Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2846896
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2363573 original size:166 final size:163
Alignment explanation
Indices: 2363224--2363588 Score: 455
Period size: 166 Copynumber: 2.2 Consensus size: 163
2363214 TTATGCGTGA
* * *
2363224 AAAACTAAGAAATTCATAATAAGTTTATGATTTTTTGTATGGGTACTTTGTATGCAAAACTATGA
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTATGCAAAAC-A-GA
*** *
2363289 AATTCATAATAAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAAAGCTAAGAAATTCATAAT
64 AATTCATAATAAGTTTATGAATTTCCATACAAGCACTTTGTGTGCAAAACTAAGAAATTCATAAT
* * *
2363354 AAGTTTATAAATTTCCATATGGGCACTTTGTGTGC
129 AAGTTTATAAATTTCCATATGAGCACTTTGTATAC
* * * *
2363389 AAAGCTAAGAATTTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGTACAAA-A-AA
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTATGCA-AAACAGAA
* *
2363452 ATTCATATTAAGTTTATGAATTTCCTTACAAGCACTTTATGTATGTGCAAAACTAAGAAATTCAT
65 ATTCATAATAAGTTTATGAATTTCCATACAAGCAC-TT-TG--TGTGCAAAACTAAGAAATTCAT
* * * *
2363517 AATAAGTTTATGAATTTTCGTATGAGCAGTTTGTATAC
126 AATAAGTTTATAAATTTCCATATGAGCACTTTGTATAC
* *
2363555 AAAACTAATAAATTCATAATAAATTTATGAATTT
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTT
2363589 CAGTATTGTT
Statistics
Matches: 171, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
162 32 0.19
163 2 0.01
164 3 0.02
165 49 0.29
166 85 0.50
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (163 bp):
AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTATGCAAAACAGAAA
TTCATAATAAGTTTATGAATTTCCATACAAGCACTTTGTGTGCAAAACTAAGAAATTCATAATAA
GTTTATAAATTTCCATATGAGCACTTTGTATAC
Found at i:2368591 original size:6 final size:6
Alignment explanation
Indices: 2368580--2368612 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2368570 AGTATCCCAT
*
2368580 AGAGGA AGAGGA AGAGGA AGAGGT AGAGGA AGA
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGA
2368613 AATTAGTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (6 bp):
AGAGGA
Found at i:2372722 original size:22 final size:23
Alignment explanation
Indices: 2372676--2372724 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
2372666 ACGCAGTCAA
*
2372676 TCGGGACAATACTATGTGGCCCT
1 TCGGGACAATACTATGTGGCACT
* *
2372699 TCGGGAC-ATTCTATGTGGGACT
1 TCGGGACAATACTATGTGGCACT
2372721 TCGG
1 TCGG
2372725 TGCAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (23 bp):
TCGGGACAATACTATGTGGCACT
Found at i:2377028 original size:45 final size:45
Alignment explanation
Indices: 2376964--2377099 Score: 218
Period size: 45 Copynumber: 3.0 Consensus size: 45
2376954 GTAACCATGC
*
2376964 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
2377009 AAATAAACTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * * *
2377054 AAATAAGCCTACGAGCTTATGGGATAAATAGAAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
2377099 A
1 A
2377100 GAAATTTTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:2377519 original size:21 final size:21
Alignment explanation
Indices: 2377493--2377532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2377483 GAAATTACTA
* *
2377493 TAGCAGTGCATCGGTACACTG
1 TAGCAGTACATCGATACACTG
2377514 TAGCAGTACATCGATACAC
1 TAGCAGTACATCGATACAC
2377533 ATTTTAAGTT
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:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TAGCAGTACATCGATACACTG
Found at i:2385289 original size:21 final size:22
Alignment explanation
Indices: 2385246--2385352 Score: 119
Period size: 23 Copynumber: 4.8 Consensus size: 22
2385236 TAAAATTGCA
2385246 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
2385268 CCGAAGGACCACATAG-ATGTC
1 CCGAAGGACCACATAGAATGTC
*
2385289 CCGAAGGACCACGTAGAAATGTC
1 CCGAAGGACCACATAG-AATGTC
* * *
2385312 CCAAAGGACCACATAGATTTTTC
1 CCGAAGGACCACATAGA-ATGTC
* *
2385335 CTGAAGGACCACGTAGAA
1 CCGAAGGACCACATAGAA
2385353 CCCTCGATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
21 21 0.29
22 15 0.21
23 36 0.50
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:2385319 original size:44 final size:45
Alignment explanation
Indices: 2385246--2385352 Score: 139
Period size: 44 Copynumber: 2.4 Consensus size: 45
2385236 TAAAATTGCA
* *
2385246 CCGAAGTG-CCACATAG-AATGTCCCGAAGGACCACATAGA-TGTC
1 CCGAAG-GACCACGTAGAAATGTCCCAAAGGACCACATAGATTGTC
*
2385289 CCGAAGGACCACGTAGAAATGTCCCAAAGGACCACATAGATTTTTC
1 CCGAAGGACCACGTAGAAATGTCCCAAAGGACCACATAGA-TTGTC
*
2385335 CTGAAGGACCACGTAGAA
1 CCGAAGGACCACGTAGAA
2385353 CCCTCGATTC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
42 1 0.02
43 13 0.23
44 22 0.39
46 20 0.36
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (45 bp):
CCGAAGGACCACGTAGAAATGTCCCAAAGGACCACATAGATTGTC
Found at i:2391249 original size:3 final size:3
Alignment explanation
Indices: 2391243--2391307 Score: 69
Period size: 3 Copynumber: 20.3 Consensus size: 3
2391233 TTATTAGTAT
*
2391243 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A GTAA ATA ATA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A AT-A
2391290 ATAA ATA ATAA ATA ATA A
1 AT-A ATA AT-A ATA ATA A
2391308 AAAAATGGAC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 1 0.02
3 39 0.70
4 16 0.29
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:2391290 original size:4 final size:4
Alignment explanation
Indices: 2391266--2391313 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
2391256 TAATAATAAT
*
2391266 AATA AAGTA AAT- AAT- AATA AATA AATA AAT- AATA AAT- AATA AAAA
1 AATA AA-TA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
2391311 AAT
1 AAT
2391314 GGACAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 12 0.32
4 22 0.58
5 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:2391308 original size:18 final size:17
Alignment explanation
Indices: 2391243--2391313 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 17
2391233 TTATTAGTAT
2391243 ATAATAATAAT-AAT-A
1 ATAATAATAATAAATAA
2391258 ATAATAATAATAAAGTAA
1 ATAATAATAATAAA-TAA
2391276 ATAATAATAAATAAATAA
1 ATAATAAT-AATAAATAA
*
2391294 ATAATAAATAATAAAAAA
1 ATAAT-AATAATAAATAA
2391312 AT
1 AT
2391314 GGACAAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
15 11 0.22
16 2 0.04
17 1 0.02
18 27 0.54
19 9 0.18
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAAATAA
Found at i:2392300 original size:123 final size:123
Alignment explanation
Indices: 2391430--2392300 Score: 1047
Period size: 123 Copynumber: 7.1 Consensus size: 123
2391420 TTAATTAAGA
* * * ** * ** * *
2391430 TGGAAATGTTGATGATGATCTATTTTATTCTGCGAT-GACTCGAG-CTAAGGTTTAACAAGTTCT
1 TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
* * * * *
2391493 TCAGATGATGAACTTTTTATTCCTCTTCAGATGAGTTATTCTTATTACGAACTCCTTC
66 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* * *
2391551 TGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAATGGTTGAATAAGTCCT
1 TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
* *
2391616 TCAGATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTC
66 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* * * **
2391674 TGGAAACGTTAATGTTGCTCTATCTCCTTCTACGATAGAATCGAG-CTAAGGTTGAATAAGTTCT
1 TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
* * *
2391738 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTTTTATTACAAACTCCTTC
66 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* * * * * *
2391796 TGGAAATGTTGATGTTACTCTATCTCCTTCTACTATTGAATCGAGAAAAATGTTGAATAAGTTAT
1 TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
** * *
2391861 TCAGAAGAAGAACTTCTTCTTCCTCTTCAGATGAGTTCTTTTTATTACGAACTCTTTC
66 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* * * * * *
2391919 TGGAAATGTTAATGCTACTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAGGTTGAATAAGTTCT
1 TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
* * * *
2391984 TCAGACTATGAACTTCTTCTTCCTCTTCAGAGGAGTTCTTCTTATTAGGAACTCTGTC
66 TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* ** * * * *
2392042 TGGAAATGGTT-CT-TCTGCTCTATCTCCTTCCACGATAGAGTCAAGCAAAAGGTTGAATACGTT
1 TGGAAAT-GTTGATGT-TGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTT
* * * *
2392105 CTTTAGACTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTATTATTACGAACTCTGTC
64 CTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
* * *
2392165 TGGAAATATTGATGTTGTTCTATCTCCTAT-TGTGATAGAATCGAGAAAAAGGTTGAATAAGTTC
1 TGGAAATGTTGATGTTGCTCTATCTCCT-TCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTC
* * *
2392229 TTCAGATTATGAACTTCTTCTTCCT-TCTCATATGAGCTCTTCTTATTACGAACTATTTAC
65 TTCAGATTATGAACTTCTTCTTCCTCT-TCAGATGAGTTCTTCTTATTACGAACTCTTT-C
*
2392289 -GGCAATGTTGAT
1 TGGAAATGTTGAT
2392301 CCCTCGAGTG
Statistics
Matches: 652, Mismatches: 88, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
121 31 0.05
122 120 0.18
123 495 0.76
124 6 0.01
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (123 bp):
TGGAAATGTTGATGTTGCTCTATCTCCTTCTGCGATAGAATCGAGAAAAAGGTTGAATAAGTTCT
TCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTTTC
Found at i:2397140 original size:20 final size:20
Alignment explanation
Indices: 2397092--2397188 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
2397082 ATTGAAACTA
**
2397092 TAAATGCAATTATGCAAAGATG
1 TAAATGCAAAAATG-AAA-ATG
*
2397114 CAAATGCAAAAATGAAAATG
1 TAAATGCAAAAATGAAAATG
*
2397134 TAAATGCAAACAT-AAAA-G
1 TAAATGCAAAAATGAAAATG
2397152 TACGAATGC-AAAATGAAAATG
1 TA--AATGCAAAAATGAAAATG
*
2397173 CAAATGCAACAAATGA
1 TAAATGCAA-AAATGA
2397189 GTTAATCAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
18 3 0.05
19 13 0.21
20 24 0.39
21 11 0.18
22 11 0.18
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (20 bp):
TAAATGCAAAAATGAAAATG
Found at i:2398816 original size:181 final size:181
Alignment explanation
Indices: 2398512--2398877 Score: 732
Period size: 181 Copynumber: 2.0 Consensus size: 181
2398502 TCGCCAGAGG
2398512 GAAACTAGGCACCGGCCGGTCGCCTTGATTTGACGCTGACCACCACCGCCGACCATCGTGAACGG
1 GAAACTAGGCACCGGCCGGTCGCCTTGATTTGACGCTGACCACCACCGCCGACCATCGTGAACGG
2398577 TGGTCAAAAAATACAAAATTACCCCCAAAATGTAGATATCCCCAACCTAAAGCCAAATACGACCT
66 TGGTCAAAAAATACAAAATTACCCCCAAAATGTAGATATCCCCAACCTAAAGCCAAATACGACCT
2398642 TTATTTCTCCTAAAAACCTCTTAATCTTAGTAGCTCTAGGTTTTTACCTTC
131 TTATTTCTCCTAAAAACCTCTTAATCTTAGTAGCTCTAGGTTTTTACCTTC
2398693 GAAACTAGGCACCGGCCGGTCGCCTTGATTTGACGCTGACCACCACCGCCGACCATCGTGAACGG
1 GAAACTAGGCACCGGCCGGTCGCCTTGATTTGACGCTGACCACCACCGCCGACCATCGTGAACGG
2398758 TGGTCAAAAAATACAAAATTACCCCCAAAATGTAGATATCCCCAACCTAAAGCCAAATACGACCT
66 TGGTCAAAAAATACAAAATTACCCCCAAAATGTAGATATCCCCAACCTAAAGCCAAATACGACCT
2398823 TTATTTCTCCTAAAAACCTCTTAATCTTAGTAGCTCTAGGTTTTTACCTTC
131 TTATTTCTCCTAAAAACCTCTTAATCTTAGTAGCTCTAGGTTTTTACCTTC
2398874 GAAA
1 GAAA
2398878 TCCGACGGTT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 185 1.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (181 bp):
GAAACTAGGCACCGGCCGGTCGCCTTGATTTGACGCTGACCACCACCGCCGACCATCGTGAACGG
TGGTCAAAAAATACAAAATTACCCCCAAAATGTAGATATCCCCAACCTAAAGCCAAATACGACCT
TTATTTCTCCTAAAAACCTCTTAATCTTAGTAGCTCTAGGTTTTTACCTTC
Found at i:2399418 original size:3 final size:3
Alignment explanation
Indices: 2399410--2399451 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
2399400 AATTATATAG
2399410 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
2399452 AAAATGGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2401838 original size:18 final size:18
Alignment explanation
Indices: 2401815--2401856 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
2401805 TAACCTAGGG
2401815 GAGCATCTTAGCGCCTGA
1 GAGCATCTTAGCGCCTGA
*
2401833 GAGCATCTTAGGGCCTGA
1 GAGCATCTTAGCGCCTGA
2401851 GAGCAT
1 GAGCAT
2401857 ACCCAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (18 bp):
GAGCATCTTAGCGCCTGA
Found at i:2404978 original size:21 final size:22
Alignment explanation
Indices: 2404951--2404992 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2404941 GAGAAATCAA
2404951 TTTTTTTAAA-AATATTTTTAGG
1 TTTTTTTAAATAA-ATTTTTAGG
2404973 TTTTTTTAAATAAATTTTTA
1 TTTTTTTAAATAAATTTTTA
2404993 TAAACGCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTTTTTAAATAAATTTTTAGG
Found at i:2405614 original size:25 final size:25
Alignment explanation
Indices: 2405586--2405661 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
2405576 TTTTTTTAAT
*
2405586 AAAATGTTTTCTTTTTTTATAAAAA
1 AAAATATTTTCTTTTTTTATAAAAA
2405611 AAAATATTTTCTTTTTTTATAAAAA
1 AAAATATTTTCTTTTTTTATAAAAA
2405636 AAAATATTTTCTTTTTTTATAAAAA
1 AAAATATTTTCTTTTTTTATAAAAA
2405661 A
1 A
2405662 TATTTTCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (25 bp):
AAAATATTTTCTTTTTTTATAAAAA
Found at i:2408217 original size:23 final size:23
Alignment explanation
Indices: 2408185--2408263 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
2408175 GTGACACATA
* * * *
2408185 TTTGTTCCGAAGGACTATATAGT
1 TTTGTCCCGAAGGACCACATAGG
2408208 TTTGTCCCGAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
2408231 TTTGTCCCGAAGGACCACATAGG
1 TTTGTCCCGAAGGACCACATAGG
2408254 TTTGTCCCGA
1 TTTGTCCCGA
2408264 CTCTTGGCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGG
Found at i:2415693 original size:23 final size:22
Alignment explanation
Indices: 2415650--2415752 Score: 100
Period size: 23 Copynumber: 4.6 Consensus size: 22
2415640 AATTTTCATT
*
2415650 GAAGTACCACATA-TTTGTCCC
1 GAAGGACCACATATTTTGTCCC
2415671 GAAGGACCACATACTTTTGTCCC
1 GAAGGACCACATA-TTTTGTCCC
* *
2415694 GAAGGACCACATTTGTTTGTCTC
1 GAAGGACCACATAT-TTTGTCCC
* * * *
2415717 AAAGGACCACATAGTCTTATCTC
1 GAAGGACCACATA-TTTTGTCCC
*
2415740 GAAGAACCACATA
1 GAAGGACCACATA
