Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 44 of 49
Found at i:9076438 original size:45 final size:45
Alignment explanation
Indices: 9076387--9076688 Score: 339
Period size: 45 Copynumber: 6.8 Consensus size: 45
9076377 AGGATGTCAT
** *
9076387 AGTTGAAATGTATATTAGTACATTATCAACAGAAAAGTATATTATG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA-G
* *
9076433 -GTTGAAATATATATGGGTACATTATCAACAGAAAAGTATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
* * * * *
9076477 AGTTGAAATGCATAT-GGTGCATTATCAA-GGAAATGTATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
* * * * *
9076520 AG-TGAAATGCATATGGGTGCA-TATCAACAGAAGAGCATGCTAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
9076563 AGTTGAAATGTATATGGGTACATTATCAACA-AAAAGTATACTATG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTA-G
* * *
9076608 -GTTGAAATGTATATGGGTATATTATTAACAGAAAAGTATACTAT
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
** * *
9076652 AGTTGAAATCCATATGGGTGCATTATCAACAAAAAAG
1 AGTTGAAATGTATATGGGTACATTATCAACAGAAAAG
9076689 ATGTTTATAA
Statistics
Matches: 220, Mismatches: 28, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
42 18 0.08
43 34 0.15
44 67 0.30
45 101 0.46
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (45 bp):
AGTTGAAATGTATATGGGTACATTATCAACAGAAAAGTATACTAG
Found at i:9077859 original size:240 final size:238
Alignment explanation
Indices: 9077413--9077892 Score: 844
Period size: 240 Copynumber: 2.0 Consensus size: 238
9077403 AATATCGTTT
*
9077413 ATCACAATATTTACAAGTTTAATTACCTTCTTTTCATTTGCTTTCCTCCAAGCTTTATATTGTTC
1 ATCACAATATTTACAAGTTTAATTACCTTCTTTTCATGTGCTTTCCTCCAAGCTTTATATTGTTC
*
9077478 TTATCATTTTTTGGCAGTGTCACATACGGTCCTTCACACACTCATCGACTTCCATTTCTACACCA
66 TTATCATTTTTTGGCAGGGTCACATACGGTCCTTCACACACTCATCGACTTCCATTTCTACACCA
9077543 CATGTTCACCTGAAATTAAGCATAATGTTTCTTAATCAATAAATTAAAGATATTTGAAACCCTAT
131 CATGTTCACCTGAAATTAAGCATAATGTTTCTTAATCAATAAATTAAAGATATTTGAAACCCTAT
9077608 TTAAACCATTTTTGAAAACAATTATGATAATCAAGA-ATGGGCA
196 TTAAACCATTTTTG-AAACAATTATGATAATCAAGATATGGGCA
9077651 ATCACAATA-TTACAAGTTTAATGAATACCTTCTTTTCATGTGCTTTCCTCCAAGC-TTATA-TG
1 ATCACAATATTTACAAGTTTAAT---TACCTTCTTTTCATGTGCTTTCCTCCAAGCTTTATATTG
9077713 TTCTCTATCATTTTTTGGCAGGGTCACATACGGTTCCTTCACATCACTCATCGACTTCCATTTCT
63 TTCT-TATCATTTTTTGGCAGGGTCACATACGG-TCCTTCACA-CACTCATCGACTTCCATTTCT
9077778 ACACCACAT-TTCACCTGAAATTAAGCATAATGTTTCTTAATCAATAAATTAAAGATATTTGAAA
125 ACACCACATGTTCACCTGAAATTAAGCATAATGTTTCTTAATCAATAAATTAAAGATATTTGAAA
9077842 CCCTATTTAAACCATTTTTGAAACAATTATGATAATCAAGATATGGGCA
190 CCCTATTTAAACCATTTTTGAAACAATTATGATAATCAAGATATGGGCA
9077891 AT
1 AT
9077893 GTAAGTGTTC
Statistics
Matches: 233, Mismatches: 2, Indels: 12
0.94 0.01 0.05
Matches are distributed among these distances:
237 13 0.06
238 15 0.06
239 53 0.23
240 122 0.52
241 30 0.13
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (238 bp):
ATCACAATATTTACAAGTTTAATTACCTTCTTTTCATGTGCTTTCCTCCAAGCTTTATATTGTTC
TTATCATTTTTTGGCAGGGTCACATACGGTCCTTCACACACTCATCGACTTCCATTTCTACACCA
CATGTTCACCTGAAATTAAGCATAATGTTTCTTAATCAATAAATTAAAGATATTTGAAACCCTAT
TTAAACCATTTTTGAAACAATTATGATAATCAAGATATGGGCA
Found at i:9077938 original size:80 final size:83
Alignment explanation
Indices: 9077841--9078005 Score: 291
Period size: 85 Copynumber: 2.0 Consensus size: 83
9077831 GATATTTGAA
9077841 ACCCTATTTAAACCATTTTTG-AAACAATTATGATAATCAAG-ATATGGGCAATGT-AAGTGTTC
1 ACCCTATTTAAACCATTTTTGAAAACAATTATGATAATCAAGAATATGGGCAATGTAAAGTGTTC
9077903 AAAAGTAATATAAGTTAT
66 AAAAGTAATATAAGTTAT
9077921 ACCCTATTTAAACCATTTTTGAAAACAATTATGATAATCAAGATATATGGGCAATGTAAAAGTGT
1 ACCCTATTTAAACCATTTTTGAAAACAATTATGATAATCAAGA-ATATGGGCAATGT-AAAGTGT
9077986 TCAAAAGTAATATAAGTTAT
64 TCAAAAGTAATATAAGTTAT
9078006 TTAAGAAACA
Statistics
Matches: 80, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
80 21 0.26
