 TTATATTTT-TTATTAATAT
1 TTATATTTTATTATAAATAT
8996777 TTAT
1 TTAT
8996781 TATAATAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATATTTTATTATAAATAT
Found at i:8997144 original size:93 final size:93
Alignment explanation
Indices: 8997039--8997227 Score: 290
Period size: 93 Copynumber: 2.0 Consensus size: 93
8997029 AAATTATTAG
* *
8997039 TTTATATAACTATTACAATATATATGATTATTTTCATACTTTTAAATAAAATAATATTTGATATT
1 TTTATATAACTATTACAATATATATGATTATTTTCATACTTTTAAACAAAATAATATTTAATATT
* *
8997104 TAACAATATC-AAATATAGTTATCTTTAA
66 TAACAATA-CAAAATATAATGATCTTTAA
* * *
8997132 TTTATATAACTATTATAATATGTATGATTATTTTCATATTTTTAAACAAAATAATATTTAATATT
1 TTTATATAACTATTACAATATATATGATTATTTTCATACTTTTAAACAAAATAATATTTAATATT
*
8997197 TAATAATACAAAATATAATGATCTTTAA
66 TAACAATACAAAATATAATGATCTTTAA
8997225 TTT
1 TTT
8997228 TTAAAAATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 1 0.01
93 86 0.99
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (93 bp):
TTTATATAACTATTACAATATATATGATTATTTTCATACTTTTAAACAAAATAATATTTAATATT
TAACAATACAAAATATAATGATCTTTAA
Found at i:9002534 original size:2 final size:2
Alignment explanation
Indices: 9002527--9002569 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
9002517 AGCTTTCATA
9002527 CT CT CT CT CT CT CT CT CT CT CT CT CT -T C- CT CT CT CT -T CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9002566 CT CT
1 CT CT
9002570 GTGCATGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:9004531 original size:18 final size:18
Alignment explanation
Indices: 9004508--9004545 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9004498 GTATGCAGTG
*
9004508 CAGTAAGGTATGCTGCCT
1 CAGTAAGGTATGCCGCCT
9004526 CAGTAAGGTATGCCGCCT
1 CAGTAAGGTATGCCGCCT
9004544 CA
1 CA
9004546 TTCGGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (18 bp):
CAGTAAGGTATGCCGCCT
Found at i:9007391 original size:28 final size:28
Alignment explanation
Indices: 9007349--9007406 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
9007339 TTAATAAAAA
*
9007349 AAAAGTAAATGATAAAACTAAACATATT
1 AAAAGTAAATAATAAAACTAAACATATT
* * *
9007377 AAAAGTGAATAATAAAACTAGATATATT
1 AAAAGTAAATAATAAAACTAAACATATT
9007405 AA
1 AA
9007407 TTTATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (28 bp):
AAAAGTAAATAATAAAACTAAACATATT
Found at i:9017817 original size:16 final size:16
Alignment explanation
Indices: 9017793--9017831 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9017783 GATAAACGAT
9017793 TGATAATGATGATTTA
1 TGATAATGATGATTTA
*
9017809 TGATGATGATGATTTA
1 TGATAATGATGATTTA
*
9017825 CGATAAT
1 TGATAAT
9017832 TTTTAATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (16 bp):
TGATAATGATGATTTA
Found at i:9018555 original size:20 final size:20
Alignment explanation
Indices: 9018530--9018569 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9018520 ACTGTTAGGC
9018530 AAAC-AACTTTTGTAGTTTTT
1 AAACAAACTTTTGTA-TTTTT
*
9018550 AAACAAATTTTTGTATTTTT
1 AAACAAACTTTTGTATTTTT
9018570 GAAGCTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (20 bp):
AAACAAACTTTTGTATTTTT
Found at i:9020924 original size:2 final size:2
Alignment explanation
Indices: 9020917--9020975 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
9020907 GTAGCAATAA
9020917 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9020959 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
9020976 CCTGCATGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:9027490 original size:10 final size:10
Alignment explanation
Indices: 9027456--9027495 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 10
9027446 TATCAATAAA
9027456 TATATTT-AT
1 TATATTTAAT
9027465 TA-ATTTAA-
1 TATATTTAAT
9027473 TA-ATTTAAT
1 TATATTTAAT
9027482 TATATTTAAT
1 TATATTTAAT
9027492 TATA
1 TATA
9027496 AAATAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 12 0.43
9 5 0.18
10 11 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATTTAAT
Found at i:9028991 original size:2 final size:2
Alignment explanation
Indices: 9028984--9029037 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
9028974 CACCTGCTCC
9028984 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9029026 CT CT CT CT CT CT
1 CT CT CT CT CT CT
9029038 AGTGGACTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9033387 original size:6 final size:6
Alignment explanation
Indices: 9033376--9033409 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
9033366 GTCTTTACTG
*
9033376 ATTTTT ATTTTT ATTTTT ATTTCT -TTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
9033410 GCTTGAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:9033773 original size:2 final size:2
Alignment explanation
Indices: 9033766--9033791 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9033756 AACCAGGAAA