2415753 AAACCCTCGA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
21 12 0.17
22 1 0.01
23 55 0.80
24 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (22 bp):
GAAGGACCACATATTTTGTCCC
Found at i:2415743 original size:46 final size:46
Alignment explanation
Indices: 2415663--2415751 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
2415653 GTACCACATA
* * * *
2415663 TTTGTCCCGAAGGACCACATACTTTTGTCCCGAAGGACCACATTTG
1 TTTGTCCCAAAGGACCACATACTCTTATCCCGAAGAACCACATTTG
* * *
2415709 TTTGTCTCAAAGGACCACATAGTCTTATCTCGAAGAACCACAT
1 TTTGTCCCAAAGGACCACATACTCTTATCCCGAAGAACCACAT
2415752 AAAACCCTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (46 bp):
TTTGTCCCAAAGGACCACATACTCTTATCCCGAAGAACCACATTTG
Found at i:2416020 original size:17 final size:17
Alignment explanation
Indices: 2415998--2416031 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2415988 TTTATCTAAA
2415998 GCATAATAA-AAATAATT
1 GCATAA-AATAAATAATT
2416015 GCATAAAATAAATAATT
1 GCATAAAATAAATAATT
2416032 CATTTTCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
GCATAAAATAAATAATT
Found at i:2416940 original size:21 final size:24
Alignment explanation
Indices: 2416916--2416965 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 24
2416906 AAAAGATGTT
2416916 GTATCGGTACCA-TA-ACTAAG-A
1 GTATCGGTACCACTACACTAAGTA
* *
2416937 GTATTGGTACTACTACACTAAGTA
1 GTATCGGTACCACTACACTAAGTA
2416961 GTATC
1 GTATC
2416966 AATATTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 2 0.09
23 6 0.26
24 5 0.22
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (24 bp):
GTATCGGTACCACTACACTAAGTA
Found at i:2423330 original size:24 final size:21
Alignment explanation
Indices: 2423281--2423330 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
2423271 GAAGCTTTAA
2423281 GATCATCATGTTTCTTTTGAC
1 GATCATCATGTTTCTTTTGAC
*
2423302 GATCATCATGTTTCTTTTGAT
1 GATCATCATGTTTCTTTTGAC
*
2423323 GATAATCA
1 GATCATCA
2423331 CAAACCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (21 bp):
GATCATCATGTTTCTTTTGAC
Found at i:2425535 original size:24 final size:22
Alignment explanation
Indices: 2425485--2425537 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2425475 ACCAAAAGAT
*
2425485 GTAGTATCAGTACCATAACTAA
1 GTAGTATCAGTACCACAACTAA
*
2425507 G-AGTATCAGTACTACCACACTAA
1 GTAGTATCAGTACCA-CA-ACTAA
2425530 GTAGTATC
1 GTAGTATC
2425538 GATACTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 12 0.46
22 2 0.08
23 6 0.23
24 6 0.23
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (22 bp):
GTAGTATCAGTACCACAACTAA
Found at i:2427870 original size:2 final size:2
Alignment explanation
Indices: 2427863--2427894 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2427853 ACGTGGAACC
2427863 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
2427895 CCTTTCTCAA
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:2429870 original size:20 final size:20
Alignment explanation
Indices: 2429845--2429885 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2429835 ATTATTCCAA
* *
2429845 AACCATATACCATAGAAAAT
1 AACCATAAACAATAGAAAAT
*
2429865 AACCATAAACAATAGACAAT
1 AACCATAAACAATAGAAAAT
2429885 A
1 A
2429886 TCCCAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.17
Consensus pattern (20 bp):
AACCATAAACAATAGAAAAT
Found at i:2436544 original size:16 final size:17
Alignment explanation
Indices: 2436523--2436554 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2436513 ATGATAAATG
2436523 ATATTATA-AAAATATC
1 ATATTATATAAAATATC
2436539 ATATTATATAAAATAT
1 ATATTATATAAAATAT
2436555 GTTTCGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATTATATAAAATATC
Found at i:2450142 original size:3 final size:3
Alignment explanation
Indices: 2450134--2450166 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2450124 CCGTTATATA
*
2450134 ATT ATT ATT ATT ATT ATT A-T ATT AAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2450167 ATACTGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2454331 original size:55 final size:55
Alignment explanation
Indices: 2454265--2454407 Score: 168
Period size: 55 Copynumber: 2.6 Consensus size: 55
2454255 GACATTCAAG
* * *
2454265 TGATTCATGAAGAATGACATCCGATGAATGAAGAAATT-TGAACCTGATTGAAGAAC
1 TGATTCCTGAAGAATGACATCCGATGAATGAAG-AATTCTAAAACTGATTGAAG-AC
* *
2454321 -GATTCCTGAAG-ATGGACATCTGATGAATAAAGAATTCTAAAACTGATTGAAGAC
1 TGATTCCTGAAGAAT-GACATCCGATGAATGAAGAATTCTAAAACTGATTGAAGAC
*
2454375 TGA-TCCATGAAGAAAGACATCCGATGAATGAAG
1 TGATTCC-TGAAGAATGACATCCGATGAATGAAG
2454408 TTTGAAGTTG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
54 11 0.15
55 62 0.84
56 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (55 bp):
TGATTCCTGAAGAATGACATCCGATGAATGAAGAATTCTAAAACTGATTGAAGAC
Found at i:2454774 original size:6 final size:6
Alignment explanation
Indices: 2454763--2454819 Score: 62
Period size: 6 Copynumber: 9.2 Consensus size: 6
2454753 ATTAACACCT
* *
2454763 TTTGCA TTTGCA TTTAGCA TCTACA TTTAGCA TTTGCA TTTAGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTT-GCA TTTGCA TTT-GCA TTTGCA
2454814 -TTGCA T
1 TTTGCA T
2454820 GTATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
5 5 0.12
6 22 0.51
7 16 0.37
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.46
Consensus pattern (6 bp):
TTTGCA
Found at i:2454809 original size:13 final size:13
Alignment explanation
Indices: 2454766--2454815 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
2454756 AACACCTTTT
2454766 GCATTTGCATTTA
1 GCATTTGCATTTA
* *
2454779 GCATCTACATTTA
1 GCATTTGCATTTA
2454792 GCATTTGCATTTA
1 GCATTTGCATTTA
2454805 GCATTTGCATT
1 GCATTTGCATT
2454816 GCATGTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (13 bp):
GCATTTGCATTTA
Found at i:2460022 original size:36 final size:36
Alignment explanation
Indices: 2459977--2460203 Score: 258
Period size: 36 Copynumber: 6.2 Consensus size: 36
2459967 ACTCAATTCT
2459977 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* *
2460013 AAGCCTTCACCGGAGAGTAGTGAAGCAAACCATCCT-
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCAT-CTG
2460049 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* *
2460085 AAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCTT
1 AAGCCTTCACCAGAGAATAGTGAAGCAAA-CCATCTG
* * * * * * * * *
2460122 AGGCCTCCACTAAATAGTAGTGAAGCAATCAATCTT
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* ** *
2460158 AAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATCAG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAA-CCATCTG
2460195 CAAGCCTTC
1 -AAGCCTTC
2460204 CGAGCATGAT
Statistics
Matches: 162, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
35 2 0.01
36 119 0.73
37 33 0.20
38 8 0.05
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
Found at i:2460166 original size:73 final size:73
Alignment explanation
Indices: 2459925--2460192 Score: 295
Period size: 73 Copynumber: 3.7 Consensus size: 73
2459915 TGGAGATTGG
* ** * * * * * * *
2459925 AGCAAACTCAATCTTAAGCCTTCAATGAAGAGTAGTAAAGCAACTCAATTCTAAGCCTTCACCAG
1 AGCAAAC-C-ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCCTAAGCCTCCACCAA
2459990 AGAATAGTGA
64 AGAATAGTGA
* *
2460000 AGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAA-CCATCCTAAGCCTTCACCAGAG
1 AGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCCTAAGCCTCCACCAAAG
2460064 AATAGTGA
66 AATAGTGA
* * * * *
2460072 AGCAAACCATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCTTAGGCCTCCACTAAAT
1 AGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCCTAAGCCTCCACCAAAG
*
2460137 AGTAGTGA
66 AATAGTGA
* * * ** *
2460145 AGCAATCAATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATC
1 AGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATC
2460193 AGCAAGCCTT
Statistics
Matches: 169, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
72 69 0.41
73 92 0.54
74 1 0.01
75 7 0.04
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (73 bp):
AGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCCTAAGCCTCCACCAAAG
AATAGTGA
Found at i:2460322 original size:118 final size:115
Alignment explanation
Indices: 2460140--2460423 Score: 385
Period size: 118 Copynumber: 2.4 Consensus size: 115
2460130 ACTAAATAGT
* *
2460140 AGTGAAGCAATCAATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATCAGCAAGCCTTCC
1 AGTGAAGCAATCAATCTTAAGCCTTCACCAAAAAGGAGTGAAGCAAATCCACCAGCAAGCCTTCC
*
2460205 GAGCATGATGATTAAGTCC-CCGGGACAATCTTAAGCCTTCACCGGAAAGG
66 GAGCATGATGATTAAGTCCTCAGGG-CAATCTTAAGCCTTCACCGGAAAGG
*
2460255 AGTGAAGCAATTCCATCTTAAGCCTTCACCAAGAAAAGTG-GTGAAGCAAATCCACCAGCAAGCC
1 AGTGAAGCAA-TCAATCTTAAGCCTTCACC-A-AAAAG-GAGTGAAGCAAATCCACCAGCAAGCC
* * **
2460319 TTCCGAGCTTGATGATTAAGTCCTCAGGGCAATCTTAAGTCTTCACTTGAAAGG
62 TTCCGAGCATGATGATTAAGTCCTCAGGGCAATCTTAAGCCTTCACCGGAAAGG
* * * *
2460373 AGTGAAGCAAATCAATCTTAAGCCTTCACTAGAGAGTAGTGAAGC-AATCCA
1 AGTGAAGC-AATCAATCTTAAGCCTTCACCAAAAAGGAGTGAAGCAAATCCA
2460424 TTTTAATCCT
Statistics
Matches: 149, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
115 16 0.11
116 28 0.19
117 2 0.01
118 96 0.64
119 7 0.05
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (115 bp):
AGTGAAGCAATCAATCTTAAGCCTTCACCAAAAAGGAGTGAAGCAAATCCACCAGCAAGCCTTCC
GAGCATGATGATTAAGTCCTCAGGGCAATCTTAAGCCTTCACCGGAAAGG
Found at i:2460444 original size:36 final size:36
Alignment explanation
Indices: 2460350--2460581 Score: 230
Period size: 36 Copynumber: 6.4 Consensus size: 36
2460340 CCTCAGGGCA
* * * * *
2460350 ATCTTAAGTCTTCACTTGAAAGGAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCC
*
2460387 ATCTTAAGCCTTCACTAGAGAGTAGTGAAGCAATCC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * *
2460423 ATTTTAATCCTTCACTGGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* *
2460459 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAACTCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAA-TCC
* * * * * *
2460496 ATCTTAAGCCTTTACCGAAGAGTAGCGAAGCGATCT
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * * * *
2460532 ACCTTAAGCCTTCACTGAAGAGTGGTAAAGCAAATTC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCC
*
2460569 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
2460582 TCGGAAAAGT
Statistics
Matches: 163, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
36 93 0.57
37 70 0.43
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (36 bp):
ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
Found at i:2460450 original size:73 final size:72
Alignment explanation
Indices: 2460353--2460581 Score: 228
Period size: 73 Copynumber: 3.1 Consensus size: 72
2460343 CAGGGCAATC
* * * *
2460353 TTAAGTCTTCACTTGAAAGGAGTGAAGCAAATCAATCTTAAGCCTTCACTAGAGAGTAGTGAAGC
1 TTAAGCCTTCACTGGAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACT-GAGAGTAGTGAAGC
2460418 AATCCATT
65 AATCCATT
* * *
2460426 TTAATCCTTCACTGGAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCACCGGAGAGTAGTGAAGC
1 TTAAGCCTTCACTGGAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCA-CTGAGAGTAGTGAAGC
* *
2460490 AACTCAATC
65 AA-TCCATT
* * * * * * * * *
2460499 TTAAGCCTTTACCGAAGAGTAGCGAAGC-GATCTACCTTAAGCCTTCACTGAAGAGTGGTAAAGC
1 TTAAGCCTTCACTGGAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTG-AGAGTAGTGAAGC
*
2460563 AAATTCATT
65 -AATCCATT
2460572 TTAAGCCTTC
1 TTAAGCCTTC
2460582 TCGGAAAAGT
Statistics
Matches: 127, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
72 34 0.27
73 91 0.72
74 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (72 bp):
TTAAGCCTTCACTGGAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAGAGTAGTGAAGCA
ATCCATT
Found at i:2460544 original size:109 final size:110
Alignment explanation
Indices: 2459925--2460581 Score: 303
Period size: 109 Copynumber: 5.9 Consensus size: 110
2459915 TGGAGATTGG
* ** **
2459925 AGCAAACTCAATCTTAAGCCTTCAATGA-AGAGTAGTAAAGCAA-CTCAATTCTAAGCCTTCAC-
1 AGCAAA-TCAATCTTAAGCCTTC-ACGAGAGAGTAGCGAAGCAATC-CACCT-TAAGCCTTCACT
* * * * * *
2459987 CAGAGAATAGTGAAGCAAA-CCATCTGAAGCCTTCACCGGAGAGTAGTGA
62 GA-AGAGTAGTAAAGCAAATCCATCTTAAGCCTTCACCGGAAAGGAGTGA
* * * * * * * * * *
2460036 AGCAAA-CCATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACCGGAG
1 AGCAAATCAATCTTAAGCCTTCACGAGAGAGTAGCGAAGCAATCCACCTTAAGCCTTCACTGAAG
* * * * ** *
2460100 AATAGTGAAGCAAATCCATCTTAGGCCTCCA-CTAAATAGTAGTGA
66 AGTAGTAAAGCAAATCCATCTTAAGCCTTCACCGGAA-AGGAGTGA
* * * * ***
2460145 AGC-AATCAATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAATCCATCAGCAAGCCTTCCGAGC
1 AGCAAATCAATCTTAAGCCTTCACGAGAGAGTAGCGAAGC-AATCCA-CCTTAAGCCTT-C-A-C
* * *** ** *
2460209 ATGATGATTAAGT-CCCCGGGA-CAATCTTAAGCCTTCACCGGAAAGGAGTGA
61 -TGAAGAGT-AGTAAAGC-AAATCCATCTTAAGCCTTCACCGGAAAGGAGTGA
* * * * * * **
2460260 AGCAATTCCATCTTAAGCCTTCACCAAGAAAAGTGGTGAAGCAAATCCACCAGCAAGCCTTCCGA
1 AGCAAATCAATCTTAAGCCTTCA-CGAG-AGAGTAGCGAAGC-AATCCACC-TTAAGCCTT-C-A
* * *** *** * * **
2460325 GCTTGATGATTAAGT-CCTCAGGGCAATCTTAAGTCTTCACTTGAAAGGAGTGA
60 -C-TGAAGAGT-AGTAAAGCAAATCCATCTTAAGCCTTCACCGGAAAGGAGTGA
* * ** * *
2460378 AGCAAATCAATCTTAAGCCTTCACTAGAGAGTAGTGAAGCAATCCATTTTAATCCTTCACTGGAG
1 AGCAAATCAATCTTAAGCCTTCACGAGAGAGTAGCGAAGCAATCCACCTTAAGCCTTCACTGAAG
* * *
2460443 AGTAGTGAAGCAAA-CCATCTTAAGCCTTCACCGGAGAGTAGTGA
66 AGTAGTAAAGCAAATCCATCTTAAGCCTTCACCGGAAAGGAGTGA
* * * *
2460487 AGCAACTCAATCTTAAGCCTTTACCGA-AGAGTAGCGAAGCGATCTACCTTAAGCCTTCACTGAA
1 AGCAAATCAATCTTAAGCCTTCA-CGAGAGAGTAGCGAAGCAATCCACCTTAAGCCTTCACTGAA
* * *
2460551 GAGTGGTAAAGCAAATTCATTTTAAGCCTTC
65 GAGTAGTAAAGCAAATCCATCTTAAGCCTTC
2460582 TCGGAAAAGT
Statistics
Matches: 428, Mismatches: 95, Indels: 47
0.75 0.17 0.08
Matches are distributed among these distances:
108 32 0.07
109 172 0.40
110 28 0.07