81 20 0.25
83 13 0.16
85 26 0.32
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (83 bp):
ACCCTATTTAAACCATTTTTGAAAACAATTATGATAATCAAGAATATGGGCAATGTAAAGTGTTC
AAAAGTAATATAAGTTAT
Found at i:9081278 original size:2 final size:2
Alignment explanation
Indices: 9081271--9081331 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
9081261 CCAAAGCTTG
9081271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9081313 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
9081332 ATTATCCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9082302 original size:20 final size:23
Alignment explanation
Indices: 9082249--9082297 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
9082239 CAGAATAAAA
9082249 ATAATAGTTTAGACACTAAATTT
1 ATAATAGTTTAGACACTAAATTT
9082272 ATAATAGTTTAGACACTAAATTT
1 ATAATAGTTTAGACACTAAATTT
9082295 ATA
1 ATA
9082298 GTTTACTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (23 bp):
ATAATAGTTTAGACACTAAATTT
Found at i:9088147 original size:45 final size:45
Alignment explanation
Indices: 9088083--9088173 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
9088073 AGCCTTACAG
9088083 TCAACCTATCCCTTTCTTAGCTAAGCTATCAGCCTCCCCATTGCT
1 TCAACCTATCCCTTTCTTAGCTAAGCTATCAGCCTCCCCATTGCT
9088128 TCAACCTATCCCTTTCTTAGCTAAGCTATCAGCCTCCCCATTGCT
1 TCAACCTATCCCTTTCTTAGCTAAGCTATCAGCCTCCCCATTGCT
9088173 T
1 T
9088174 GCCCTTGAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.37, G:0.09, T:0.34
Consensus pattern (45 bp):
TCAACCTATCCCTTTCTTAGCTAAGCTATCAGCCTCCCCATTGCT
Found at i:9091970 original size:16 final size:15
Alignment explanation
Indices: 9091948--9091995 Score: 62
Period size: 14 Copynumber: 3.1 Consensus size: 15
9091938 AACCTAATAC
9091948 CATGTAGAAAACAGA
1 CATGTAGAAAACAGA
*
9091963 CTATGTAGAAAAACTGA
1 C-ATGTAG-AAAACAGA
9091980 C-TGTAGAAAACAGA
1 CATGTAGAAAACAGA
9091994 CA
1 CA
9091996 AGTCTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 6 0.21
17 8 0.29
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.17
Consensus pattern (15 bp):
CATGTAGAAAACAGA
Found at i:9094404 original size:18 final size:18
Alignment explanation
Indices: 9094381--9094418 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9094371 GATATTGTTC
9094381 TAAATAATTGTTCTTATA
1 TAAATAATTGTTCTTATA
9094399 TAAATAATTGTTCTTATA
1 TAAATAATTGTTCTTATA
9094417 TA
1 TA
9094419 CATGTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (18 bp):
TAAATAATTGTTCTTATA
Found at i:9096923 original size:29 final size:29
Alignment explanation
Indices: 9096891--9096987 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
9096881 AAAATAGAAA
9096891 AAAATAAAAACTTAAGGGACTAAAATAGC
1 AAAATAAAAACTTAAGGGACTAAAATAGC
* * ** * *
9096920 AAAACATAAACTTAAATGATTAAAATGGC
1 AAAATAAAAACTTAAGGGACTAAAATAGC
*
9096949 AAAAATAGAAA-TCTAAGGGACT-AAATAGC
1 -AAAATAAAAACT-TAAGGGACTAAAATAGC
9096978 -AAATAAAAAC
1 AAAATAAAAAC
9096988 AATCCAACGC
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
27 8 0.15
29 30 0.58
30 14 0.27
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.19
Consensus pattern (29 bp):
AAAATAAAAACTTAAGGGACTAAAATAGC
Found at i:9097775 original size:18 final size:18
Alignment explanation
Indices: 9097752--9097804 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
9097742 ACTGACTAAT
* *
9097752 TGTCCCGAAGGACTATTA
1 TGTCCCGAAGGACCACTA
9097770 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
9097788 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
9097805 GATAATTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:9097868 original size:18 final size:18
Alignment explanation
Indices: 9097838--9097892 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
9097828 CAATGGAACT
9097838 GACTATT-TGTCCCGAAG
1 GACTATTATGTCCCGAAG
9097855 GACTATTATGTCCCGAAG
1 GACTATTATGTCCCGAAG
**
9097873 GAC-CCTATGTCCCGAAG