9033766 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
9033792 CTGTTCTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9036579 original size:325 final size:325
Alignment explanation
Indices: 9035989--9036641 Score: 1306
Period size: 325 Copynumber: 2.0 Consensus size: 325
9035979 AAAAAGAATC
9035989 CATTGGCTATTGGGGGAAGGATCAGATCACCACATAAAAGTTTGGATAAATTGATATTTCACATG
1 CATTGGCTATTGGGGGAAGGATCAGATCACCACATAAAAGTTTGGATAAATTGATATTTCACATG
9036054 GGAAAAAGATACCCTTAGATGGTACAAGCAAACACATCTCTAAGGTGGTCAATTAGACATCAAAC
66 GGAAAAAGATACCCTTAGATGGTACAAGCAAACACATCTCTAAGGTGGTCAATTAGACATCAAAC
9036119 TATGCATTTTCCAGTTCATCAATATTATGAAAGGTAATATGATGCTGGCAGCAGTCTATGCATTT
131 TATGCATTTTCCAGTTCATCAATATTATGAAAGGTAATATGATGCTGGCAGCAGTCTATGCATTT
9036184 TCCGGTTCATCAAAATGAAAGATACTTGGATGCTAAAATCAGAAAAACATGCATCTAGAATAGAA
196 TCCGGTTCATCAAAATGAAAGATACTTGGATGCTAAAATCAGAAAAACATGCATCTAGAATAGAA
9036249 CAATATAAAAGGGTCCTATTTCATGACAAACAATGAGAAAAAAAAATGAATATGAGAAATAAATT
261 CAATATAAAAGGGTCCTATTTCATGACAAACAATGAGAAAAAAAAATGAATATGAGAAATAAATT
9036314 CATTGGCTATTGGGGGAAGGATCAGATCACCACATAAAAGTTTGGATAAATTGATATTTCACATG
1 CATTGGCTATTGGGGGAAGGATCAGATCACCACATAAAAGTTTGGATAAATTGATATTTCACATG
9036379 GGAAAAAGATACCCTTAGATGGTACAAGCAAACACATCTCTAAGGTGGTCAATTAGACATCAAAC
66 GGAAAAAGATACCCTTAGATGGTACAAGCAAACACATCTCTAAGGTGGTCAATTAGACATCAAAC
9036444 TATGCATTTTCCAGTTCATCAATATTATGAAAGGTAATATGATGCTGGCAGCAGTCTATGCATTT
131 TATGCATTTTCCAGTTCATCAATATTATGAAAGGTAATATGATGCTGGCAGCAGTCTATGCATTT
9036509 TCCGGTTCATCAAAATGAAAGATACTTGGATGCTAAAATCAGAAAAACATGCATCTAGAATAGAA
196 TCCGGTTCATCAAAATGAAAGATACTTGGATGCTAAAATCAGAAAAACATGCATCTAGAATAGAA
9036574 CAATATAAAAGGGTCCTATTTCATGACAAACAATGAGAAAAAAAAATGAATATGAGAAATAAATT
261 CAATATAAAAGGGTCCTATTTCATGACAAACAATGAGAAAAAAAAATGAATATGAGAAATAAATT
9036639 CAT
1 CAT
9036642 GGAGTAGTAG
Statistics
Matches: 328, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
325 328 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (325 bp):
CATTGGCTATTGGGGGAAGGATCAGATCACCACATAAAAGTTTGGATAAATTGATATTTCACATG
GGAAAAAGATACCCTTAGATGGTACAAGCAAACACATCTCTAAGGTGGTCAATTAGACATCAAAC
TATGCATTTTCCAGTTCATCAATATTATGAAAGGTAATATGATGCTGGCAGCAGTCTATGCATTT
TCCGGTTCATCAAAATGAAAGATACTTGGATGCTAAAATCAGAAAAACATGCATCTAGAATAGAA
CAATATAAAAGGGTCCTATTTCATGACAAACAATGAGAAAAAAAAATGAATATGAGAAATAAATT
Found at i:9039435 original size:11 final size:11
Alignment explanation
Indices: 9039419--9039472 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
9039409 CCGGTATATA
*
9039419 TATTATTTTTT
1 TATTATTTATT
9039430 TATTATTTATT
1 TATTATTTATT
* *
9039441 TAAT-TTTATA
1 TATTATTTATT
*
9039451 T-TTATATATT
1 TATTATTTATT
9039461 TA-TATTTATT
1 TATTATTTATT
9039471 TA
1 TA
9039473 ATTTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
9 1 0.03
10 20 0.59
11 13 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTTATT
Found at i:9039449 original size:14 final size:14
Alignment explanation
Indices: 9039432--9039479 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
9039422 TATTTTTTTA
9039432 TTATTTATTTAATT
1 TTATTTATTTAATT
*
9039446 TTATATT-TATATATT
1 TTAT-TTATTTA-ATT
9039461 TATATTTATTTAATT
1 T-TATTTATTTAATT
9039476 TTAT
1 TTAT
9039480 ATTTACAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 10 0.36
15 12 0.43
16 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTATTTAATT
Found at i:9039454 original size:16 final size:15
Alignment explanation
Indices: 9039415--9039484 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 15
9039405 TGACCCGGTA
9039415 TATATATTATTT-TTT
1 TATAT-TTATTTATTT
9039430 TATTATTTATTTAATTT
1 TA-TATTTATTT-ATTT
*
9039447 TATATTTATATA-TT
1 TATATTTATTTATTT
9039461 TATATTTATTTAATTT
1 TATATTTATTT-ATTT
9039477 TATATTTA
1 TATATTTA
9039485 CAATAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
14 12 0.25
15 10 0.21
16 21 0.44
17 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATATTTATTTATTT
Found at i:9039497 original size:19 final size:19
Alignment explanation
Indices: 9039473--9039517 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9039463 TATTTATTTA
* *
9039473 ATTTTATATTTACAATAAT
1 ATTTTATATTAAAAATAAT
9039492 ATTTTATATTAAAAATAAT
1 ATTTTATATTAAAAATAAT
9039511 ATTTTAT
1 ATTTTAT
9039518 TGATTCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTATATTAAAAATAAT
Found at i:9041709 original size:28 final size:28
Alignment explanation
Indices: 9041652--9041726 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
9041642 CGTCAAATCA
* *
9041652 TATGTCAAAACATTTCAAAAATTATCAT
1 TATGTCAAAACATTTCAAAAATCATAAT
* *
9041680 TATGTC-AAACATTTCATATATCATAAAT
1 TATGTCAAAACATTTCAAAAATCAT-AAT
* *
9041708 TAATATCAAAACATATCAA
1 T-ATGTCAAAACATTTCAA
9041727 TTCATCATTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 15 0.41
28 9 0.24
29 4 0.11
30 9 0.24