111 14 0.03
112 2 0.00
113 2 0.00
114 7 0.02
115 34 0.08
116 35 0.08
117 7 0.02
118 95 0.22
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (110 bp):
AGCAAATCAATCTTAAGCCTTCACGAGAGAGTAGCGAAGCAATCCACCTTAAGCCTTCACTGAAG
AGTAGTAAAGCAAATCCATCTTAAGCCTTCACCGGAAAGGAGTGA
Found at i:2461481 original size:54 final size:54
Alignment explanation
Indices: 2460891--2461481 Score: 749
Period size: 54 Copynumber: 10.9 Consensus size: 54
2460881 TGAAGCAAAT
* * * *
2460891 GAAGATGTTCAAGTTCTATACTCCCTA-AAAAAGAGGGAGCGAACCCGTTTA-CA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TAAGAA
* * * * * ** *
2460944 GAAGATTATTCGAGTTCTATACTTCCTAAAAGAAAGA-GAAGCGAACCCATTCGCA
1 GAAGA-TGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTAAGAA
* *
2460999 GAAGATTATTCGAGTTCTATACTCCCT-GAAGAAAAAGGGAGCGAACCCGTAAGAA
1 GAAGA-TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTAAGAA
* **
2461054 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* * * *
2461108 GAAGATATTTGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCTGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* * * *
2461162 GAAGATGTTCAAGTTCCATACTCCCTAGAGAAAGAGGGAGTGAACCCATAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* **
2461216 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTCGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* *
2461270 GAAGATGTCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* * *
2461324 GAAGATGTTCAAGTTCCATACACCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
** *
2461378 GAATTTGTTCGAGTTCTATACTCCATAGAGAAAGAGGGAGCGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
* * * *
2461432 GAAAATATTTGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
2461482 GGCAAAAGAT
Statistics
Matches: 469, Mismatches: 62, Indels: 13
0.86 0.11 0.02
Matches are distributed among these distances:
53 5 0.01
54 400 0.85
55 58 0.12
56 6 0.01
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTAAGAA
Found at i:2466727 original size:20 final size:20
Alignment explanation
Indices: 2466685--2466736 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2466675 ATACCGCTGG
**
2466685 GTCTCCATACTGAAAAACTA
1 GTCTCCATACCAAAAAACTA
2466705 GTCTCCATACCAAAAGAAC-A
1 GTCTCCATACCAAAA-AACTA
*
2466725 GTCTTCATACCA
1 GTCTCCATACCA
2466737 TAGTACTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (20 bp):
GTCTCCATACCAAAAAACTA
Found at i:2466800 original size:21 final size:21
Alignment explanation
Indices: 2466752--2466800 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2466742 CTGATATACG
* *
2466752 TACCAAA-GATTGAGTATCCA
1 TACCAAAGGCTTGAGTATCAA
2466772 TACCAAAGGCTTGA-TATCAA
1 TACCAAAGGCTTGAGTATCAA
2466792 TACCTAAAG
1 TACC-AAAG
2466801 TGGTTGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (21 bp):
TACCAAAGGCTTGAGTATCAA
Found at i:2467681 original size:19 final size:20
Alignment explanation
Indices: 2467654--2467704 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2467644 AGTTATATTT
2467654 AGTATTGATACTCAA-GGTG
1 AGTATTGATACTCAAGGGTG
* * *
2467673 AGTAGTGATACCCAAGGGTT
1 AGTATTGATACTCAAGGGTG
2467693 AGTATTGATACT
1 AGTATTGATACT
2467705 ATTGGCACGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (20 bp):
AGTATTGATACTCAAGGGTG
Found at i:2468521 original size:15 final size:15
Alignment explanation
Indices: 2468501--2468530 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2468491 ACAACATCAT
2468501 CGGAGGAGTCTCAGC
1 CGGAGGAGTCTCAGC
2468516 CGGAGGAGTCTCAGC
1 CGGAGGAGTCTCAGC
2468531 TGAGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.40, T:0.13
Consensus pattern (15 bp):
CGGAGGAGTCTCAGC
Found at i:2470202 original size:20 final size:20
Alignment explanation
Indices: 2470139--2470203 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
2470129 ACTGGTCTCT
*
2470139 ATACCGAAAGACTT-ATATCA
1 ATACC-AAAGGCTTGATATCA
* *
2470159 ATACTAAA-GATTGAGTATTC-
1 ATACCAAAGGCTTGA-TA-TCA
2470179 ATACCAAAGGCTTGATATCA
1 ATACCAAAGGCTTGATATCA
2470199 ATACC
1 ATACC
2470204 TAAAATGGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
18 2 0.06
19 6 0.17
20 20 0.57
21 7 0.20
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (20 bp):
ATACCAAAGGCTTGATATCA
Found at i:2473965 original size:39 final size:40
Alignment explanation
Indices: 2473899--2473992 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 40
2473889 TTGGGGCACC
* * *
2473899 TAATTTCTTAAATT-TTGCCACTATAACATTTTAAATTCT
1 TAATTTCTTAAATTATTTCCACTATAACATTCTAAATTAT
2473938 TAATTTCTTAAATTATTT-CAC-ATTAACATTCTAAATTAT
1 TAATTTCTTAAATTATTTCCACTA-TAACATTCTAAATTAT
*
2473977 T-ATTTTTTAAA-TATTT
1 TAATTTCTTAAATTATTT
2473993 ATTTTAACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.10
38 10 0.20
39 32 0.65
40 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.52
Consensus pattern (40 bp):
TAATTTCTTAAATTATTTCCACTATAACATTCTAAATTAT
Found at i:2474792 original size:36 final size:37
Alignment explanation
Indices: 2474751--2474830 Score: 98
Period size: 36 Copynumber: 2.2 Consensus size: 37
2474741 ACCTTTAAAA
*
2474751 ATAATTTAAT-ATTCAAAT-TATA-ATATATATTATATT
1 ATAATTTAATGA-T-AAATATATATATATATATTATAGT
2474787 ATAA-TTAATGATAAATATATATATATATATTATAGT
1 ATAATTTAATGATAAATATATATATATATATTATAGT
2474823 -TAATTTAA
1 ATAATTTAA
2474831 AAATTATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
34 4 0.10
35 13 0.33
36 22 0.56
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (37 bp):
ATAATTTAATGATAAATATATATATATATATTATAGT
Found at i:2477909 original size:14 final size:14
Alignment explanation
Indices: 2477874--2477901 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2477864 AACATTGACA
2477874 GAAATAAAATATTT
1 GAAATAAAATATTT
2477888 GAAATAAAATATTT
1 GAAATAAAATATTT
2477902 TATGTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
GAAATAAAATATTT
Found at i:2482364 original size:24 final size:24
Alignment explanation
Indices: 2482336--2482396 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
2482326 TCATAATATT
*
2482336 TTATTAACTTAAAAACTATTTTTTA
1 TTATTAACTTAAAAA-TATATTTTA
*
2482361 -TATTAACTTATTAAATATATTTTA
1 TTATTAACTTA-AAAATATATTTTA
2482385 TTATTAACTTAA
1 TTATTAACTTAA
2482397 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (24 bp):
TTATTAACTTAAAAATATATTTTA
Found at i:2482388 original size:27 final size:25
Alignment explanation
Indices: 2482335--2482414 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 25
2482325 TTCATAATAT
2482335 TTTATTAACTTA--AAAACTATTTT-
1 TTTATTAACTTATTAAAA-TATTTTA
2482358 TTATATTAACTTATTAAATATATTTTA
1 TT-TATTAACTTATTAAA-ATATTTTA
2482385 -TTATTAACTTAATTTAAAAATATTTTA
1 TTTATTAACTT-A-TT-AAAATATTTTA
2482412 TTT
1 TTT
2482415 TTATTTTCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 9 0.19
26 11 0.23
27 11 0.23
28 5 0.10
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTATTAACTTATTAAAATATTTTA
Found at i:2482426 original size:27 final size:27
Alignment explanation
Indices: 2482371--2482447 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
2482361 TATTAACTTA
* * **
2482371 TTAAATATATTTTATTATTAACTTAAT
1 TTAAAAATATTTTATTTTTATTTTAAT
*
2482398 TTAAAAATATTTTATTTTTATTTTCAT
1 TTAAAAATATTTTATTTTTATTTTAAT
* *
2482425 TTAAAAATATTTCATTTTCATTT
1 TTAAAAATATTTTATTTTTATTT
2482448 GAAAATATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAAAAATATTTTATTTTTATTTTAAT
Found at i:2483056 original size:28 final size:28
Alignment explanation
Indices: 2483016--2483073 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
2483006 TTATTTAACC
*
2483016 AATTGTTTTACTTCCGATTAATAAAAAA
1 AATTATTTTACTTCCGATTAATAAAAAA
*
2483044 AATTATTTTACTTCCGATTATTAAAAAA
1 AATTATTTTACTTCCGATTAATAAAAAA
2483072 AA
1 AA
2483074 AGTTGTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (28 bp):
AATTATTTTACTTCCGATTAATAAAAAA
Found at i:2484390 original size:2 final size:2
Alignment explanation
Indices: 2484383--2484418 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2484373 ATCATTCATA
2484383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2484419 TAGATTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2484563 original size:24 final size:24
Alignment explanation
Indices: 2484536--2484584 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2484526 TAATCATTAC
2484536 TAATCATTTACTATTACTATCACT
1 TAATCATTTACTATTACTATCACT
*
2484560 TAATCATTTACTATTAGTATCACT
1 TAATCATTTACTATTACTATCACT
2484584 T
1 T
2484585 TTTCTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (24 bp):
TAATCATTTACTATTACTATCACT
Found at i:2485299 original size:19 final size:20
Alignment explanation
Indices: 2485277--2485315 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2485267 ATATCATTTT
*
2485277 TATTTTTT-AATAATAAAAA
1 TATTTTTTAAAAAATAAAAA
2485296 TATTTTTTAAAAAATAAAAA
1 TATTTTTTAAAAAATAAAAA
2485316 AATAAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTTTTAAAAAATAAAAA
Found at i:2488126 original size:21 final size:21
Alignment explanation
Indices: 2488100--2488139 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2488090 TTGGACAATT
*
2488100 ATAATCAGGATAAAGATGGCC
1 ATAATCAGAATAAAGATGGCC
2488121 ATAATCAGAATAAAGATGG
1 ATAATCAGAATAAAGATGG
2488140 ATACAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (21 bp):
ATAATCAGAATAAAGATGGCC
Found at i:2489319 original size:54 final size:54
Alignment explanation
Indices: 2489217--2489573 Score: 344
Period size: 54 Copynumber: 6.6 Consensus size: 54
2489207 TGAATATTAC
* * * * * *
2489217 AACTCATTATAAATTCCGTAGTTTTTGCACACATAGTGCCGATACGGTAATTCACA
1 AACTCATTATGAATTACGTAG--GTTGCACACACAATGTCGATACGGTAATTCACA
* * *
2489273 AACTCATTATGAGTTACGTGGGTTGCAGACACAATGTCGATACGGTAATTCACA
1 AACTCATTATGAATTACGTAGGTTGCACACACAATGTCGATACGGTAATTCACA
* * * *
2489327 AACTCATTATAAATTACTTAGGTTGCACACA-TA-GTACTGATACGGT-ACTCACA
1 AACTCATTATGAATTACGTAGGTTGCACACACAATGT-C-GATACGGTAATTCACA
* * * *
2489380 AACTCATTATGAATTACGTAGGTTACACACACAGTGCCAATACGGTAATTCACA
1 AACTCATTATGAATTACGTAGGTTGCACACACAATGTCGATACGGTAATTCACA
* * * * * * * *
2489434 AACTCATTATGAATTACATGGGTTGCACATATAGTCTCAATACGATAATTCACA
1 AACTCATTATGAATTACGTAGGTTGCACACACAATGTCGATACGGTAATTCACA
* * * *
2489488 AACTCATTATGAATTACTTAGGTTGCACACATACTG-CTGATACGATAATTCACAA
1 AACTCATTATGAATTACGTAGGTTGCACACACAATGTC-GATACGGTAATTCAC-A
* * *
2489543 AACTTATTATGAATTATGTGGGTTGCACACA
1 AACTCATTATGAATTACGTAGGTTGCACACA
2489574 TACTGCCAAT
Statistics
Matches: 252, Mismatches: 42, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
52 2 0.01
53 44 0.17
54 160 0.63
55 29 0.12
56 17 0.07
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (54 bp):
AACTCATTATGAATTACGTAGGTTGCACACACAATGTCGATACGGTAATTCACA
Found at i:2489412 original size:107 final size:106
Alignment explanation
Indices: 2489217--2489575 Score: 398
Period size: 107 Copynumber: 3.3 Consensus size: 106
2489207 TGAATATTAC
* * * *
2489217 AACTCATTATAAATTCCGTAGTTTTTGCACACATAGTGCCGATACGGTAATTCACAAACTCATTA
1 AACTCATTATAAATTACTTAG--GTTGCACACATAGT-CTGATACGGTAATTCACAAACTCATTA
* * *
2489282 TGAGTTACGTGGGTTGCAGACACAATGTCGATACGGTAATTCACA
63 TGAATTACGTAGGTTGCACACACAATG-CGATACGGTAATTCACA
*
2489327 AACTCATTATAAATTACTTAGGTTGCACACATAGTACTGATACGGT-ACTCACAAACTCATTATG
1 AACTCATTATAAATTACTTAGGTTGCACACATAGT-CTGATACGGTAATTCACAAACTCATTATG
* * *
2489391 AATTACGTAGGTTACACACACAGTGCCAATACGGTAATTCACA
65 AATTACGTAGGTTGCACACACAATG-CGATACGGTAATTCACA
* * * * * *
2489434 AACTCATTATGAATTACATGGGTTGCACATATAGTCTCAATACGATAATTCACAAACTCATTATG
1 AACTCATTATAAATTACTTAGGTTGCACACATAGTCT-GATACGGTAATTCACAAACTCATTATG
* * * *
2489499 AATTACTTAGGTTGCACACATACTGCTGATACGATAATTCACAA
65 AATTACGTAGGTTGCACACACAATGC-GATACGGTAATTCAC-A
* * *
2489543 AACTTATTATGAATTA-TGTGGGTTGCACACATA
1 AACTCATTATAAATTACT-TAGGTTGCACACATA
2489576 CTGCCAATAT
Statistics
Matches: 215, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
106 2 0.01
107 91 0.42
108 73 0.34
109 30 0.14
110 19 0.09
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (106 bp):
AACTCATTATAAATTACTTAGGTTGCACACATAGTCTGATACGGTAATTCACAAACTCATTATGA
ATTACGTAGGTTGCACACACAATGCGATACGGTAATTCACA
Found at i:2489530 original size:161 final size:163
Alignment explanation
Indices: 2489217--2489590 Score: 491
Period size: 161 Copynumber: 2.3 Consensus size: 163
2489207 TGAATATTAC
* * * *
2489217 AACTCATTATAAATTCCGTAGTTTTTGCACACATAGTGCCGATACGGTAATTCACAAACTCATTA
1 AACTCATTATGAATTACGTAG--GTTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTA
* * * * * *
2489282 TGAGTTACGTGGGTTGCAGACACAATGTCGATACGGTAATTCACAAACTCATTATAAATTACTTA
64 TGAATTACATGGGTTGCACACACAATCTCAATACGATAATTCACAAACTCATTATAAATTACTTA
* *
2489347 GGTTGCACACATAGTACTGATACGGT-ACTCAC-A
129 GGTTGCACACATACTACTGATACGATAACTCACAA
* *
2489380 AACTCATTATGAATTACGTAGGTTACACACACAGTGCCAATACGGTAATTCACAAACTCATTATG
1 AACTCATTATGAATTACGTAGGTTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATG
* * * *
2489445 AATTACATGGGTTGCACATATAGTCTCAATACGATAATTCACAAACTCATTATGAATTACTTAGG
66 AATTACATGGGTTGCACACACAATCTCAATACGATAATTCACAAACTCATTATAAATTACTTAGG
* *
2489510 TTGCACACATACTGCTGATACGATAATTCACAA
131 TTGCACACATACTACTGATACGATAACTCACAA
* * * * *
2489543 AACTTATTATGAATTATGTGGGTTGCACACATACTGCCAATATGGTAA
1 AACTCATTATGAATTACGTAGGTTGCACACATAGTGCCAATACGGTAA
2489591 ATGCAACATA
Statistics
Matches: 182, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
161 116 0.64
162 5 0.03
163 61 0.34
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (163 bp):
AACTCATTATGAATTACGTAGGTTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATG
AATTACATGGGTTGCACACACAATCTCAATACGATAATTCACAAACTCATTATAAATTACTTAGG
TTGCACACATACTACTGATACGATAACTCACAA
Found at i:2493520 original size:81 final size:81