1 GACTATTATGTCCCGAAG
9097890 GAC
1 GAC
9097893 CACTGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (18 bp):
GACTATTATGTCCCGAAG
Found at i:9104564 original size:18 final size:18
Alignment explanation
Indices: 9104537--9104585 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
9104527 GACTATTTGT
*
9104537 CCGAATGACCACTATGTC
1 CCGAAGGACCACTATGTC
9104555 CCGAAGGACCACTATGTC
1 CCGAAGGACCACTATGTC
9104573 CCGAAGGACCACT
1 CCGAAGGACCACT
9104586 GATAATCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (18 bp):
CCGAAGGACCACTATGTC
Found at i:9107346 original size:12 final size:13
Alignment explanation
Indices: 9107332--9107383 Score: 56
Period size: 12 Copynumber: 4.1 Consensus size: 13
9107322 TAAATAAATA
9107332 AATAAATAATAA-
1 AATAAATAATAAT
*
9107344 AATAGCGATAATAAT
1 AATA--AATAATAAT
9107359 AAT-AATAATAAT
1 AATAAATAATAAT
9107371 AAT-AATAATAAT
1 AATAAATAATAAT
9107383 A
1 A
9107384 TTTTTGGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 25 0.71
14 7 0.20
15 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:9107357 original size:3 final size:3
Alignment explanation
Indices: 9107351--9107383 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9107341 TAAAATAGCG
9107351 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9107384 TTTTTGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9116836 original size:109 final size:111
Alignment explanation
Indices: 9116708--9116927 Score: 372
Period size: 111 Copynumber: 2.0 Consensus size: 111
9116698 AACTACAAAA
* * *
9116708 TTAATTTTTAATCTAATAATCATGCATT-AATGAATCAACTAATTA-TACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATCAATCAACTAAATATTACTAATAATTTAAATTA
* *
9116771 AATTAAAACGTTAAAATGTTACCGTATCAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
9116817 TTAATTCTTAATCTAATAATCATGCATTAAATCAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATCAATCAACTAAATATTACTAATAATTTAAATTA
*
9116882 AATTAAAATGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
9116928 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 27 0.26
110 15 0.15
111 61 0.59
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATCAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:9117261 original size:50 final size:49
Alignment explanation
Indices: 9117207--9117332 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 49
9117197 AGATATCCAA
* * *
9117207 GTATAGCGCGTATCAGGGGGCGCGCTATATCCACGTGGCGCCAGATCACC
1 GTATAGCGCG-ATCAGGGGGCGCGCTATATCCACGTGGAGCCAAATCAAC
* *
9117257 GTATATCGCGGGAT-AGGGCGCGCGCTATATCCACGTGGAGCCAAATCAAC
1 GTATA--GCGCGATCAGGGGGCGCGCTATATCCACGTGGAGCCAAATCAAC
*
9117307 ATATAGCGCGATTCAGGGGGCGCGCT
1 GTATAGCGCGA-TCAGGGGGCGCGCT
9117333 TTCCTGCTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
48 5 0.08
49 1 0.02
50 52 0.81
51 2 0.03
52 4 0.06
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (49 bp):
GTATAGCGCGATCAGGGGGCGCGCTATATCCACGTGGAGCCAAATCAAC
Found at i:9117844 original size:6 final size:6
Alignment explanation
Indices: 9117833--9117867 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9117823 AGTTATTTTC
9117833 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
9117868 TACCAGTGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9130317 original size:18 final size:18
Alignment explanation
Indices: 9130279--9130318 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9130269 CACTTGAGCA
*
9130279 TCAGCAGTGATTTGCTCT
1 TCAGCAGTGATTTACTCT
9130297 TCAGCTAGTGATTTACT-T
1 TCAGC-AGTGATTTACTCT
9130315 TCAG
1 TCAG
9130319 ATCCTGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (18 bp):
TCAGCAGTGATTTACTCT
Found at i:9136889 original size:23 final size:23
Alignment explanation
Indices: 9136858--9136913 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
9136848 TTCTATGCAT
9136858 AAGA-AAAATATTTCAAAATTGA