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.35
Consensus pattern (28 bp):
TATGTCAAAACATTTCAAAAATCATAAT
Found at i:9043861 original size:40 final size:40
Alignment explanation
Indices: 9043785--9043863 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9043775 GAGAAGGAAG
* ** *
9043785 ATGGTGATGTTAGTTATTAATTTATTAGTTAGGAATACTA
1 ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
9043825 ATGGTGATGTTAGTTATTAATCTATT-GCCCAAGAATACT
1 ATGGTGATGTTAGTTATTAATCTATTAG-CCAAGAATACT
9043864 CTACAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (40 bp):
ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
Found at i:9044033 original size:20 final size:22
Alignment explanation
Indices: 9044008--9044050 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9043998 TCTTTATTCT
*
9044008 CTAAAA-C-CCTAACCATGTCA
1 CTAAAATCACCTAACCAAGTCA
9044028 CTAAAATCACCTAACCAAGTCA
1 CTAAAATCACCTAACCAAGTCA
9044050 C
1 C
9044051 AAACTAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.42, C:0.35, G:0.05, T:0.19
Consensus pattern (22 bp):
CTAAAATCACCTAACCAAGTCA
Found at i:9044410 original size:40 final size:40
Alignment explanation
Indices: 9044334--9044412 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9044324 GAAAAGGAAG
* ** *
9044334 ATGGTGATGTTAGTTATTAATTTATTAGTTAGGAATACTA
1 ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
9044374 ATGGTGATGTTAGTTATTAATCTATT-GCCCAAGAATACT
1 ATGGTGATGTTAGTTATTAATCTATTAG-CCAAGAATACT
9044413 CTACAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (40 bp):
ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
Found at i:9044961 original size:40 final size:40
Alignment explanation
Indices: 9044885--9044963 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9044875 GAGAAGGAAG
* ** *
9044885 ATGGTGATGTTAGTTATTAATTTATTAGTTAGGAATACTA
1 ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
9044925 ATGGTGATGTTAGTTATTAATCTATT-GCCCAAGAATACT
1 ATGGTGATGTTAGTTATTAATCTATTAG-CCAAGAATACT
9044964 CTACAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (40 bp):
ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
Found at i:9044993 original size:551 final size:551
Alignment explanation
Indices: 9043725--9045871 Score: 4111
Period size: 551 Copynumber: 3.9 Consensus size: 551
9043715 TGATCCTAAA
*
9043725 AGGAATCACTAAAAGATAAGCTAAAAGTTAACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
1 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
9043790 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
66 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
*
9043855 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACATTTCTATAGTAGTTGTATTTAAAT
131 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
9043920 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
196 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
*
9043985 TCTTTTTTTAGTCTCTTTATTCTCTAAAACCCTAACCATGTCACTAAAATCACC-TAACCAAGTC
261 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
*
9044049 ACAAACTAAGTCGTGACAATTTGAAATGGT-GGTTGCCATTTGTCGGTGGATGTGTGAATTCGTT
326 AC-AACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCGTT
9044113 GTTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTG
390 GTTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTG
*
9044178 AGGAAATTTAAGGTTTAATGGATGAATTCAATCTAC-CAAAAAAAAGCAAGAGCGGTATAAGCAA
455 AGGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAAAAAAGCAAGAGCGGTATAAGCAA
9044242 GACTATGGCAGAGATTATAACAAAGAATGAGC
520 GACTATGGCAGAGATTATAACAAAGAATGAGC
*
9044274 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAAAAGGAAGATGGT
1 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
9044339 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
66 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
9044404 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
131 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
9044469 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
196 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
* *
9044534 TCTTTTTTTAGTCTCTCTATTCTTTAAAATCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
261 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
*
9044599 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGCCGGTCGATGTGTGAATTCGTTG
326 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCGTTG
9044664 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
391 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
9044729 GGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAAAAAAGCAAGAGCGGTATAAGCAAG
456 GGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAAAAAAGCAAGAGCGGTATAAGCAAG
9044794 ACTATGGCAGAGATTATAACAAAGAATGAGC
521 ACTATGGCAGAGATTATAACAAAGAATGAGC