Alignment explanation
Indices: 2493338--2493654 Score: 334
Period size: 81 Copynumber: 3.9 Consensus size: 81
2493328 CCTTTCTTCT
* * * * * * * *
2493338 TTTACCCAAAGGTATTTATCCTTTCATCTAACTTGCATATTTGACACTTTTTCTGT-CAAATGCA
1 TTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAATTGACAC-CTTTCT-TCCAAATACA
* * * *
2493402 CAGCTAGTCCAAT-ATTCT
64 CAGATAGGCCATTCA-TCC
* * ** * * *
2493420 TTTACTCAACAGTGTTTAACCATTCATCTAACTAGCATAATTGGGACTTTTCTTCGAAATACATA
1 TTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATACACA
2493485 GATAGGCCATTCATCC
66 GATAGGCCATTCATCC
* *
2493501 TTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATGCACA
1 TTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATACACA
* *
2493566 GCTAGGCCATTCATCT
66 GATAGGCCATTCATCC
* * *
2493582 TTTACTCAACGGTATTTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGT-CAAATGCAC
1 TTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCT-TCCAAATACAC
*
2493646 AGTTAGGCC
65 AGATAGGCC
2493655 TCAAAGGCAC
Statistics
Matches: 200, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.00
81 160 0.80
82 39 0.19
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (81 bp):
TTTACTCAACGGTATTTAACCATTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATACACA
GATAGGCCATTCATCC
Found at i:2493792 original size:68 final size:68
Alignment explanation
Indices: 2493597--2494130 Score: 741
Period size: 68 Copynumber: 7.9 Consensus size: 68
2493587 TCAACGGTAT
* * *
2493597 TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
2493662 CAC
66 CAC
* * * * * *
2493665 TTAGTCTTTCATCTAA-TTGCATAATTGACACCTTTCTGTTAAATACACAGTTAGGCCTCAAACG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
*
2493729 AAC
66 CAC
* * *
2493732 TTATCCTTTCATCTAATTGGCATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
2493797 CAC
66 CAC
* * * *
2493800 TTAGTCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCATAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
*
2493865 AAC
66 CAC
*
2493868 TTAGCCTTTCATCTAACTGGCATATTTGACA-CTTTTCTGTCAAATGCACAGTTAGGCCTCAAAG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTT-TGTCAAATGCACAGTTAGGCCTCAAAG
*
2493932 ACAC
65 GCAC
* *
2493936 TTAGCCTTTTATCTAACTGACATAATTGACACC-TTTTGTCAAATGCACAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
*
2494000 CAT
66 CAC
* * * * * *
2494003 TTAGCCTTTCATCTAACTGCCATAGTTGACACCTTTATATCAAATGCATAGTTAGTCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
*
2494068 CAT
66 CAC
* * *
2494071 TTAACCTTTCATCTAACTGACATAATTGACACATTTTTGTCAAATGCACAGTTAGGCCTC
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTC
2494131 TAATATTATA
Statistics
Matches: 410, Mismatches: 52, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
67 122 0.30
68 287 0.70
69 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (68 bp):
TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGG
CAC
Found at i:2493975 original size:203 final size:204
Alignment explanation
Indices: 2493597--2494130 Score: 797
Period size: 203 Copynumber: 2.6 Consensus size: 204
2493587 TCAACGGTAT
* * * *
2493597 TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATATCAAATGCATAGTTAGGCCTCAAAGG
* * * * *
2493662 CACTTAGTCTTTCATCTAA-TTGCATAATTGACACCTTTCTGTTAAATACACAGTTAGGCCTCAA
66 CACTTAGCCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAA
* * *
2493726 ACGAACTTATCCTTTCATCTAATTGGCATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCCT
131 ACGAACTTAGCCTTTCATCTAACTGACATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCCT
2493791 CAAAGGCAC
196 CAAAGGCAC
* *
2493800 TTAGTCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCATAGTTAGGCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATATCAAATGCATAGTTAGGCCTCAAAGG
* *
2493865 AACTTAGCCTTTCATCTAACTGGCATATTTGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAA
66 CACTTAGCCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAA
* *
2493930 A-GACACTTAGCCTTTTATCTAACTGACATAATTGACACC-TTTTGTCAAATGCACAGTTAGGCC
131 ACGA-ACTTAGCCTTTCATCTAACTGACATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCC
*
2493993 TCAAAGGCAT
195 TCAAAGGCAC
* * *
2494003 TTAGCCTTTCATCTAACTGCCATAGTTGACACCTTTATATCAAATGCATAGTTAGTCCTCAAAGG
1 TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATATCAAATGCATAGTTAGGCCTCAAAGG
* * *
2494068 CATTTAACCTTTCATCTAACTGACATAATTGACACATTTT-TGTCAAATGCACAGTTAGGCCTC
66 CACTTAGCCTTTCATCTAACTGGCATAATTGACAC-TTTTCTGTCAAATGCACAGTTAGGCCTC
2494131 TAATATTATA
Statistics
Matches: 299, Mismatches: 29, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
203 224 0.75
204 75 0.25
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (204 bp):
TTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATATCAAATGCATAGTTAGGCCTCAAAGG
CACTTAGCCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAA
ACGAACTTAGCCTTTCATCTAACTGACATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCCT
CAAAGGCAC
Found at i:2494087 original size:271 final size:271
Alignment explanation
Indices: 2493597--2494130 Score: 773
Period size: 271 Copynumber: 2.0 Consensus size: 271
2493587 TCAACGGTAT
*
2493597 TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGG
1 TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGA
* * *
2493662 CACTTAGTCTTTCATCTAATTGCATAATTGACACCTTTCTGTTAAATACACAGTTAGGCCTCAAA
66 CACTTAGCCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATACACAGTTAGGCCTCAAA
* * * * *
2493727 CGAACTTATCCTTTCATCTAATTGGCATAATTAACACCTTTTTGTCAAATGCACAGTTAGGCCTC
131 CGAACTTAGCCTTTCATCTAACTGCCATAATTAACACCTTTATATCAAATGCACAGTTAGGCCTC
** * * *
2493792 AAAGGCACTTAGTCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCATAGTTAGGC
196 AAAGGCACTTAACCTTTCATCTAACTGACATAATTGACACATTTCTATCAAATGCACAGTTAGGC
2493857 CTCAAAGGAAC
261 CTCAAAGGAAC
* * * * *
2493868 TTAGCCTTTCATCTAACTGGCATATTTGACACTTTTCTGTCAAATGCACAGTTAGGCCTCAAAGA
1 TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGA
* *
2493933 CACTTAGCCTTTTATCTAACTGACATAATTGACACCTTT-TGTCAAATGCACAGTTAGGCCTCAA
66 CACTTAGCCTTTCATCTAACTG-CATAATTGACACCTTTCTGTCAAATACACAGTTAGGCCTCAA
* * * * * * *
2493997 AGGCATTTAGCCTTTCATCTAACTGCCATAGTTGACACCTTTATATCAAATGCATAGTTAGTCCT
130 ACGAACTTAGCCTTTCATCTAACTGCCATAATTAACACCTTTATATCAAATGCACAGTTAGGCCT
* * *
2494062 CAAAGGCATTTAACCTTTCATCTAACTGACATAATTGACACATTTTTGTCAAATGCACAGTTAGG
195 CAAAGGCACTTAACCTTTCATCTAACTGACATAATTGACACATTTCTATCAAATGCACAGTTAGG
2494127 CCTC
260 CCTC
2494131 TAATATTATA
Statistics
Matches: 231, Mismatches: 31, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
271 215 0.93
272 16 0.07
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (271 bp):
TTAGCCATTCATCTAACTAGCATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCTCAAAGA
CACTTAGCCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATACACAGTTAGGCCTCAAA
CGAACTTAGCCTTTCATCTAACTGCCATAATTAACACCTTTATATCAAATGCACAGTTAGGCCTC
AAAGGCACTTAACCTTTCATCTAACTGACATAATTGACACATTTCTATCAAATGCACAGTTAGGC
CTCAAAGGAAC
Found at i:2494464 original size:55 final size:55
Alignment explanation
Indices: 2494338--2494497 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 55
2494328 ACTTATATTT
* * * * * *
2494338 CCCATACAGAACTTCATACACTTAGTATAAATTTCTTAG-TTCGCACATATAATA
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAATA
* * * *
2494392 CCTATACGGAAATTCATACACTTAATATGAATTTGTTAGTTTTGCACACAAAATG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAATA
2494447 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTATGTTTTTGCACAC
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTA-G-TTTTGCACAC
2494498 TTAGTGCCAT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.37
55 46 0.51
56 1 0.01
57 10 0.11
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (55 bp):
CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAATA
Found at i:2499064 original size:81 final size:80
Alignment explanation
Indices: 2498830--2499064 Score: 240
Period size: 81 Copynumber: 2.9 Consensus size: 80
2498820 TATAATGACT
* * * * * * *
2498830 TTATTGTTTTACCCAA-ATGTATTTAGCCTTTCATCTAACTTGCATATTTGACACTTTTCTGTCA
1 TTATTATTTTACTCAACA-GTATTTAACCATTCATCTAACTAGCATAATTGACACATTTCT-TCA
* *
2498894 AATGCACAACTAGTCCA
64 AATGCACAGCTAGGCCA
* * * * *
2498911 TTATTCTTTTATTCAACAGTGTTTAATCATTCATCTAAATAGCATAATTGACACATTTCTTCCAA
1 TTATTATTTTACTCAACAGTATTTAACCATTCATCTAACTAGCATAATTGACACATTTCTT-CAA
*
2498976 ATACACAGCTAGGCCA
65 ATGCACAGCTAGGCCA
* * * *
2498992 TTCA-TATTTTACTCAACGGTATTTAACCGTTCATCTAACTAACATAATTGACACCTTTCTATCA
1 TT-ATTATTTTACTCAACAGTATTTAACCATTCATCTAACTAGCATAATTGACACATTTCT-TCA
2499056 AATGCACAG
64 AATGCACAG
2499065 TTAGTCCTCA
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 122 0.97
82 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (80 bp):
TTATTATTTTACTCAACAGTATTTAACCATTCATCTAACTAGCATAATTGACACATTTCTTCAAA
TGCACAGCTAGGCCA
Found at i:2499112 original size:68 final size:68
Alignment explanation
Indices: 2499021--2499685 Score: 814
Period size: 68 Copynumber: 9.8 Consensus size: 68
2499011 TATTTAACCG
** * * *
2499021 TTCATCTAACTAACATAATTGACACCTTTCTATCAAATGCACAGTTAGTCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499086 CCT
66 CCT
* * * * * *
2499089 TTTATCTAACTGGCATAATTGACACATTTTTGTGAAATGCACAATTAGGCCTCAAAGGTACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499154 CCT
66 CCT
*
2499157 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
2499222 TCT
66 CCT
* ** *
2499225 TTCATCTAATTGGCATAATTTTCACCTTTCTGTCAAATGTACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499290 CCT
66 CCT
* * * * * * *
2499293 TTCATCTAACTGGCATAATTGACACATTTTTTTCAAATGCACAATTAGGCCTCAAAGGAAGTTAA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
2499358 CCG
66 CCT
* * * * * *
2499361 TTCATCTAACTTGCATAATTGATATCTTTATGTGAAATGCACAGTTAGGCCTTAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499426 CCT
66 CCT
* * * * *
2499429 TTTATCTAACTGGCAGAATAT-AAACCTTTCTGTCAAATGCATAGTTAGGCCAT-AAAGGAACTT
1 TTCATCTAACTGGCATAAT-TGACACCTTTCTGTCAAATGCACAGTTAGGCC-TCAAAGGCACTT
2499492 AGCCT
64 AGCCT
* ** * * * * *
2499497 TTTATCTAACTAACATAATTGATACCTTTATGTTAAATGCTCAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499562 CCT
66 CCT
* * **
2499565 TTCATCTAACTGGCATAATTGACACCTTTCTATTAAATGCACAACTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
2499630 CCT
66 CCT
* * * *
2499633 TCCATCTAACTGACCA-AATTGATACCTTTCTGTCAAATGCAGAGTTAGGCCTC
1 TTCATCTAACTG-GCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTC
2499686 TAATCTTATG
Statistics
Matches: 507, Mismatches: 85, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
67 2 0.00
68 501 0.99
69 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:2499947 original size:54 final size:55
Alignment explanation
Indices: 2499883--2500041 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 55
2499873 TTGATTATTT
* *
2499883 CACATATATTTCCCTTACAGAACTTCATACACTTAGTATGAATTTCTTAG-TTCG
1 CACATATATTTCCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCG
* * * *
2499937 CACATATATTTCCCATACAAAAATTTATACACTTAATATGAATTTCTTAGTTTTG
1 CACATATATTTCCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCG
* * * * *
2499992 TACACAAAGTGCCCATACAGAAATTCATACACTTAGTATGAATTTCTTAG
1 CACATATATTTCCCATACAGAAATTCATACACTTAGTATGAATTTCTTAG
2500042 ATTTTTGCAC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 45 0.50
55 45 0.50
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (55 bp):
CACATATATTTCCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCG
Found at i:2500025 original size:55 final size:55
Alignment explanation
Indices: 2499898--2500053 Score: 197
Period size: 55 Copynumber: 2.8 Consensus size: 55
2499888 ATATTTCCCT
* * * * * *
2499898 TACAGAACTTCATACACTTAGTATGAATTTCTTAG-TTCGCACATATATTTCCCA
1 TACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCA
* * * *
2499952 TACAAAAATTTATACACTTAATATGAATTTCTTAGTTTTGTACACAAAGTGCCCA
1 TACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCA
2500007 TACAGAAATTCATACACTTAGTATGAATTTCTTAGATTTTTGCACAC
1 TACAGAAATTCATACACTTAGTATGAATTTCTTAG--TTTTGCACAC
2500054 TTAGTTCCAT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 31 0.36
55 45 0.53
57 9 0.11
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.37
Consensus pattern (55 bp):
TACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCA
Found at i:2504276 original size:54 final size:54
Alignment explanation
Indices: 2504213--2504778 Score: 774
Period size: 54 Copynumber: 10.5 Consensus size: 54
2504203 TCTGTGGTTT
* *
2504213 TTGCACACATAGTGCCGATACGGTAATTCATAAACTCATTATGAATTACGTGGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * * *
2504267 TTGCACACATAGTGCCAATTCGGTAATTCTCAAACTCATTATGAATTGCATGGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * * * * *
2504321 TTGCACACATAGTGTCGATACAGTAATTCACAAACTCATTGTGAATTATGTAGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * * *
2504375 TTGCACACCTAGTGCCAATACTGTAATTCAAAAACTCATTATGAATTACGTAGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * * * * *
2504429 TTGGACACATA-CGCCGATACGGTAATTCACAAACTGATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* *
2504482 TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTGCGTGGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * *
2504536 TTTCACACATAGTGCCAATACGGTAATTCGCAAACTCATTATGAATTACATGGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * *
2504590 TTGAACACATAGTGCCAATACGATAATTCACAAACTCATTCTGAATTACGTGGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * *
2504644 TTGCACACATAGTGCCAATATGGTAATTCACAAACTCATTATGAATTACTTAGG
1 TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
* * * *