9044825 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
1 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
9044890 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
66 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
9044955 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
131 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
9045020 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
196 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
9045085 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
261 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
*
9045150 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTGGATGTGTGAATTCGTTG
326 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCGTTG
9045215 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
391 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
*
9045280 GGAAATTTAAGGTTTAATGGATGAATTCAATCTATAAAAAAAAAAGCAAGAGCGGTATAAGCAAG
456 GGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAAAAAAGCAAGAGCGGTATAAGCAAG
*
9045345 ACTATGGCAGAGATTATAACAAAGAATGAAC
521 ACTATGGCAGAGATTATAACAAAGAATGAGC
9045376 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
1 AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
9045441 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
66 GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
9045506 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
131 AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
9045571 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
196 AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
9045636 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
261 TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
*
9045701 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCATTG
326 ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCGTTG
* *
9045766 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTTCAAAAAGAATATTTTTGGCGA
391 TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
* *
9045831 GGAAACTTAAGGTTTAATGGATGAATTCAATCTACCAAAAA
456 GGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAA
9045872 GGTTAAATTT
Statistics
Matches: 1572, Mismatches: 23, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
549 335 0.21
550 145 0.09
551 1092 0.69
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (551 bp):
AGGAATCACTAAAAGATAAGCTAAAAGTTGACAATAGAATGGGTGAATACGAGAAGGAAGATGGT
GATGTTAGTTATTAATTTATTAGTTAGGAATACTAATGGTGATGTTAGTTATTAATCTATTGCCC
AAGAATACTCTACAATTTTGTATTTTTTACACTTTTGCACAGTTCTATAGTAGTTGTATTTAAAT
AATTCATTGGCTATAATTGACTTTTATAAATGAAAAATATATTTCTCCTCTTAATTCTCCTATAT
TCTTTTTTTAGTCTCTCTATTCTCTAAAACCCTAACCATGTCACTAAAATCACCTTAACCAAGTC
ACAACTAAGTCGTGACAATTTGAAATGGTGGGTTGCCATTTGTCGGTCGATGTGTGAATTCGTTG
TTAAGAGTTTTTGGATTATTACTGAATGAATTGTCATTTTTCTCCAAAAAGAATATTTTTGGTGA
GGAAATTTAAGGTTTAATGGATGAATTCAATCTACAAAAAAAAAAGCAAGAGCGGTATAAGCAAG
ACTATGGCAGAGATTATAACAAAGAATGAGC
Found at i:9045512 original size:40 final size:40
Alignment explanation
Indices: 9045436--9045514 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9045426 GAGAAGGAAG
* ** *
9045436 ATGGTGATGTTAGTTATTAATTTATTAGTTAGGAATACTA
1 ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
9045476 ATGGTGATGTTAGTTATTAATCTATT-GCCCAAGAATACT
1 ATGGTGATGTTAGTTATTAATCTATTAG-CCAAGAATACT
9045515 CTACAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.42
Consensus pattern (40 bp):
ATGGTGATGTTAGTTATTAATCTATTAGCCAAGAATACTA
Found at i:9046289 original size:33 final size:30
Alignment explanation
Indices: 9046231--9046294 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 30
9046221 TTTTGCTTCA
9046231 TAAATTTTATCAAATTTTTTATCTAAAATT
1 TAAATTTTATCAAATTTTTTATCTAAAATT
*
9046261 TAAATTTTTATCATAATTTTTTTTTCTAAAATT
1 TAAA-TTTTATCA-AA-TTTTTTATCTAAAATT
9046294 T
1 T
9046295 GAAGTACTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.13
31 8 0.27
32 2 0.07
33 16 0.53
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (30 bp):
TAAATTTTATCAAATTTTTTATCTAAAATT
Found at i:9046383 original size:2 final size:2
Alignment explanation
Indices: 9046376--9046404 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9046366 AGCTTGAGTT
9046376 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 T
9046405 CACTCCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9048440 original size:2 final size:2
Alignment explanation
Indices: 9048433--9048464 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9048423 CAACTAAGTG
9048433 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
9048465 TACAAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9048564 original size:26 final size:26
Alignment explanation
Indices: 9048527--9048576 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
9048517 CAAATAATGT
9048527 TTTTAATAAATTATTTAAATTGAATA
1 TTTTAATAAATTATTTAAATTGAATA
9048553 TTTTAGAT-AATTATTTAAATTGAA
1 TTTTA-ATAAATTATTTAAATTGAA
9048577 ATCAAAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTAATAAATTATTTAAATTGAATA
Found at i:9055422 original size:62 final size:64
Alignment explanation
Indices: 9055305--9055440 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 64
9055295 TTTTTTAAAG
**
9055305 AGGATTATTTAAGATATTTTTTGTTCAAAAAATACCTTAATAATCCCTTTTTAAAATGTAT-AA
1 AGGATTATTTAAGATATTTTTTGTTCAAAAAATACCTTAATAATCCCTTTTTAAAAAATATGAA
* ** *
9055368 AGGATTATTTGAAG-TATTTTTTGTT-TAAAAATATTTTAAATAATGCC-TTTTAAAAAATATGA
1 AGGATTATTT-AAGATATTTTTTGTTCAAAAAATACCTT-AATAATCCCTTTTTAAAAAATATGA
9055430 A
64 A
*
9055431 AGAATTATTT
1 AGGATTATTT
9055441 TAGGCTTTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
62 20 0.32
63 40 0.63
64 3 0.05
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (64 bp):
AGGATTATTTAAGATATTTTTTGTTCAAAAAATACCTTAATAATCCCTTTTTAAAAAATATGAA
Found at i:9057266 original size:4 final size:4
Alignment explanation
Indices: 9057257--9057300 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
9057247 TTATATAAAA
* *
9057257 TTAT TTAT TTAA TTAT TTAT TTAAT TT-T TTAT TTAT CTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT
9057301 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:9057272 original size:12 final size:12
Alignment explanation
Indices: 9057255--9057300 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
9057245 TATTATATAA
9057255 AATTATTTATTT
1 AATTATTTATTT
9057267 AATTATTTATTT
1 AATTATTTATTT
*
9057279 AATTTTTTATTT
1 AATTATTTATTT
9057291 -ATCTATTTAT
1 AAT-TATTTAT
9057301 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 2 0.06
12 29 0.94
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:9075014 original size:69 final size:69
Alignment explanation
Indices: 9074885--9075014 Score: 179
Period size: 69 Copynumber: 1.9 Consensus size: 69
9074875 ACTTTGCAAC
* * * * *
9074885 TTCATTAATTAACAGATCAGAGACCACTGCTTCCAAAGGCTAATTCTGATAGAGAGATAGTTATG
1 TTCATTAATTAAAAGATCAGAAAACACTGATTCCAAAGGCTAATTCTGATAGAGAAATAGTTATG
9074950 ACCT
66 ACCT
* * * *
9074954 TTCATTTATTAAAAGATCAGAAAACATTGATTCCAAAGGCTAATTTTGATAGATAAATAGT
1 TTCATTAATTAAAAGATCAGAAAACACTGATTCCAAAGGCTAATTCTGATAGAGAAATAGT
9075015 AATTAGCCAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (69 bp):
TTCATTAATTAAAAGATCAGAAAACACTGATTCCAAAGGCTAATTCTGATAGAGAAATAGTTATG
ACCT
Found at i:9082570 original size:13 final size:13
Alignment explanation
Indices: 9082539--9082578 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
9082529 AGGTGCCGCT
9082539 TTTTC-CTTTTTA
1 TTTTCTCTTTTTA
*
9082551 -TTT-TCTTTTTC
1 TTTTCTCTTTTTA
9082562 TTTTCTCTTTTTA
1 TTTTCTCTTTTTA
9082575 TTTT
1 TTTT
9082579 TTATGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 3 0.13
13 11 0.48
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTCTTTTTA
Found at i:9087654 original size:280 final size:280
Alignment explanation
Indices: 9087153--9087705 Score: 833
Period size: 280 Copynumber: 2.0 Consensus size: 280
9087143 AATAAGCACC
* *
9087153 CAATGACGACTGTAAAATAATAACAATGATATACTCAGATTACGCATCATATCAGATTTGGGTAA
1 CAATGACGACTGTAAAATAATAACAATGATATACTAAGATTACGCATCAGATCAGATTTGGGTAA
* * * *
9087218 AGTTAGAATATAACTTACTGCGCATTATACGGGAGCAAATAAAAATCAATCGATCTTTTCATGCA
66 AGTTAAAATATAACTTACTACGCATTATACGAGAGCAAATAAAAATCAACCGATCTTTTCATGCA
* *
9087283 TTGGATCACATGATTAGCATGATAAGCGACTATACCACTCTACTCACTAATGAAATAGGGTCAAT
131 CTGGATCACATGATTAGCACGATAAGCGACTATACCACTCTACTCACTAATGAAATAGGGTCAAT
* * * *
9087348 GAATCTAAATCTGTTAGTCAACTGTCTCTCATTTAGCTCTCTATATAAGAAGCTACATGATAACA
196 GAATCTAAATCTATTAGTCAACTGTCTCCCATTGAGCTCTCTATATAAGAAGCTACACGATAACA
9087413 ATCAACACTGCTAATAATAA
261 ATCAACACTGCTAATAATAA
*
9087433 CAATGACGACTGTAAAATAATAATAATGATATACTAAGATTACGCATCAGATCAGA-TTGGGATA
1 CAATGACGACTGTAAAATAATAACAATGATATACTAAGATTACGCATCAGATCAGATTTGGG-TA
* *
9087497 AAGTTAAAATATAACTTACTACGCATTATATGAGAGCAAATAATAATCAACC-AGTC-TTTCATG
65 AAGTTAAAATATAACTTACTACGCATTATACGAGAGCAAATAAAAATCAACCGA-TCTTTTCATG
* * * * * *
9087560 CACTGGATCATATGATTAGTACGATAAGCGACTGTGCCACTCTGCTCACTAATGAAATTGGGGTC
129 CACTGGATCACATGATTAGCACGATAAGCGACTATACCACTCTACTCACTAATGAAA-TAGGGTC
* * * *
9087625 AATGAATCTAAATCTATTGGTCAACTGTCTCCCCTTGAGCTCTCTATATAGGAAGCTGCACGATA
193 AATGAATCTAAATCTATTAGTCAACTGTCTCCCATTGAGCTCTCTATATAAGAAGCTACACGATA
9087690 ACAATCAACACTGCTA
258 ACAATCAACACTGCTA
9087706 GTTAATATTA
Statistics
Matches: 245, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
279 63 0.26
280 182 0.74
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (280 bp):
CAATGACGACTGTAAAATAATAACAATGATATACTAAGATTACGCATCAGATCAGATTTGGGTAA
AGTTAAAATATAACTTACTACGCATTATACGAGAGCAAATAAAAATCAACCGATCTTTTCATGCA