2504698 TTGCACACATAGTGCCGATACAGTAATTCACAAAACTCGTTATGAATTGCGTGGG
1 TTGCACACATAGTGCCAATACGGTAATTCAC-AAACTCATTATGAATTACGTGGG
*
2504753 TTGCACACATAGTGCCAATAAGGTAA
1 TTGCACACATAGTGCCAATACGGTAA
2504779 ATGCAACATA
Statistics
Matches: 444, Mismatches: 66, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
53 46 0.10
54 356 0.80
55 42 0.09
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (54 bp):
TTGCACACATAGTGCCAATACGGTAATTCACAAACTCATTATGAATTACGTGGG
Found at i:2504692 original size:269 final size:271
Alignment explanation
Indices: 2504213--2504772 Score: 851
Period size: 269 Copynumber: 2.1 Consensus size: 271
2504203 TCTGTGGTTT
* * *
2504213 TTGCACACATAGTGCCGATACGGTAATTCATAAACTCATTATGAATTACGTGGGTTGCACACATA
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATA
* * * * * *
2504278 GTGCCAATTCGGTAATTCTCAAACTCATTATGAATTGCATGGGTTGCACACATAGTGTCGATACA
66 GTGCCAATACGGTAATTCGCAAACTCATTATGAATTACATGGGTTGAACACATAGTGCCAATACA
* * *
2504343 GTAATTCACAAACTCATTGTGAATTATGTAGGTTGCACACCTAGTGCCAATACTGTAATTCAAAA
131 GTAATTCACAAACTCATTCTGAATTACGTAGGTTGCACACATAGTGCCAATACTGTAATTCAAAA
* *
2504408 ACTCATTATGAATTACGTAGGTTGGACACATA-CGCCGATACGGTAATTCAC-AAACT-GATTAT
196 ACTCATTATGAATTACGTAGGTTGCACACATAGCGCCGATACAGTAATTCACAAAACTCG-TTAT
*
2504470 GAATTACTTAGG
260 GAATTACGTAGG
* *
2504482 TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTGCGTGGGTTTCACACATA
1 TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATA
2504547 GTGCCAATACGGTAATTCGCAAACTCATTATGAATTACATGGGTTGAACACATAGTGCCAATAC-
66 GTGCCAATACGGTAATTCGCAAACTCATTATGAATTACATGGGTTGAACACATAGTGCCAATACA
* *
2504611 GATAATTCACAAACTCATTCTGAATTACGTGGGTTGCACACATAGTGCCAATA-TGGTAATTCAC
131 G-TAATTCACAAACTCATTCTGAATTACGTAGGTTGCACACATAGTGCCAATACT-GTAATTCAA
* *
2504675 AAACTCATTATGAATTACTTAGGTTGCACACATAGTGCCGATACAGTAATTCACAAAACTCGTTA
194 AAACTCATTATGAATTACGTAGGTTGCACACATAGCGCCGATACAGTAATTCACAAAACTCGTTA
* *
2504740 TGAATTGCGTGGG
259 TGAATTACGTAGG
2504753 TTGCACACATAGTGCCAATA
1 TTGCACACATAGTGCCAATA
2504773 AGGTAAATGC
Statistics
Matches: 263, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
268 2 0.01
269 205 0.78
270 17 0.06
271 38 0.14
272 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (271 bp):
TTGCACACATAGTGCCAATACGATAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATA
GTGCCAATACGGTAATTCGCAAACTCATTATGAATTACATGGGTTGAACACATAGTGCCAATACA
GTAATTCACAAACTCATTCTGAATTACGTAGGTTGCACACATAGTGCCAATACTGTAATTCAAAA
ACTCATTATGAATTACGTAGGTTGCACACATAGCGCCGATACAGTAATTCACAAAACTCGTTATG
AATTACGTAGG
Found at i:2512042 original size:46 final size:46
Alignment explanation
Indices: 2511966--2513521 Score: 740
Period size: 46 Copynumber: 33.6 Consensus size: 46
2511956 ACTATGTTAT
2511966 CATTAAGGCATGAAA-GATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2512011 CATTAAGGCATGAAAGGATGCCATAACTAAAACG-ACTGAATGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCA-TGAACGGATG
* * *
2512057 CATTAAGGCATGAAAGGATTCCATAACTAAAATACATGAACGAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2512103 CATTAA-ACATGAAAGGATGCCATAACTAAAATGTATGAACGGGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACT-AAA---AT------GCATGAACGGATG
* * *
2512158 CATTAAGGCATGAGAGGATG-CATAAATAAAATGCATGAACGAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
*
2512203 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2512249 CATTAAGACATGAAAGGATTCCATAACTAAAATGCATGAACGAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2512295 TATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATA
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2512341 CATTAAGACATGAAAGGATGACATAACTAAAATGCATAAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
** *
2512387 CATTAAGATATGAAAGGATGCCATAACTAAAATGCATGAACGAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * *
2512433 CATTATGGAAT-AATATGATGCCATAACTAAAATGCATGAAAGGATTC
1 CATTAAGGCATGAA-AGGATGCCATAACTAAAATGCATGAACGGA-TG
* * *
2512480 CATAATTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
1 C---ATT--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * * *
2512525 CCATAACTAAAATGTATTAACGGATG-CAT---TAAGA--CATGAAAGGATG
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * * *
2512571 CATAAATAAAATGCGTGAACGAATG-CAT---T--AAGGCATGAAAGGATG
1 CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2512616 CCA-TAACGAAAATGCATGAATGGATG-CAT---T--AAGGCATGAAAGGATG
1 -CATTAA-G-----GCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2512662 CCATAACTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGATG
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * *
2512708 CCATACCTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGATAC
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT-G
* * * * *
2512755 CATAACTAAAATGCATGAACGGA-GGCAT---T--AAGGCATGAAAGGATG
1 CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * *
2512800 CCATAACTAAAATGCATGAACGAATG-CAT---TAAGA--CATGAAAGGATG
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * * * *
2512846 CCATAACTAAAATGCATGGACGGATG-CAT---TAAAA--CATAAAAGGATTC
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGA-TG
** * * *
2512893 CATAACTAAATTACAT-AAACGGAAG-CAT---T--AAGGCATGAAAGGATG
1 CAT---T-AA-GGCATGAAA-GGATGCCATAACTAAAATGCATGAACGGATG
* * * * * * * *
2512938 TCGTAACTAAAATGTATGAACGGATG-CAT---T--AAGGAATAAAAGGATG
1 -C---A-T-TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2512984 CCATAAATAAAATGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATG
1 -CAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2513036 CATTAAGGCATGAAAGGGTGCCATAACTTAAATGTATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2513082 CATTAAGGCATGAAAGGGTGCCATAACTTAAATGTATGAACAGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
** * **
2513128 CATTAAGGCATGAAATAATG-CATAAATAAAATGCATGAACAAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2513173 AATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2513219 CATTAAGGCATAAAAGGATGCCATAACTAAAATGCATGAACGAATA
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2513265 CATTAAGGCATGAAAGGATGCCATACCTAAAATGCATGAACGAAGG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2513311 AATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAATGGAGG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* *
2513357 CATTAAGGTATGAAATGATGCCATAACTAAAATGCATGAACGGATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* **
2513403 CATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACAAATG
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
* * *
2513449 CATTAAGGCATGAAAAGGATGCCGTAACTAAAATGCACGAACGGATT
1 CATTAAGGCATG-AAAGGATGCCATAACTAAAATGCATGAACGGATG
* * * *
2513496 CATTAAAGAATAAAAGGATGGCATAA
1 CATTAAGGCATGAAAGGATGCCATAA
2513522 ATGAAATTAA
Statistics
Matches: 1282, Mismatches: 156, Indels: 145
0.81 0.10 0.09
Matches are distributed among these distances:
40 2 0.00
42 2 0.00
43 4 0.00
44 3 0.00
45 148 0.12
46 990 0.77
47 50 0.04
48 4 0.00
49 3 0.00
50 6 0.00
51 8 0.01
52 23 0.02
53 2 0.00
54 3 0.00
55 23 0.02
56 11 0.01
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (46 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATG
Found at i:2512075 original size:20 final size:20
Alignment explanation
Indices: 2511998--2512075 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
2511988 TAACTAAAAT
*
2511998 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
2512018 GCATGAAAGGATGCCATAACTAAA
1 GCATGAAAGGATG-CAT---TAAG
* *
2512042 ACGACTGAATGGATGCATTAAG
1 GC-A-TGAAAGGATGCATTAAG
2512064 GCATGAAAGGAT
1 GCATGAAAGGAT
2512076 TCCATAACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 20 0.44
21 4 0.09
22 4 0.09
24 4 0.09
25 4 0.09
26 9 0.20
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:2512169 original size:20 final size:20
Alignment explanation
Indices: 2512144--2512223 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 20
2512134 TGTATGAACG
2512144 GGCATGAACGGATGCATTAA
1 GGCATGAACGGATGCATTAA
2512164 GGCATGAGA-GGATGCATAAATAAAA
1 GGCATGA-ACGGATGCAT---T--AA
* *
2512189 TGCATGAACGAATGCATTAA
1 GGCATGAACGGATGCATTAA
*
2512209 GGCATGAAAGGATGC
1 GGCATGAACGGATGC
2512224 CATAACTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
20 29 0.60
21 1 0.02
22 1 0.02
23 1 0.02
24 1 0.02
25 15 0.31
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (20 bp):
GGCATGAACGGATGCATTAA
Found at i:2512182 original size:55 final size:55
Alignment explanation
Indices: 2512091--2512198 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
2512081 AACTAAAATA
* *
2512091 CATGAACGAATGCATTAAACATGAAAGGATGCCATAACTAAAATGTATGAACGGG
1 CATGAACGAATGCATTAAACATGAAAGGATGCCATAAATAAAATGCATGAACGGG
* * *
2512146 CATGAACGGATGCATTAAGGCATGAGAGGATG-CATAAATAAAATGCATGAACG
1 CATGAACGAATGCATTAA-ACATGAAAGGATGCCATAAATAAAATGCATGAACG
2512199 AATGCATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
55 36 0.77
56 11 0.23
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (55 bp):
CATGAACGAATGCATTAAACATGAAAGGATGCCATAAATAAAATGCATGAACGGG
Found at i:2512301 original size:92 final size:92
Alignment explanation
Indices: 2512145--2513008 Score: 852
Period size: 92 Copynumber: 9.1 Consensus size: 92
2512135 GTATGAACGG
* * *
2512145 GCATGAACGGATGCATTAAGGCATGAGAGGATG-CATAAATAAAATGCATGAACGAATGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
2512209 GGCATGAAAGGATGCCATAACTAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * *
2512236 GCATGAAAGGATGCATTAAGACATGAAAGGATTCCATAACTAAAATGCATGAACGAATGTATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
2512301 GGCATGAAAGGATGCCATAACTAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * * *
2512328 GCATGAACGGATACATTAAGACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
**
2512393 GATATGAAAGGATGCCATAACTAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * * * * *
2512420 GCATGAACGAATGCATTATGGA-AT-AATATGATGCCATAACTAAAATGCATGAAAGGATTCCAT
1 GCATGAACGGATGCATTA-AGACATGAA-AGGATGCCATAACTAAAATGCATG-AACGAATGC--
* *
2512483 AATTAAAATGCATGAAAGGATG-CAT---T--AAG
61 -ATT--AAGGCATGAAAGGATGCCATAACTAAAAT
*
2512512 GCATGAAAGGATGCCATAACTAA-A-ATGTATTAACGGATG-CATTAAGACATGAAAGGATGCAT
1 GCATGAACGGATG-CAT---TAAGACATG-A--AA-GGATGCCA-T-A-AC-T-AAA--ATGC--
* * *
2512574 AAATAAAATGCGTGAACGAATGCATTAAGGCATGAAAGGATGCCATAACGAAAAT
49 --AT-GAACG--------AATGCATTAAGGCATGAAAGGATGCCATAACTAAAAT
* * *
2512629 GCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
*
2512694 GGCATGAAAGGATGCCATACCTAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * * *
2512721 GCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGGAGGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
2512786 GGCATGAAAGGATGCCATAACTAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * *
2512813 GCATGAACGAATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGGACGGATGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
** * * *
2512878 AACATAAAAGGATTCCATAACTAAATT
66 GGCATGAAAGGATGCCATAACTAAAAT
* * * * * * * *
2512905 ACATAAACGGAAGCATTAAGGCATGAAAGGATGTCGTAACTAAAATGTATGAACGGATGCATTAA
1 GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
* * *
2512970 GGAATAAAAGGATGCCATAAATAAAAT
66 GGCATGAAAGGATGCCATAACTAAAAT
*
2512997 GCATGAAAGGAT
1 GCATGAACGGAT
2513009 TCCATAACTA
Statistics
Matches: 646, Mismatches: 80, Indels: 93
0.79 0.10 0.11
Matches are distributed among these distances:
91 31 0.05
92 480 0.74
93 10 0.02
94 4 0.01
96 6 0.01
97 6 0.01
98 19 0.03
99 1 0.00
100 5 0.01
101 3 0.00
102 3 0.00
104 4 0.01
105 4 0.01
107 3 0.00
108 6 0.01
109 2 0.00
110 1 0.00
111 21 0.03
112 7 0.01
113 6 0.01
114 1 0.00
115 3 0.00
116 6 0.01
117 14 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (92 bp):
GCATGAACGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
GGCATGAAAGGATGCCATAACTAAAAT
Found at i:2512367 original size:138 final size:138
Alignment explanation
Indices: 2512145--2513521 Score: 1100
Period size: 138 Copynumber: 9.6 Consensus size: 138
2512135 GTATGAACGG
* * * * *
2512145 GCATGAACGGATGCATTAAGGCATGAGAGGATG-CATAAATAAAATGCATGAACGAATGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
* * *
2512209 GGCATGAAAGGATGCCATAACTAAAATGCATGAAA-GGATGCATTAAGACATGAAAGGATTCCAT
66 GACATGAAAGGATGACATAACTAAAATGCAT-AAACGGATGCATTAAGACATGAAAGGATGCCAT
2512273 AACTAAAAT
130 AACTAAAAT
*
2512282 GCATGAACGAATGTATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
*
2512347 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGATATGAAAGGATGCCATA
66 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
2512412 ACTAAAAT
131 ACTAAAAT
* * * * *
2512420 GCATGAACGAATGCATTATGGAAT-AATATGATGCCATAACTAAAATGCATGAAAGGATTCCATA
1 GCATGAACGAATGCATTAAGGCATGAA-AGGATGCCATAACTAAAATGCATGAACGGA-T--A-C
* ** *
2512484 ATTAAAATGCATGAAAGGATG-CATTAAGGCATGAAAGGATGCCAT-AACTAAAATGTATTAACG
61 ATTAAGA--CATGAAAGGATGACA-TAA--C-T-AAA--ATG-CATAAAC--GGATGCATT----
*
2512547 GATGCATTAAGACATGAAAGGATG-CATAAATAAAAT
110 --------AAGACATGAAAGGATGCCATAACTAAAAT
* * * *
2512583 GCGTGAACGAATGCATTAAGGCATGAAAGGATGCCATAACGAAAATGCATGAATGGATGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
* * * *
2512648 GGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATA
66 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
*
2512713 CCTAAAAT
131 ACTAAAAT
* * **
2512721 GCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGGAGGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
* * * *
2512786 GGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGACATGAAAGGATGCCATA
66 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
2512851 ACTAAAAT
131 ACTAAAAT
* * ** * * * * *