CTGGATCACATGATTAGCACGATAAGCGACTATACCACTCTACTCACTAATGAAATAGGGTCAAT
GAATCTAAATCTATTAGTCAACTGTCTCCCATTGAGCTCTCTATATAAGAAGCTACACGATAACA
ATCAACACTGCTAATAATAA
Found at i:9089860 original size:25 final size:25
Alignment explanation
Indices: 9089690--9089862 Score: 193
Period size: 25 Copynumber: 6.9 Consensus size: 25
9089680 GTGCTCATAC
* * **
9089690 ACACCCTTCAGTAAACCACCCAAAA
1 ACACCATTCAGCAAACCATTCAAAA
* * * *
9089715 ACATCATTCAGCAAATCACTCAGAA
1 ACACCATTCAGCAAACCATTCAAAA
*
9089740 ACACCATTCAACAAACCATTCAAAA
1 ACACCATTCAGCAAACCATTCAAAA
* * *
9089765 ACACCATTAAGTAAACTATTCAAAA
1 ACACCATTCAGCAAACCATTCAAAA
* *
9089790 ACACCATTCAGCAAACCATTTAGAA
1 ACACCATTCAGCAAACCATTCAAAA
*
9089815 ACACCATTTAGCAAACCATTCAAAA
1 ACACCATTCAGCAAACCATTCAAAA
* *
9089840 ACACCATTCAGCATACGATTCAA
1 ACACCATTCAGCAAACCATTCAA
9089863 CAAAACAATA
Statistics
Matches: 122, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 122 1.00
ACGTcount: A:0.46, C:0.29, G:0.05, T:0.19
Consensus pattern (25 bp):
ACACCATTCAGCAAACCATTCAAAA
Found at i:9089861 original size:75 final size:75
Alignment explanation
Indices: 9089710--9089862 Score: 216
Period size: 75 Copynumber: 2.0 Consensus size: 75
9089700 GTAAACCACC
* *
9089710 CAAAAACATCATTCAGCAAATCACTCAGAAACACCATTCAACAAACCATTCAAAAACACCATTAA
1 CAAAAACACCATTCAGCAAACCACTCAGAAACACCATTCAACAAACCATTCAAAAACACCATTAA
* *
9089775 GTAAACTATT
66 GCAAACGATT
* * * * *
9089785 CAAAAACACCATTCAGCAAACCATTTAGAAACACCATTTAGCAAACCATTCAAAAACACCATTCA
1 CAAAAACACCATTCAGCAAACCACTCAGAAACACCATTCAACAAACCATTCAAAAACACCATTAA
*
9089850 GCATACGATT
66 GCAAACGATT
9089860 CAA
1 CAA
9089863 CAAAACAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.48, C:0.27, G:0.05, T:0.20
Consensus pattern (75 bp):
CAAAAACACCATTCAGCAAACCACTCAGAAACACCATTCAACAAACCATTCAAAAACACCATTAA
GCAAACGATT
Found at i:9094685 original size:16 final size:16
Alignment explanation
Indices: 9094666--9094814 Score: 71
Period size: 15 Copynumber: 9.1 Consensus size: 16
9094656 TCTTTTGTAT
9094666 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
9094682 TTTATTATTATTATTA
1 TTTATTATTATTATTA
9094698 TTGTGTATTAATATATATATTTA
1 -T-T-TATT-AT-TAT-TA-TTA
* * * *
9094721 TTTTTTTTCTGTTAATA
1 TTTATTAT-TATTATTA
9094738 TTTA-TATGTATT-TTA
1 TTTATTAT-TATTATTA
9094753 TTTA-TA-TAGTTA-TA
1 TTTATTATTA-TTATTA
*
9094767 TTTGTTATTATTA-TA
1 TTTATTATTATTATTA
*
9094782 -TTATCATTATTATTA
1 TTTATTATTATTATTA
*
9094797 TATTATTATTATCATTA
1 T-TTATTATTATTATTA
9094814 T
1 T
9094815 CAATTTTTTC
Statistics
Matches: 103, Mismatches: 15, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.02
14 17 0.17
15 21 0.20
16 18 0.17
17 20 0.19
18 3 0.03
19 7 0.07
20 5 0.05
21 4 0.04
22 3 0.03
23 3 0.03
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:9094695 original size:9 final size:8
Alignment explanation
Indices: 9094663--9094806 Score: 50
Period size: 9 Copynumber: 17.5 Consensus size: 8
9094653 CTTTCTTTTG
9094663 TATTTTAT
1 TATTTTAT
9094671 GTATTTTAT
1 -TATTTTAT
9094680 TA-TTTAT
1 TATTTTAT
9094687 TATTATTAT
1 TATT-TTAT
9094696 TATTGTGTAT
1 TATT-T-TAT
* *
9094706 TAATATA-
1 TATTTTAT
9094713 TATATTTAT
1 TAT-TTTAT
9094722 T-TTTT-T
1 TATTTTAT
* * *
9094728 TCTGTTAA
1 TATTTTAT
9094736 TATTTATAT
1 TATTT-TAT
9094745 GTATTTTAT
1 -TATTTTAT
*
9094754 T-TATATAGT
1 TAT-TTTA-T
*
9094763 TATATTTGT
1 TAT-TTTAT
9094772 TA--TTAT
1 TATTTTAT
*
9094778 TATATTAT
1 TATTTTAT
*
9094786 CATTATTAT
1 TATT-TTAT
*
9094795 TATATTAT
1 TATTTTAT
9094803 TATT
1 TATT
9094807 ATCATTATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 31
0.67 0.13 0.21
Matches are distributed among these distances:
6 7 0.07
7 16 0.16
8 29 0.29
9 34 0.34
10 15 0.15
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (8 bp):
TATTTTAT
Found at i:9094779 original size:3 final size:3
Alignment explanation
Indices: 9094771--9094814 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
9094761 GTTATATTTG
* *
9094771 TTA TTA TTA -TA TTA TCA TTA TTA TTA -TA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9094815 CAATTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9094791 original size:17 final size:17
Alignment explanation
Indices: 9094771--9094814 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
9094761 GTTATATTTG
9094771 TTATTATTATATTATCA
1 TTATTATTATATTATCA
*
9094788 TTATTATTATATTATTA
1 TTATTATTATATTATCA
*
9094805 TTATCATTAT
1 TTATTATTAT
9094815 CAATTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTATTATATTATCA
Found at i:9095448 original size:19 final size:19
Alignment explanation
Indices: 9095399--9095448 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
9095389 CAACTTTCGA
* *
9095399 TGAAATTTCCAGATTCTGG
1 TGAAATTTCCAGAATCCGG
**
9095418 TGACTTTTTCCAGAATCCGG
1 TGA-AATTTCCAGAATCCGG
9095438 TGAAATTTCCA