2512859 GCATGGACGGATGCATTAAAACATAAAAGGATTCCATAACTAAATTACATAAACGGA-AGCATTA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATA-CATTA
* * * * * *
2512923 AGGCATGAAAGGATGTCGTAACTAAAATGTATGAACGGATGCATTAAGGA-ATAAAAGGATGCCA
65 AGACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAA-GACATGAAAGGATGCCA
*
2512987 TAAATAAAAT
129 TAACTAAAAT
* * * * * * *
2512997 GCATGAAAGGATTCCATAACTAAAATGCATGAACGGATG-CAT---T--AAGGCATGAAAGGGTG
1 GCATG-AACGAATGCAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATG-AA-CG-G
* * * ** *
2513056 CCATA-ACTTAA-ATGTATGAACGGATG-CATTAAGGCATGAAAGGGTGCCAT-AACTTAAATGT
57 --ATACA-TTAAGA--CATGAAAGGATGACA-TAA--C-T-AAA--ATG-CATAAAC--GGATGC
* * * **
2513117 ATGAACAGATGCATTAAGGCATGAAATAATGCATAAATAAAAT
107 ATTAAGACATG-A--AAGG-ATGCCATAA--C-----TAAAAT
* * * *
2513160 GCATGAACAAATGAATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
* * * * * * *
2513225 GGCATAAAAGGATGCCATAACTAAAATGCATGAACGAATACATTAAGGCATGAAAGGATGCCATA
66 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
*
2513290 CCTAAAAT
131 ACTAAAAT
* * * * **
2513298 GCATGAACGAAGGAATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAATGGAGGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
** * * *
2513363 GGTATGAAATGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCCATA
66 GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
2513428 ACTAAAAT
131 ACTAAAAT
* * * *
2513436 GCATGAACAAATGCATTAAGGCATGAAAAGGATGCCGTAACTAAAATGCACGAACGGATTCATTA
1 GCATGAACGAATGCATTAAGGCATG-AAAGGATGCCATAACTAAAATGCATGAACGGATACATT-
* *
2513501 AAGA-ATAAAAGGATGGCATAA
64 AAGACATGAAAGGATGACATAA
2513522 ATGAAATTAA
Statistics
Matches: 1011, Mismatches: 143, Indels: 170
0.76 0.11 0.13
Matches are distributed among these distances:
137 50 0.05
138 563 0.56
139 57 0.06
140 5 0.00
141 2 0.00
142 8 0.01
143 12 0.01
144 40 0.04
145 6 0.01
146 6 0.01
147 2 0.00
148 7 0.01
149 16 0.02
150 17 0.02
151 17 0.02
152 15 0.01
153 7 0.01
154 2 0.00
155 6 0.01
156 7 0.01
157 40 0.04
158 13 0.01
159 7 0.01
160 1 0.00
161 2 0.00
162 9 0.01
163 77 0.08
164 17 0.02
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (138 bp):
GCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
GACATGAAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCCATA
ACTAAAAT
Found at i:2512483 original size:72 final size:72
Alignment explanation
Indices: 2512257--2512819 Score: 286
Period size: 72 Copynumber: 8.1 Consensus size: 72
2512247 TGCATTAAGA
* * * *
2512257 CATGAAAGGATTCCATAACTAAAATGCATGAACGAATGTATTAAGGCATGAAAGGATGCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAAAGGATGCCATAAC
2512322 TAAAATG
66 TAAAATG
* * * *
2512329 CATGAACGGAT-ACAT---TAAGA--CATGAAAGGATGACATAACTAA--AATGCATAAACGGAT
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATG-CAT---TAAGGAATG---AAA-GGAT
*
2512386 G-CAT---TAAGAT-
58 GCCATAACTAAAATG
* * *
2512396 -ATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTATGGAAT-AATATGATGCCATAA
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAA-AGGATGCCATAA
2512459 CTAAAATG
65 CTAAAATG
* * * *
2512467 CATGAAAGGATTCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAAAGGATGCCATAAC
2512532 TAAAATG
66 TAAAATG
* * * * * * ** * *
2512539 TATTAACGGATG-CAT---TAAGA--CATGAAAGGATGCATAAATAAAATGCGTGAACGAATG-C
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCAT---T--AAGGAATGAAAGGATGCC
*
2512597 AT---T--AAGG
61 ATAACTAAAATG
* * * *
2512604 CATGAAAGGATGCCATAACGAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAAAGGATGCCATAAC
2512669 TAAAATG
66 TAAAATG
* * * * * *
2512676 CATGAACGGATG-CAT---T--AAGGCATGAAAGGATGCCATACCTAAAATGCATGAACGGATG-
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATG-CAT---T--AAGGAATGAAAGGATGC
*
2512734 CAT---T--AAGG
60 CATAACTAAAATG
* * * * *
2512742 CATGAAAGGATACCATAACTAAAATGCATGAACGGAGGCATTAAGGCATGAAAGGATGCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAAAGGATGCCATAAC
2512807 TAAAATG
66 TAAAATG
2512814 CATGAA
1 CATGAA
2512820 CGAATGCATT
Statistics
Matches: 373, Mismatches: 59, Indels: 118
0.68 0.11 0.21
Matches are distributed among these distances:
65 12 0.03
66 96 0.26
67 22 0.06
68 21 0.06
69 4 0.01
70 22 0.06
71 50 0.13
72 144 0.39
73 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (72 bp):
CATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGAATGAAAGGATGCCATAAC
TAAAATG
Found at i:2512511 original size:164 final size:163
Alignment explanation
Indices: 2512302--2512642 Score: 513
Period size: 164 Copynumber: 2.1 Consensus size: 163
2512292 ATGTATTAAG
*
2512302 GCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAAGACATGAAAGGATGACATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATACATTAAGACATGAAAGGATGACATAA
* *
2512367 CTAAAATGCATAAACGGATGCATTAAGATATGAAAGGATGCCATAACTAAAATGCATGAACGAAT
66 CTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATG-CATAAATAAAATGCATGAACGAAT
* * *
2512432 GCATTATGGAAT-AATATGATGCCATAACTAAAAT
130 GCATTAAGGAATGAA-AGGATGCCATAACGAAAAT
* * * * *
2512466 GCATGAAAGGATTCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATACATTAAGACATGAAAGGATGACATAA
* * *
2512531 CTAAAATGTATTAACGGATGCATTAAGACATGAAAGGATGCATAAATAAAATGCGTGAACGAATG
66 CTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCATAAATAAAATGCATGAACGAATG
*
2512596 CATTAAGGCATGAAAGGATGCCATAACGAAAAT
131 CATTAAGGAATGAAAGGATGCCATAACGAAAAT
*
2512629 GCATGAATGGATGC
1 GCATGAAAGGATGC
2512643 ATTAAGGCAT
Statistics
Matches: 159, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
163 61 0.38
164 98 0.62
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (163 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATACATTAAGACATGAAAGGATGACATAA
CTAAAATGCATAAACGGATGCATTAAGACATGAAAGGATGCATAAATAAAATGCATGAACGAATG
CATTAAGGAATGAAAGGATGCCATAACGAAAAT
Found at i:2512997 original size:531 final size:531
Alignment explanation
Indices: 2511966--2513528 Score: 2267
Period size: 531 Copynumber: 2.9 Consensus size: 531
2511956 ACTATGTTAT
*
2511966 CATTAAGGCATGAAA-GATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGAT
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACGGATGCATTAAGGCATGAAAGGAT
* * * * *
2512030 GCCATAACTAAAACGACTGAATGGATGCATTAAGGCATGAAAGGATTCCATAACTAAAATACATG
66 GCCATAACTAAAATG-CTGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATG
*
2512095 AACGAATGCATTAA-ACATGAAAGGATGCCATAACTAAAATGTATGAACGGGCATGAACGGATGC
130 AACGAATGCATTAAGGCATGAAAGGATGCCATAACT-AAA---AT------GCATGAACGGATGC
* *
2512159 ATTAAGGCATGAGAGGATG-CATAAATAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATG
185 ATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATG
* * * *
2512223 CCATAACTAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATTCCATAACTAAAATGCATGA
250 CCATAACTAAAATGCATGAACGGAGGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGA
* *
2512288 ACGAATGTATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAAGACATG
315 ACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATG
* * ** *
2512353 AAAGGATGACATAACTAAAATGCATAAACGGATGCATTAAGATATGAAAGGATGCCATAACTAAA
380 AAAGGATGCCATAACTAAAATGCATAAACGGAAGCATTAAGGCATGAAAGGATGCCGTAACTAAA
* * * * *
2512418 ATGCATGAACGAATGCATTATGGAATAATATGATGCCATAACTAAAATGCATGAAAGGATTCCAT
445 ATGCATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATGAAAGGATTCCAT
*
2512483 AATTAAAATGCATGAAAGGATG
510 AACTAAAATGCATGAAAGGATG
* *
2512505 CATTAAGGCATGAAAGGATGCCATAACTAAAATGTATTAACGGATGCATTAAGACATGAAAGGAT
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACGGATGCATTAAGGCATGAAAGGAT
* *
2512570 G-CATAAATAAAATGCGTGAACGAATGCATTAAGGCATGAAAGGATGCCATAACGAAAATGCATG
66 GCCATAACTAAAATGC-TGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATG
* *
2512634 AATGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCAT
130 AACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCAT
* * *
2512699 GAAAGGATGCCATACCTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATACCATAACTAA
195 GAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAA
*
2512764 AATGCATGAACGGAGGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCAT
260 AATGCATGAACGGAGGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGAATGCAT
* * * * *
2512829 TAAGACATGAAAGGATGCCATAACTAAAATGCATGGACGGATGCATTAAAACATAAAAGGATTCC
325 TAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCC
* * * *
2512894 ATAACTAAATTACATAAACGGAAGCATTAAGGCATGAAAGGATGTCGTAACTAAAATGTATGAAC
390 ATAACTAAAATGCATAAACGGAAGCATTAAGGCATGAAAGGATGCCGTAACTAAAATGCATGAAC
2512959 GGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATGAAAGGATTCCATAACTAAAATG
455 GGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATGAAAGGATTCCATAACTAAAATG
*
2513024 CATGAACGGATG
520 CATGAAAGGATG
* * *
2513036 CATTAAGGCATGAAAGGGTGCCATAACTTAAATGTATGAACGGATGCATTAAGGCATGAAAGGGT
1 CATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACGGATGCATTAAGGCATGAAAGGAT
* * ** *
2513101 GCCATAACTTAAATGTATGAAC-AGATGCATTAAGGCATGAAATAATG-CATAAATAAAATGCAT
66 GCCATAACTAAAATG-CTGAACGA-ATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCAT
* * *
2513164 GAACAAATGAATTAAGGCATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAAGGCA
129 GAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCA
* * *
2513229 TAAAAGGATGCCATAACTAAAATGCATGAACGAATACATTAAGGCATGAAAGGATGCCATACCTA
194 TGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTA
* * * * *
2513294 AAATGCATGAACGAAGGAATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAATGGAGGCA
259 AAATGCATGAACGGAGGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGAATGCA
* *
2513359 TTAAGGTATGAAATGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGC
324 TTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGC
* * *
2513424 CATAACTAAAATGCATGAAC-AAATGCATTAAGGCATGAAAAGGATGCCGTAACTAAAATGCACG
389 CATAACTAAAATGCATAAACGGAA-GCATTAAGGCATG-AAAGGATGCCGTAACTAAAATGCATG
* * * *
2513488 AACGGATTCATTAAAGAATAAAAGGATGGCATAAATGAAAT
452 AACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAAT
2513529 TAATGAATAA
Statistics
Matches: 923, Mismatches: 92, Indels: 25
0.89 0.09 0.02
Matches are distributed among these distances:
530 34 0.04
531 638 0.69
532 97 0.11
536 2 0.00
538 1 0.00
539 84 0.09
540 67 0.07
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (531 bp):
CATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACGGATGCATTAAGGCATGAAAGGAT
GCCATAACTAAAATGCTGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGA
ACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATG
AAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAACTAAA
ATGCATGAACGGAGGCATTAAGGCATGAAAGGATACCATAACTAAAATGCATGAACGAATGCATT
AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCCA
TAACTAAAATGCATAAACGGAAGCATTAAGGCATGAAAGGATGCCGTAACTAAAATGCATGAACG
GATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATGAAAGGATTCCATAACTAAAATGC
ATGAAAGGATG
Found at i:2513006 original size:26 final size:26
Alignment explanation
Indices: 2512976--2513036 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
2512966 TTAAGGAATA
2512976 AAAGGATGCCATAAATAAAATGCATG
1 AAAGGATGCCATAAATAAAATGCATG
* *
2513002 AAAGGATTCCATAACTAAAATGCATG
1 AAAGGATGCCATAAATAAAATGCATG
*
2513028 AACGGATGC
1 AAAGGATGC
2513037 ATTAAGGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (26 bp):
AAAGGATGCCATAAATAAAATGCATG
Found at i:2513017 original size:72 final size:72
Alignment explanation
Indices: 2512925--2513081 Score: 217
Period size: 72 Copynumber: 2.2 Consensus size: 72
2512915 AAGCATTAAG
* *
2512925 GCATGAAAGGATGTCGTAACTAAAATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAA
1 GCATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAAGGAATAAAAGGATGCCATAA
2512990 ATAAAAT
66 ATAAAAT
* * *
2512997 GCATGAAAGGAT-TCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGGTGCCATA
1 GCATGAAAGGATGT-CATAACTAAAATGCATGAACGGATGCATTAAGGAATAAAAGGATGCCATA
* *
2513061 ACTTAAAT
65 AATAAAAT
* *
2513069 GTATGAACGGATG
1 GCATGAAAGGATG
2513082 CATTAAGGCA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
71 1 0.01
72 73 0.99
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (72 bp):
GCATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAAGGAATAAAAGGATGCCATAA
ATAAAAT
Found at i:2513020 original size:118 final size:118
Alignment explanation
Indices: 2512884--2513258 Score: 363
Period size: 118 Copynumber: 3.0 Consensus size: 118
2512874 TTAAAACATA
* * *
2512884 AAAGGATTCCATAACTAAATTACATAAACGGAAGCATTAAGGCATGAAAGGATGTCGTAACTAAA
1 AAAGGATTCCATAACTAAAATACATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAA
2512949 ATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATG
66 ATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATG
* * * * *
2513002 AAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGGTGCCATAACTTAA
1 AAAGGATTCCATAACTAAAATACATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAA
* * * * * *
2513067 ATGTATGAACGGATGCATTAAGGCATGAAAGGGTGCCATAACTTAAATGTATG
66 ATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATG
* * * * * *
2513120 AACAGATGCATTAAGGCATGAAATAATGCATAAATAAAATGCATGAACAAATGAATTAAGGCATG
1 AA-AG--G-ATT---CCAT-AACTAA--AATACAT-AAA--C--G---GAA-GCATTAAGGCATG
* * * *
2513185 AAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAAGGCATAAAAGGATGCCATAACTAAA
47 AAAGGATGCCATAACTAAAATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAA
2513250 ATGCATG
112 ATGCATG
2513257 AA
1 AA
2513259 CGAATACATT
Statistics
Matches: 207, Mismatches: 31, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
118 106 0.51
119 2 0.01
121 1 0.00
122 3 0.01
125 3 0.01
126 5 0.02
128 4 0.02
129 2 0.01
131 1 0.00
133 1 0.00
136 1 0.00
137 78 0.38