1 TGAAATTTCCA
9095449 TCGGAGTTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (19 bp):
TGAAATTTCCAGAATCCGG
Found at i:9095788 original size:10 final size:9
Alignment explanation
Indices: 9095767--9095910 Score: 76
Period size: 10 Copynumber: 14.4 Consensus size: 9
9095757 CGCCTCCAGG
9095767 TTTTTTTT-
1 TTTTTTTTA
9095775 TTTTTTTTAA
1 TTTTTTTT-A
9095785 TTTTTTATTA
1 TTTTTT-TTA
*
9095795 TTTGTTTTA
1 TTTTTTTTA
*
9095804 TCTTTAATTTA
1 T-TTT-TTTTA
*
9095815 TTTTATTTA
1 TTTTTTTTA
* *
9095824 -TTATATTA
1 TTTTTTTTA
9095832 GTTTTATTTAATA
1 -TTTT-TTT--TA
9095845 TTTTTCTTTA
1 TTTTT-TTTA
9095855 TCTTATTTTTTA
1 --TT-TTTTTTA
*
9095867 TTTGTTTTA
1 TTTTTTTTA
9095876 CTTTTTTTTAAA
1 -TTTTTTTT--A
9095888 TTTTTTTTA
1 TTTTTTTTA
9095897 TTTTTATTTA
1 TTTTT-TTTA
9095907 TTTT
1 TTTT
9095911 CACCTTTTAT
Statistics
Matches: 108, Mismatches: 10, Indels: 34
0.71 0.07 0.22
Matches are distributed among these distances:
8 13 0.12
9 21 0.19
10 38 0.35
11 18 0.17
12 13 0.12
13 5 0.05
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9095842 original size:32 final size:30
Alignment explanation
Indices: 9095780--9095843 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 30
9095770 TTTTTTTTTT
9095780 TTTAATTTTTTATTATTTGTTTTATCTTTAA
1 TTTAATTTTTTATTATTTGTTTTA-CTTTAA
*
9095811 TTTATTTTATTTATTATATTAGTTTTA-TTTAA
1 TTTAATTT-TTTATTAT-TT-GTTTTACTTTAA
9095843 T
1 T
9095844 ATTTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 7 0.24
32 14 0.48
33 2 0.07
34 6 0.21
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (30 bp):
TTTAATTTTTTATTATTTGTTTTACTTTAA
Found at i:9096109 original size:58 final size:58
Alignment explanation
Indices: 9095940--9096188 Score: 292
Period size: 59 Copynumber: 4.2 Consensus size: 58
9095930 TTCTTTAAAG
*
9095940 AAAAATCAAAATTTTCAAAAAATATTTTTTAGGGAAAGTTGAAAGTATCAATTTTTCTT
1 AAAAATCAAAATTTTCAAAAAATA-TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTT
* *
9095999 AAAAAT--AAATTTTCAAAAAAAAAAAGATTTTTGAGGAAAAGTTTGAAAGTATCAATTTTCCTT
1 AAAAATCAAAATTTTC-----AAAAAATATTTTT-AGGAAAAG-TTGAAAGTATCAATTTTTCTT
*
9096062 GAAAATCAAAA-TTTCAAAAAATA-TTTTAGGAAAAAGTTGGAAAGTATCAA-TTTTCTT
1 AAAAATCAAAATTTTCAAAAAATATTTTTAGG-AAAAGTT-GAAAGTATCAATTTTTCTT
* * *
9096119 GAAAATCAAAATTTTCAAAAAATATTTTTTGGAAAAAGTTTAAAGTATCAATTTTTCTT
1 AAAAATCAAAATTTTCAAAAAATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTTCTT
*
9096178 AAAAATAAAAA
1 AAAAATCAAAA
9096189 AGTTGAAAGT
Statistics
Matches: 166, Mismatches: 10, Indels: 28
0.81 0.05 0.14
Matches are distributed among these distances:
57 30 0.18
58 42 0.25
59 43 0.26
61 5 0.03
62 14 0.08
63 25 0.15
64 4 0.02
65 3 0.02
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (58 bp):
AAAAATCAAAATTTTCAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:9096198 original size:34 final size:34
Alignment explanation
Indices: 9096151--9096222 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
9096141 TATTTTTTGG
*
9096151 AAAAAGTTTAAAGTATCAATTTTTCTTAAAAATA
1 AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
* *
9096185 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATC
1 AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
9096219 AAAA
1 AAAA
9096223 TTTTCAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (34 bp):
AAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
Found at i:9096246 original size:93 final size:93
Alignment explanation
Indices: 9096092--9096280 Score: 344
Period size: 93 Copynumber: 2.0 Consensus size: 93
9096082 ATATTTTAGG
*
9096092 AAAAAGTTGGAAAGTATCAATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTTGGAAAAAG
1 AAAAAGTTGGAAAGTATCAATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGGAAAAAG
*
9096157 TTTAAAGTATCAATTTTTCTTAAAAATA
66 TTGAAAGTATCAATTTTTCTTAAAAATA
9096185 AAAAAGTT-GAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGGAAAAA
1 AAAAAGTTGGAAAGTATCAA-TTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGGAAAAA
9096249 GTTGAAAGTATCAATTTTTCTTAAAAATA
65 GTTGAAAGTATCAATTTTTCTTAAAAATA
9096278 AAA
1 AAA
9096281 TTTCAAAAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
92 11 0.12
93 82 0.88
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.37
Consensus pattern (93 bp):
AAAAAGTTGGAAAGTATCAATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGGAAAAAG
TTGAAAGTATCAATTTTTCTTAAAAATA
Found at i:9096253 original size:59 final size:59
Alignment explanation
Indices: 9096185--9096384 Score: 252
Period size: 59 Copynumber: 3.4 Consensus size: 59
9096175 CTTAAAAATA
9096185 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGG
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGG
* *
9096244 AAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAA-TTTCAAAAAAAGGGATTTTTGAGG