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (118 bp):
AAAGGATTCCATAACTAAAATACATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAA
ATGTATGAACGGATGCATTAAGGAATAAAAGGATGCCATAAATAAAATGCATG
Found at i:2513048 original size:20 final size:20
Alignment explanation
Indices: 2513023--2513095 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
2513013 TAACTAAAAT
2513023 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* * *
2513043 GCATGAAAGGGTGCCATAACTTAAAT
1 GCATGAACGGATG-C---A-TT-AAG
*
2513069 GTATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
2513089 GCATGAA
1 GCATGAA
2513096 AGGGTGCCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 19 0.49
21 3 0.08
22 1 0.03
24 1 0.03
25 3 0.08
26 12 0.31
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (20 bp):
GCATGAACGGATGCATTAAG
Found at i:2513074 original size:26 final size:26
Alignment explanation
Indices: 2513045--2513121 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
2513035 GCATTAAGGC
2513045 ATGAAAGGGTGCCATAACTTAAATGT
1 ATGAAAGGGTGCCATAACTTAAATGT
* * * *
2513071 ATGAACGGATG-C---A-TT-AAGGC
1 ATGAAAGGGTGCCATAACTTAAATGT
2513091 ATGAAAGGGTGCCATAACTTAAATGT
1 ATGAAAGGGTGCCATAACTTAAATGT
2513117 ATGAA
1 ATGAA
2513122 CAGATGCATT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 12 0.32
21 3 0.08
22 1 0.03
24 1 0.03
25 3 0.08
26 17 0.46
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (26 bp):
ATGAAAGGGTGCCATAACTTAAATGT
Found at i:2513117 original size:164 final size:162
Alignment explanation
Indices: 2512834--2513166 Score: 461
Period size: 164 Copynumber: 2.0 Consensus size: 162
2512824 TGCATTAAGA
* *
2512834 CATGAAAGGATGCCATAACTAAAATGCATGGACGGATGCATTAAAACATAAAAGGATTCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAAACATAAAAGGATGCCATAAC
* * *
2512899 TAAATTACATAAACGGAAGCATTAAGGCATGAAAGGATGTCGTAACTAAAATGTATGAACGGATG
66 TAAATTA-ATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACAGATG
*
2512964 CATTAAGGAATAAAAGGATGCCATAAATAAAATG
130 CATTAAGGAATAAAAGAATG-CATAAATAAAATG
* ** * *
2512998 CATGAAAGGATTCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGGTGCCATAAC
1 CATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAAACATAAAAGGATGCCATAAC
* * * *
2513063 TTAAATGT-ATGAACGGATGCATTAAGGCATGAAAGGGTGCCATAACTTAAATGTATGAACAGAT
66 -TAAAT-TAATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACAGAT
* * *
2513127 GCATTAAGGCATGAAATAATGCATAAATAAAATG
129 GCATTAAGGAATAAAAGAATGCATAAATAAAATG
2513161 CATGAA
1 CATGAA
2513167 CAAATGAATT
Statistics
Matches: 149, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
163 19 0.13
164 124 0.83
165 5 0.03
166 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (162 bp):
CATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAAACATAAAAGGATGCCATAAC
TAAATTAATAAACGGAAGCATTAAGGCATGAAAGGATGCCATAACTAAAATGTATGAACAGATGC
ATTAAGGAATAAAAGAATGCATAAATAAAATG
Found at i:2516712 original size:20 final size:19
Alignment explanation
Indices: 2516689--2516727 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
2516679 CTTTTGACAG
2516689 GGGATCGATCCTTTTGTAAA
1 GGGATCGATCC-TTTGTAAA
* *
2516709 GGGATTGATTCTTTGTAAA
1 GGGATCGATCCTTTGTAAA
2516728 ACAAAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (19 bp):
GGGATCGATCCTTTGTAAA
Found at i:2521086 original size:23 final size:23
Alignment explanation
Indices: 2521040--2521092 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2521030 TATGTGGTCA
* * *
2521040 TTCGGGACAATTCTACGTGGTCC
1 TTCGGGACAATTCAACATGATCC
*
2521063 TTCGGGACATTTCAACATGATCC
1 TTCGGGACAATTCAACATGATCC
*
2521086 TTTGGGA
1 TTCGGGA
2521093 TATCTATGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.32
Consensus pattern (23 bp):
TTCGGGACAATTCAACATGATCC
Found at i:2528129 original size:395 final size:391
Alignment explanation
Indices: 2527376--2528163 Score: 1450
Period size: 395 Copynumber: 2.0 Consensus size: 391
2527366 CAACGAAGTC
*
2527376 TACATCCACCACCTAAGCTCCTCAGGATTTTTCAACAAATTCACTAATTTGTTCCTTCTTTTTAA
1 TACATCCACCACCTAAGCTCCTCAGGATTTTTCAACAAATTCACTAATTTGTTCCTTCTTTCTAA
*
2527441 AGGATCAAGAGTAACATTTACAACTCATTATCTTTTCAATTGGCTAAGATATAACCAAAACCCCT
66 AGGATCAAGAGTAACATTTACAACTCATTATCTTTTCAATTGGCTAAGATAGAACCAAAACCCCT
*
2527506 TTACAAAAGGAAAAGAAAGTAAATAAAGAAAACTCTAAAAGGTAGGTGTTTATAAAATTAAAGCT
131 TTACAAAAGGAAAAGAAAGTAAATAAAGAAAACTCTAAAAGGTAGGTGTTTACAAAATTAAAGCT
2527571 CACAAAAACACAACTATTTACAAGAGAGAGGAAATAAAGAGTGAAAAACTCTTCTCTTGTGTTTG
196 CACAAAAACACAACTATTTACAAGAGAGAGGAAATAAAGAGTGAAAAACTCTTCTCTTGTGTTTG
*
2527636 ATTGCTTTAATAGGTGTTCTGACCCTTCTTCAATTGTCTTAAACTTGTATTTATATGTTTGACTG
261 ATTGCTTTAATAGGTGTTCTGACCCTTCTTCAATTGTCTTAAACTTGTATTTATATGTTTGAATG
2527701 TGTTTGTGGTCGTTTCTAGCCGTTAGGGATGATTTGGAGACATTGGGGATGAAATTTCGTGCAAA
326 TGTTTGTGGTCGTTTCTAGCCGTTAGGGATGATTTGGAGACATTGGGGATGAAATTTCGTGCAAA
2527766 A
391 A
* *
2527767 TACATCCACCACCTAAGCTCCTCACTTAGGATTTTTCAACAAATTCATTAATTTGTTCTTTCTTT
1 TACATCCACCACCTAAGCTCCT--C--AGGATTTTTCAACAAATTCACTAATTTGTTCCTTCTTT
* *
2527832 CTAAAGGATCAAGAGTAACCTTTACAACTCATTGTCTTTTCAATTGGCTAAGATAGAACCAAAAC
62 CTAAAGGATCAAGAGTAACATTTACAACTCATTATCTTTTCAATTGGCTAAGATAGAACCAAAAC
*
2527897 CCCTTTACAAAAGGAAAAGAGAGTAAATAAAGAAAACTCTAAAAGGTAGGTGTTTACAAAATTAA
127 CCCTTTACAAAAGGAAAAGAAAGTAAATAAAGAAAACTCTAAAAGGTAGGTGTTTACAAAATTAA
2527962 AGCTCACAAAAACACAACTATTTACAAGAGAGAGGAAATAAAGAGTGAAAAACTCTTCTCTTGTG
192 AGCTCACAAAAACACAACTATTTACAAGAGAGAGGAAATAAAGAGTGAAAAACTCTTCTCTTGTG
2528027 TTTGATTGCTTTAATAGGTGTTCTGACCCTTCTTCAATTGTCTTAAACTTGTATTTATATGTTTG
257 TTTGATTGCTTTAATAGGTGTTCTGACCCTTCTTCAATTGTCTTAAACTTGTATTTATATGTTTG
*
2528092 AATGTGTTTTTGGTCGTTTCTAGCCGTTAGGGATGATTTGGAGACATTGGGGATGAAATTTCGTG
322 AATGTGTTTGTGGTCGTTTCTAGCCGTTAGGGATGATTTGGAGACATTGGGGATGAAATTTCGTG
2528157 CAAAA
387 CAAAA
2528162 TA
1 TA
2528164 AAGCTGCCCA
Statistics
Matches: 383, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
391 22 0.06
393 1 0.00
395 360 0.94
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (391 bp):
TACATCCACCACCTAAGCTCCTCAGGATTTTTCAACAAATTCACTAATTTGTTCCTTCTTTCTAA
AGGATCAAGAGTAACATTTACAACTCATTATCTTTTCAATTGGCTAAGATAGAACCAAAACCCCT
TTACAAAAGGAAAAGAAAGTAAATAAAGAAAACTCTAAAAGGTAGGTGTTTACAAAATTAAAGCT
CACAAAAACACAACTATTTACAAGAGAGAGGAAATAAAGAGTGAAAAACTCTTCTCTTGTGTTTG
ATTGCTTTAATAGGTGTTCTGACCCTTCTTCAATTGTCTTAAACTTGTATTTATATGTTTGAATG
TGTTTGTGGTCGTTTCTAGCCGTTAGGGATGATTTGGAGACATTGGGGATGAAATTTCGTGCAAA
A
Found at i:2533169 original size:21 final size:21
Alignment explanation
Indices: 2533145--2533192 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2533135 CCCTCGATGA
*
2533145 AAAGGATTGATCCCTTCCCTT
1 AAAGGATTGATACCTTCCCTT
* * *
2533166 AAAGGATTGTTATCTTCCTTT
1 AAAGGATTGATACCTTCCCTT
2533187 AAAGGA
1 AAAGGA
2533193 ACGATCCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
AAAGGATTGATACCTTCCCTT
Found at i:2534410 original size:18 final size:17
Alignment explanation
Indices: 2534383--2534418 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
2534373 AACTTCTGAG
2534383 AAACAAATTCAAATTCA
1 AAACAAATTCAAATTCA
2534400 AAACTAAATTCAAATTCA
1 AAAC-AAATTCAAATTCA
2534418 A
1 A
2534419 TGTTGGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (17 bp):
AAACAAATTCAAATTCA
Found at i:2542764 original size:421 final size:420
Alignment explanation
Indices: 2541970--2542817 Score: 1322
Period size: 421 Copynumber: 2.0 Consensus size: 420
2541960 ACTAAGCATC
* *
2541970 TTTAACCTAGTTTCTCTCAAAAACTAAGTAATATACTTAAGAAATGGACACTTTCATGCCTCCTG
1 TTTACCCTAGTTTCTCTCAAAAACTAAGTAATATACTTAAGAAATGGACACTTTCATGCCTCCTA
* * *
2542035 CCATCTTAAGTAATTAAGCACAATGAGAAAAACAAATAGGTAGACATAAAAATTGAAATCGTTAA
66 CAATCTTAAGTAATTAAGCACAATGAGAAAAACAAATAGGTAAACATAAAAATTGAAATCATTAA
*
2542100 TTAAAACAAAAAACTCAATCATCCAAGAGAACCCACACCAAATAAAGTTTAGTTCATGGTGGGTT
131 TTAAAACAAAAAACTCAATCATCCAAGAGAACCCACACCAAATAAAGTTTAGTTCATGATGGGTT
* * * *
2542165 CAAAATATTCAAGAGAATAATCCTTTCTATACAACCCAATAAATCTAGTAAAAATAAAAGCATAA
196 CAAAATATTCAAGAGAATAATCCTTTATACACAAACCAATAAATCGAGTAAAAATAAAAGCATAA
*
2542230 GGGTATAGAAAAAACTCCCAATGCCAGTTGTCGGTAGCTCCTCAGACCACCATGAATGTCACCTT
261 GGGTATAGAAAAAACTCCCAATGCCAGTTGTCAGTAGCTCCTCAGACCACCATGAATGTCACCTT
* * * ** * *
2542295 ACTAGCTAGCTCTTCTCAGATGCATAGCATGTCGTTCTCTCTAGATTGGCTATGGAGTTTACAAC
326 ACTAGCTAGCTCCTCTCAGATGCATAGCACGCCACTCTCTCTAGATTGGCTATGCAGGTTACAAC
2542360 CAAGAATATGTAAAAAGAAAAAATGGAAAAT
391 CAAGAATAT-TAAAAAGAAAAAATGGAAAAT
*
2542391 TTTACCCTATTTTCTCTCAAAAACTAAGTAATATACTTAAGAAATGGACACTTTCATGCCTCCTA
1 TTTACCCTAGTTTCTCTCAAAAACTAAGTAATATACTTAAGAAATGGACACTTTCATGCCTCCTA
* * * *
2542456 CAATCTTAAGTAATTAAGCACAATTAGAAAAAGAAATAGGTAAACATAAAATTTGAAATCATTCA
66 CAATCTTAAGTAATTAAGCACAATGAGAAAAACAAATAGGTAAACATAAAAATTGAAATCATTAA
* *
2542521 TTAAAAC-AAAAACTCAGTCATCTAAGAGAACCCACACCAAATAAAGTTTAGTTCATGATGGGGT
131 TTAAAACAAAAAACTCAATCATCCAAGAGAACCCACACCAAATAAAGTTTAGTTCATGAT-GGGT
* *
2542585 TCAAAATATTCAAGAGAATAATCGTTTATACATAAACCAATAAATCGAGTAAAAATAAAAGCATA
195 TCAAAATATTCAAGAGAATAATCCTTTATACACAAACCAATAAATCGAGTAAAAATAAAAGCATA
* *
2542650 AGGGTATAGGAAAAACTCCCAATGCCAGTT-TCCAGTAGCTCCTCATACCACCATGAATGTCACC
260 AGGGTATAGAAAAAACTCCCAATGCCAGTTGT-CAGTAGCTCCTCAGACCACCATGAATGTCACC
* * * * *
2542714 TTAGTGGCTAGCTCCTCTCGGATGCATAGCACGCCACTCTCTTTAGATTGGCTATGCAGGTTACC
324 TTACTAGCTAGCTCCTCTCAGATGCATAGCACGCCACTCTCTCTAGATTGGCTATGCAGGTTACA
* * *
2542779 ACCAAGATTATTAAAAATAAAAAATGGAAACT
389 ACCAAGAATATTAAAAAGAAAAAATGGAAAAT
2542811 TTTACCC
1 TTTACCC
2542818 CCCCTTTTCA
Statistics
Matches: 388, Mismatches: 37, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
420 76 0.20
421 312 0.80
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (420 bp):
TTTACCCTAGTTTCTCTCAAAAACTAAGTAATATACTTAAGAAATGGACACTTTCATGCCTCCTA
CAATCTTAAGTAATTAAGCACAATGAGAAAAACAAATAGGTAAACATAAAAATTGAAATCATTAA
TTAAAACAAAAAACTCAATCATCCAAGAGAACCCACACCAAATAAAGTTTAGTTCATGATGGGTT
CAAAATATTCAAGAGAATAATCCTTTATACACAAACCAATAAATCGAGTAAAAATAAAAGCATAA
GGGTATAGAAAAAACTCCCAATGCCAGTTGTCAGTAGCTCCTCAGACCACCATGAATGTCACCTT
ACTAGCTAGCTCCTCTCAGATGCATAGCACGCCACTCTCTCTAGATTGGCTATGCAGGTTACAAC
CAAGAATATTAAAAAGAAAAAATGGAAAAT
Found at i:2547118 original size:161 final size:160
Alignment explanation
Indices: 2546852--2547172 Score: 617
Period size: 161 Copynumber: 2.0 Consensus size: 160
2546842 AAATGGTATC
2546852 GATAATGAGGGGAGTATCGGTACCATAGTATAGAAGTATCGATACCATAGGACATGTATCGATAC
1 GATAATGAGGGGAGTATCGGTACCATAGTATAGAAGTATCGATACCATAGGACATGTATCGATAC
2546917 CATTCAGTCTAAAATTTTAAGTTAGGATGAAATTTTAATAGAATTCAAAAATAATAGTACTCTTA
66 CATTCAGTCTAAAATTTTAAGTTAGGATGAAATTTTAATAGAATTCAAAAATAATAGTACTCTTA
2546982 AGTATTATTATTTTGTATAAATGTTAGACAAT
131 AGTATTA-T-TTTTGTATAAATGTTAGACAAT
2547014 GATAATGAGGGGAGTATCGGTACCATAGTATAGAAGTATCGATACCATA-GACATGTATCGATAC
1 GATAATGAGGGGAGTATCGGTACCATAGTATAGAAGTATCGATACCATAGGACATGTATCGATAC
2547078 CATTCAGTCTAAAATTTTAAGTTAGGATGAAATTTTAATAGAATTCAAAAATAATAGTACTCTTA
66 CATTCAGTCTAAAATTTTAAGTTAGGATGAAATTTTAATAGAATTCAAAAATAATAGTACTCTTA
2547143 AGTATTATTTTTGTATAAATGTTAGACAAT
131 AGTATTATTTTTGTATAAATGTTAGACAAT
2547173 ATACTAACAT
Statistics
Matches: 159, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
159 22 0.14
160 1 0.01
161 87 0.55
162 49 0.31
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (160 bp):
GATAATGAGGGGAGTATCGGTACCATAGTATAGAAGTATCGATACCATAGGACATGTATCGATAC
CATTCAGTCTAAAATTTTAAGTTAGGATGAAATTTTAATAGAATTCAAAAATAATAGTACTCTTA
AGTATTATTTTTGTATAAATGTTAGACAAT
Found at i:2548934 original size:13 final size:13
Alignment explanation
Indices: 2548916--2548940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2548906 GTTCTGGGAG
2548916 AGAGGATGAAGGA
1 AGAGGATGAAGGA
2548929 AGAGGATGAAGG
1 AGAGGATGAAGG
2548941 TCCTAGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.48, T:0.08
Consensus pattern (13 bp):
AGAGGATGAAGGA
Found at i:2551746 original size:25 final size:25
Alignment explanation
Indices: 2551715--2551765 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
2551705 GCACAACTAG
*
2551715 AAAAAGTGAGGCCAAAGACTTTGAA
1 AAAAAGTGAGGCCAAAGACTTCGAA
2551740 AAAAAGTGAGGCCAAAGACTTCGAA
1 AAAAAGTGAGGCCAAAGACTTCGAA
2551765 A
1 A
2551766 TCAGGAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.14
Consensus pattern (25 bp):
AAAAAGTGAGGCCAAAGACTTCGAA
Found at i:2558102 original size:15 final size:15
Alignment explanation
Indices: 2558082--2558112 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2558072 GCTTAGATTT
2558082 CCTTTGATTTGAAAA
1 CCTTTGATTTGAAAA
*
2558097 CCTTTGTTTTGAAAA
1 CCTTTGATTTGAAAA
2558112 C
1 C
2558113 GAACCTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (15 bp):
CCTTTGATTTGAAAA
Found at i:2559042 original size:22 final size:22
Alignment explanation
Indices: 2559017--2559068 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
2559007 AATACGACTC
2559017 GGACCCACTAATATAGGACCTA
1 GGACCCACTAATATAGGACCTA
2559039 GGACCCACTAATATAGGACCTA
1 GGACCCACTAATATAGGACCTA
*
2559061 GGAACCAC
1 GGACCCAC
2559069 AACTATCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (22 bp):
GGACCCACTAATATAGGACCTA
Found at i:2576019 original size:15 final size:15
Alignment explanation
Indices: 2575999--2576028 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2575989 AACAGTCATA
2575999 AATTTTTAATGGTTT
1 AATTTTTAATGGTTT
2576014 AATTTTTAATGGTTT
1 AATTTTTAATGGTTT
2576029 GTTGATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
AATTTTTAATGGTTT
Found at i:2576190 original size:31 final size:31
Alignment explanation
Indices: 2576151--2576225 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
2576141 GAATTAAAAA
*
2576151 TATT-AGTTTTGGTCACTTACGTTATTATTT