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTC-AAAAAA--TATTTTT-AGG
* * *
9096305 -AAAAGTT--TA-TATCAATTTTCCTTGAAAATCGAAATTTTCAAAAAATATTTTT-GTG
1 AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAG-G
*
9096360 GAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAGTTGAAAGTATCAATTTTTC
9096385 CTACACAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
54 1 0.01
55 1 0.01
56 13 0.11
57 22 0.18
58 21 0.17
59 47 0.39
60 13 0.11
61 3 0.02
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTAGG
Found at i:9096342 original size:209 final size:207
Alignment explanation
Indices: 9095974--9096384 Score: 550
Period size: 209 Copynumber: 1.9 Consensus size: 207
9095964 TTTTTTAGGG
9095974 AAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAAGATTTTTGAGGAAAA
1 AAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC----AAAAAAAGATTTTTGAGGAAAA
* *
9096039 GTTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAATATTTTAGGAAAAAGTTGGAA
62 GTTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAGATTTTAGGAAAAAGTT-G-A
*
9096104 AGTATCAATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTT-TGGAAAAAGTTTAAAGTATC
125 AGTATCAATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTGTGG-AAAAGTTGAAAGTATC
9096168 AATTTTTCTTAAAAATAAA
189 AATTTTTCTTAAAAATAAA
* *
9096187 AAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTC-AAAAAATATTTTT-AGGAAAAAG
1 AAAGTTGAAAGTATCAATTTTTCTTAAAAAT--AAATTTTCAAAAAAAGATTTTTGAGG-AAAAG
*
9096250 -TTGAAAGTATCAATTTTTCTTAAAAAT-AAAATTTCAAAAAAAGGGATTTTTGAGG-AAAAGTT
63 TTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC-AAAAAA--GA-TTTT-AGGAAAAAGTT
* *
9096312 -TA-TATCAATTTTCCTTGAAAATCGAAATTTTCAAAAAATATTTTTGTGGAAAAGTTGAAAGTA
123 GAAGTATCAATTTT-CTTGAAAATCAAAATTTTCAAAAAATATTTTTGTGGAAAAGTTGAAAGTA
9096375 TCAATTTTTC
187 TCAATTTTTC
9096385 CTACACAAGA
Statistics
Matches: 180, Mismatches: 8, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
208 18 0.10
209 89 0.49
210 20 0.11
211 1 0.01
212 11 0.06
213 33 0.18
215 8 0.04
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (207 bp):
AAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGATTTTTGAGGAAAAGTTT
GAAAGTATCAATTTTCCTTAAAAATCAAAATTTCAAAAAAGATTTTAGGAAAAAGTTGAAGTATC
AATTTTCTTGAAAATCAAAATTTTCAAAAAATATTTTTGTGGAAAAGTTGAAAGTATCAATTTTT
CTTAAAAATAAA
Found at i:9096546 original size:19 final size:19
Alignment explanation
Indices: 9096519--9096579 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
9096509 CAATTTTCGA
*
9096519 CCAACTTTCGGTGAAATTT
1 CCAAATTTCGGTGAAATTT
* **
9096538 CCAAATTTCGATGACTTTTT
1 CCAAATTTCGGTGA-AATTT
*
9096558 TCAGAA-TTCGGTGAAATTT
1 CCA-AATTTCGGTGAAATTT
9096577 CCA
1 CCA
9096580 CTGGAGTTCT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 17 0.55
20 12 0.39
21 2 0.06
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (19 bp):
CCAAATTTCGGTGAAATTT
Found at i:9096952 original size:10 final size:10
Alignment explanation
Indices: 9096918--9097056 Score: 74
Period size: 10 Copynumber: 13.8 Consensus size: 10
9096908 TTTTTGAAAT
9096918 TTTTTATTTA
1 TTTTTATTTA
*
9096928 TTTGT-TTTA
1 TTTTTATTTA
*
9096937 TCTTTATTTA
1 TTTTTATTTA
9096947 TTTTTATTTA
1 TTTTTATTTA
*
9096957 TTAGATTAAATTTA
1 TT---TT-TATTTA
* *
9096971 TTTAATATTTT
1 TTT-TTATTTA
9096982 TTCTTTATCTTA
1 TT-TTTAT-TTA
9096994 TTTTTA-TT-
1 TTTTTATTTA
*
9097002 TTTGT-TTTA
1 TTTTTATTTA
* *
9097011 CTTTTCTTTA
1 TTTTTATTTA
*
9097021 ATTTT-TTTA
1 TTTTTATTTA
9097030 TTTTTATTTA
1 TTTTTATTTA
* *
9097040 TTTTCACTT-
1 TTTTTATTTA
9097049 TTTTTATT
1 TTTTTATT
9097057 ATTCTATTTT
Statistics
Matches: 98, Mismatches: 19, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.06
9 26 0.27
10 38 0.39
11 14 0.14
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:9097010 original size:22 final size:21
Alignment explanation
Indices: 9096976--9097043 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 21
9096966 ATTTATTTAA
9096976 TATTTTTTCTTTATCTTATT-TT
1 TATTTTTTCTTTA-CTT-TTCTT
9096998 TATTTTTGT-TTTACTTTTCTT
1 TATTTTT-TCTTTACTTTTCTT
* * *
9097019 TA-ATTTT-TTTATTTTTATT
1 TATTTTTTCTTTACTTTTCTT
9097038 TATTTT
1 TATTTT
9097044 CACTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.33
20 7 0.18
21 7 0.18
22 11 0.28
23 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (21 bp):
TATTTTTTCTTTACTTTTCTT
Found at i:9097034 original size:19 final size:18
Alignment explanation
Indices: 9096995--9097043 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9096985 TTTATCTTAT
*
9096995 TTTTATTT-TTGTTTTAC
1 TTTTATTTATTTTTTTAC
* *
9097012 TTTTCTTTAATTTTTTTAT
1 TTTTATTT-ATTTTTTTAC
9097031 TTTTATTTATTTT
1 TTTTATTTATTTT
9097044 CACTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 14 0.54
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTATTTATTTTTTTAC
Done.