1 TATTAAGTTTTGGTCACTTACGTTACTATTT
* * *
2576181 TATTAAGTTTTAGTCACTTTCGTTACTGTTT
1 TATTAAGTTTTGGTCACTTACGTTACTATTT
2576212 TATTAAGTTTTGGT
1 TATTAAGTTTTGGT
2576226 TAATTGGACG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.10
31 35 0.90
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.56
Consensus pattern (31 bp):
TATTAAGTTTTGGTCACTTACGTTACTATTT
Found at i:2577469 original size:31 final size:31
Alignment explanation
Indices: 2577434--2577511 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
2577424 ATTCATGTCC
*
2577434 AAGTGACCAAAACTTGATAAAACGATAAAGT
1 AAGTGACCAAAACTTAATAAAACGATAAAGT
* *
2577465 AAGTGACTAAAACTTAATAAAATGATAAAGT
1 AAGTGACCAAAACTTAATAAAACGATAAAGT
2577496 AAGTGACCAAAACTTA
1 AAGTGACCAAAACTTA
2577512 CGTTTTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAACGATAAAGT
Found at i:2577957 original size:20 final size:21
Alignment explanation
Indices: 2577932--2577972 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2577922 TTTTATTAAA
*
2577932 TATTTTAA-TTATAAAATAAT
1 TATTTTAATTTAAAAAATAAT
2577952 TATTTTAATTTAAAAAATAAT
1 TATTTTAATTTAAAAAATAAT
2577973 GAATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTTTAATTTAAAAAATAAT
Found at i:2577979 original size:21 final size:20
Alignment explanation
Indices: 2577935--2577979 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
2577925 TATTAAATAT
* * *
2577935 TTTAATTATAAAATAATTAT
1 TTTAATTAAAAAATAATGAA
2577955 TTTAATTTAAAAAATAATGAA
1 TTTAA-TTAAAAAATAATGAA
2577976 TTTA
1 TTTA
2577980 TCAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTAATTAAAAAATAATGAA
Found at i:2584015 original size:21 final size:21
Alignment explanation
Indices: 2583989--2584065 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
2583979 TAGGAGTGTG
2583989 GGTGTATCAGTACACTCTCTA
1 GGTGTATCAGTACACTCTCTA
* *
2584010 GGTGTATCAGTAAACTCTTTA
1 GGTGTATCAGTACACTCTCTA
* *
2584031 GGTGTATCGGTACA-TC-CCA
1 GGTGTATCAGTACACTCTCTA
* *
2584050 AGTGTATCGGTACACT
1 GGTGTATCAGTACACT
2584066 AATTACATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 14 0.29
20 3 0.06
21 31 0.65
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (21 bp):
GGTGTATCAGTACACTCTCTA
Found at i:2584801 original size:2 final size:2
Alignment explanation
Indices: 2584788--2584850 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
2584778 CTATTCAAAC
* *
2584788 AT AT AG AT AT AT AT AT AT AT AT -T AT AT AA AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2584829 AT AT AT A- AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2584851 ACATTCAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:2584820 original size:23 final size:22
Alignment explanation
Indices: 2584788--2584850 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 22
2584778 CTATTCAAAC
*
2584788 ATATAGATATATATATATATATT
1 ATATAAATATATATATATATA-T
2584811 ATATAAATATATATATATATAT
1 ATATAAATATATATATATATAT
*
2584833 ATA-ATATATATATATATA
1 ATATAAATATATATATATA
2584851 ACATTCAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.37
22 4 0.11
23 20 0.53
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATATAAATATATATATATATAT
Found at i:2584822 original size:19 final size:21
Alignment explanation
Indices: 2584788--2584850 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
2584778 CTATTCAAAC
2584788 ATATAGATATATATATATATATT
1 ATATA-ATATATATATATATA-T
2584811 ATATAA-ATATATATATATAT
1 ATATAATATATATATATATAT
2584831 ATATAATATATATATATATA
1 ATATAATATATATATATATA
2584851 ACATTCAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.18
21 26 0.67
22 1 0.03
23 5 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATAATATATATATATATAT
Found at i:2584828 original size:25 final size:25
Alignment explanation
Indices: 2584794--2584850 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
2584784 AAACATATAG
*
2584794 ATATATATATATATATTATATAAAT
1 ATATATATATATATATAATATAAAT
*
2584819 ATATATATATATATATAATATATAT
1 ATATATATATATATATAATATAAAT
2584844 ATATATA
1 ATATATA
2584851 ACATTCAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATATATATATATATAATATAAAT
Found at i:2606123 original size:21 final size:22
Alignment explanation
Indices: 2606076--2606135 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
2606066 CCCCCCATGA
*
2606076 GGGAACCGATTCCCCCTTCGAAG
1 GGGAACCGATTCCCCCTAC-AAG
2606099 GGGAACCGATTCCCCCTAC-AG
1 GGGAACCGATTCCCCCTACAAG
* *
2606120 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
2606136 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 16 0.47
23 18 0.53
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTACAAG
Found at i:2610088 original size:24 final size:24
Alignment explanation
Indices: 2610037--2610105 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
2610027 AGAGTCGAGC
*
2610037 GGTCCTTCGGGAC-AATTCTATGT
1 GGTCCTTCGGGACAAATTCTACGT
*
2610060 TGTCCTTCGGGACAAATTCTACGT
1 GGTCCTTCGGGACAAATTCTACGT
*
2610084 GGTCCTTCGAGACAAATTCTAC
1 GGTCCTTCGGGACAAATTCTAC
2610106 ACGGTACTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 12 0.29
24 29 0.71
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (24 bp):
GGTCCTTCGGGACAAATTCTACGT
Found at i:2610115 original size:24 final size:24
Alignment explanation
Indices: 2610064--2610116 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2610054 CTATGTTGTC
* ** *
2610064 CTTCGGGACAAATTCTACGTGGTC
1 CTTCGAGACAAATTCTACACGGTA
2610088 CTTCGAGACAAATTCTACACGGTA
1 CTTCGAGACAAATTCTACACGGTA
2610112 CTTCG
1 CTTCG
2610117 GAACATATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (24 bp):
CTTCGAGACAAATTCTACACGGTA
Found at i:2610965 original size:11 final size:11
Alignment explanation
Indices: 2610949--2611011 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
2610939 AAAATTACAT
2610949 TATTAAAAATA
1 TATTAAAAATA
2610960 TATTAAAAATA
1 TATTAAAAATA
* ***
2610971 CATTATTGATA
1 TATTAAAAATA
2610982 -ATTATAAAAT-
1 TATTA-AAAATA
2610992 T-TTAAAAATA
1 TATTAAAAATA
*
2611002 TATTAGAAAT
1 TATTAAAAAT
2611012 TCTATAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.20
11 27 0.68
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:2611538 original size:21 final size:20
Alignment explanation
Indices: 2611509--2611573 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
2611499 ATTTGTAATG
*
2611509 AAACCTAAACCCTAAAACCT
1 AAACTTAAACCCTAAAACCT
*
2611529 AAACTATAAACCTTAAATA-CT
1 AAACT-TAAACCCTAAA-ACCT
*
2611550 AAACTT-AACCCTTAAACCCT
1 AAACTTAAACCC-TAAAACCT
2611570 AAAC
1 AAAC
2611574 CTAATTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.11
20 15 0.41
21 17 0.46
22 1 0.03
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (20 bp):
AAACTTAAACCCTAAAACCT
Found at i:2611564 original size:20 final size:21
Alignment explanation
Indices: 2611514--2611565 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2611504 TAATGAAACC
*
2611514 TAAACCCTAAA-ACCTAAACTA
1 TAAACCTTAAATA-CTAAACTA
2611535 TAAACCTTAAATACTAAACT-
1 TAAACCTTAAATACTAAACTA
*
2611555 TAACCCTTAAA
1 TAAACCTTAAA
2611566 CCCTAAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 10 0.36
21 17 0.61
22 1 0.04
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCTTAAATACTAAACTA
Found at i:2611571 original size:20 final size:21
Alignment explanation
Indices: 2611516--2611573 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
2611506 ATGAAACCTA
2611516 AACCC-TAAAACCTAAACTAT
1 AACCCTTAAAACCTAAACTAT
*
2611536 AAACCTTAAATA-CTAAACT-T
1 AACCCTTAAA-ACCTAAACTAT
*
2611556 AACCCTTAAACCCTAAAC
1 AACCCTTAAAACCTAAAC
2611574 CTAATTTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 20 0.62
21 11 0.34
22 1 0.03
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTTAAAACCTAAACTAT
Found at i:2612538 original size:18 final size:18
Alignment explanation
Indices: 2612515--2612553 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2612505 CAATAACTCT
2612515 AAGCCGACGACGAAGATG
1 AAGCCGACGACGAAGATG
* *
2612533 AAGCCGACGATGATGATG
1 AAGCCGACGACGAAGATG
2612551 AAG
1 AAG
2612554 ACGATGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.10
Consensus pattern (18 bp):
AAGCCGACGACGAAGATG
Found at i:2612978 original size:12 final size:12
Alignment explanation
Indices: 2612961--2613005 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
2612951 ACCGAGCTTG
2612961 AATCGAGCTCAA
1 AATCGAGCTCAA
*
2612973 AATCGAGTTCAA
1 AATCGAGCTCAA
2612985 AATCGAGCTTC--
1 AATCGAGC-TCAA
2612996 AATCGAGCTC
1 AATCGAGCTC
2613006 GAGTCTCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 2 0.07
11 8 0.27
12 18 0.60
13 2 0.07
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (12 bp):
AATCGAGCTCAA
Found at i:2613436 original size:3 final size:3
Alignment explanation
Indices: 2613430--2613479 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
2613420 TAGCAACTAC
2613430 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
2613476 TTA T
1 TTA T
2613480 CAAAATGTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2615688 original size:92 final size:90
Alignment explanation
Indices: 2615422--2615699 Score: 378
Period size: 90 Copynumber: 3.0 Consensus size: 90
2615412 CCAGAACTGC
* * *
2615422 GTCCGTAGGCCTTACCCTCAGCACACAACAAAAAAGGAAGCCAACCTAAGGATATGCCTTGGAGC
1 GTCCGTAGGGCTTACCCTAAGCACACAAC---AAAGGGAGCCAACCTAAGGATATGCCTTGGAGC
2615487 CTATGGGCCTACCCAAGGGTA-TCTTTAG
63 CTATGGGCCTACCCAAGGGTATTC-TTAG
** *
2615515 GTCCGTAGGGCTTACCCTAAGCACACAGTAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGAGCCTA
*
2615580 AGGGCCTACCCAAGGGTATTCTTAG
66 TGGGCCTACCCAAGGGTATTCTTAG
* * * *
2615605 GTCCGTAGGGCTTACCCTAAGGACACAACAAAGGGGGGGCCAACCTAAGGATATACCTTGGCGCC
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAA--GGGAGCCAACCTAAGGATATGCCTTGGAGCC
* *
2615670 TATGGGACTACCCAAGGGTATCCTTAG
64 TATGGGCCTACCCAAGGGTATTCTTAG
2615697 GTC
1 GTC
2615700 TGTAAGGATT
Statistics
Matches: 166, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
90 84 0.51
91 2 0.01
92 55 0.33
93 25 0.15
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (90 bp):
GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGAGCCTA
TGGGCCTACCCAAGGGTATTCTTAG
Found at i:2616543 original size:20 final size:20
Alignment explanation
Indices: 2616507--2616544 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2616497 ATCCTATTCC
**
2616507 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
2616527 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
2616545 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:2621404 original size:90 final size:90
Alignment explanation
Indices: 2621246--2621614 Score: 531
Period size: 90 Copynumber: 4.1 Consensus size: 90
2621236 CCAGAACTGC
* * * * * *
2621246 GTCCGTAGGGATTACCCTCAGTACACAGCAAAAGGGGAGCTAACCTAAGGATATACCTTGGGGCC
1 GTCCGTAGGGCTTACCCTAAGCACACAAC-AAA-GGGAGCCAACCTAAGGATATGCCTTGGGGCC
2621311 TATGGGCCTACCCAAGGGTATCCTTAG
64 TATGGGCCTACCCAAGGGTATCCTTAG
* * *
2621338 GTTCGTAGGGCTTACCATAAGCATACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
* *
2621403 TGGGCCTACCCAAGGGTATCTTTAA
66 TGGGCCTACCCAAGGGTATCCTTAG
* *
2621428 GTCCGTAGGGCTTACCCTAAGCACACAGCAAAGGGAGCAAACCTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
2621493 TGGGCCTACCCAAGGGTATCCTTAG
66 TGGGCCTACCCAAGGGTATCCTTAG
* * * * *
2621518 TTCTGTAAGGCTTACCCTAAGCACACATCAAAGGGAGCCAACTTAAGGATATGCCTTGGGGCCTA
1 GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
* **
2621583 TAGGCCTACCCAAAAGTATCCTTAG
66 TGGGCCTACCCAAGGGTATCCTTAG
2621608 GTCCGTA
1 GTCCGTA
2621615 ATGATTTACC
Statistics
Matches: 248, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
90 223 0.90
91 3 0.01
92 22 0.09
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.21
Consensus pattern (90 bp):
GTCCGTAGGGCTTACCCTAAGCACACAACAAAGGGAGCCAACCTAAGGATATGCCTTGGGGCCTA
TGGGCCTACCCAAGGGTATCCTTAG
Found at i:2627282 original size:39 final size:38
Alignment explanation
Indices: 2627238--2627340 Score: 120
Period size: 38 Copynumber: 2.7 Consensus size: 38
2627228 AAGAGTATAC
* * *
2627238 ATATTATATACGTTTTCAAAAACTATTTTTTTAAAAGCT
1 ATATTATATATGTTTTCAAAAACTA-TTTTTAAAAAACT
* *
2627277 ATATTATATATGTTTTAAAAAAACCA-TTTTAAAAAACT
1 ATATTATATATGTTTT-CAAAAACTATTTTTAAAAAACT
2627315 ATA-TATTATATGTTTTCAAAAACTAT
1 ATATTA-TATATGTTTTCAAAAACTAT
2627341 ACTATATATC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
37 9 0.17
38 23 0.43
39 15 0.28
40 7 0.13
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (38 bp):
ATATTATATATGTTTTCAAAAACTATTTTTAAAAAACT
Found at i:2627335 original size:24 final size:22
Alignment explanation
Indices: 2627302--2627376 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 22
2627292 TAAAAAAACC
*
2627302 ATTTTAAAAAACTATATATTAT
1 ATTTTCAAAAACTATATATTAT
2627324 ATGTTTTCAAAAACTATACTA-TAT
1 A--TTTTCAAAAACTATA-TATTAT
*
2627348 ATCTTCAAAAACTATATATATTAT
1 ATTTTCAAAAAC--TATATATTAT
2627372 ATTTT
1 ATTTT
2627377 GTTTTGAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 11 0.25
23 2 0.05
24 29 0.66
25 2 0.05
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.45
Consensus pattern (22 bp):
ATTTTCAAAAACTATATATTAT
Found at i:2627346 original size:22 final size:21
Alignment explanation
Indices: 2627308--2627368 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 21
2627298 AACCATTTTA
*
2627308 AAAAACTATATATTATATGTTTTC
1 AAAAACTATATA-TATA--TCTTC
2627332 AAAAACTATACTATATATCTTC
1 AAAAACTATA-TATATATCTTC
2627354 AAAAACTATATATAT
1 AAAAACTATATATAT
2627369 TATATTTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 5 0.14
22 14 0.40
24 14 0.40
25 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAAACTATATATATATCTTC
Done.