1 AAGATAAAATATTTCAAAATTGA
9136880 AAGATAAAATATTTCAAAATTGA
1 AAGATAAAATATTTCAAAATTGA
9136903 AAGATGAAAAT
1 AAGAT-AAAAT
9136914 GTTCTTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 4 0.12
23 23 0.72
24 5 0.16
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.27
Consensus pattern (23 bp):
AAGATAAAATATTTCAAAATTGA
Found at i:9141465 original size:16 final size:17
Alignment explanation
Indices: 9141444--9141479 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9141434 TATTTGTATT
9141444 ATCATA-CTTTAATATA
1 ATCATATCTTTAATATA
*
9141460 ATCATATCTTTATTATA
1 ATCATATCTTTAATATA
9141477 ATC
1 ATC
9141480 TCATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCATATCTTTAATATA
Found at i:9144998 original size:21 final size:20
Alignment explanation
Indices: 9144974--9145018 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 20
9144964 TAATATGTAT
9144974 ATATTAATAATATCATTAATA
1 ATATTAATAATATCA-TAATA
9144995 ATA-T-AT-ATATTCATAATA
1 ATATTAATAATA-TCATAATA
9145013 ATATTA
1 ATATTA
9145019 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 1 0.05
21 3 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTAATAATATCATAATA
Found at i:9145010 original size:27 final size:27
Alignment explanation
Indices: 9144963--9145033 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
9144953 TTATTTAAAT
*
9144963 TTAAT-ATGTATATATTAATAAT-ATCA
1 TTAATAATATATATATTAATAATAAT-A
*
9144989 TTAATAATATATATATTCATAATAATA
1 TTAATAATATATATATTAATAATAATA
9145016 TTATATATATATATATAT
1 TTA-ATA-ATATATATAT
9145034 GTAACTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.13
27 19 0.49
28 5 0.13
29 10 0.26
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (27 bp):
TTAATAATATATATATTAATAATAATA
Found at i:9145220 original size:4 final size:4
Alignment explanation
Indices: 9145213--9145263 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
9145203 TCACACACAT
* * ** *
9145213 ATAC ATAC ATAC ATAC ATAC ACAC ACAC GCAC ACAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
9145261 ATA
1 ATA
9145264 TTCATACTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (4 bp):
ATAC
Found at i:9145228 original size:12 final size:12
Alignment explanation
Indices: 9145207--9145263 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
9145197 ATATATTCAC
*
9145207 ACACATATACAT
1 ACACACATACAT
*
9145219 ACATACATACAT
1 ACACACATACAT
* **
9145231 ACACACACACGC
1 ACACACATACAT
9145243 ACACACATACAT
1 ACACACATACAT
*
9145255 ACATACATA
1 ACACACATA
9145264 TTCATACTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.18
Consensus pattern (12 bp):
ACACACATACAT
Found at i:9145334 original size:2 final size:2
Alignment explanation
Indices: 9145327--9145351 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9145317 GCAAGCAATA
9145327 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9145352 AAACTCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9146105 original size:16 final size:16
Alignment explanation
Indices: 9146084--9146125 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
9146074 TCTAATTTTT
9146084 TTTTTGAGTTTGAGCC
1 TTTTTGAGTTTGAGCC
9146100 TTTTTGAGTTTGAGCC
1 TTTTTGAGTTTGAGCC
*
9146116 TGTTTGAGTT
1 TTTTTGAGTT
9146126 CAAGTTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.10, G:0.26, T:0.52
Consensus pattern (16 bp):
TTTTTGAGTTTGAGCC
Found at i:9147519 original size:130 final size:129
Alignment explanation
Indices: 9147152--9147710 Score: 429
Period size: 130 Copynumber: 4.3 Consensus size: 129
9147142 TCATATCGGG
* * * * * * * *
9147152 AAACTTTGATTTATTTCACCACTCTTTAGATAAGATTGAA-TCAAGGTTGATTTTCTTCACAACT
1 AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAACT-AAGGTTGATTTGCTTCACTACT
* * * * ** * * *
9147216 CTTCAAGAAGGTGAAATATGGAAAAATAATATGTTTC-ACTACTCTTTAGGGAAGATCAGATCTA
65 CTTC-AGAAGATCAAATCTAGAAAAAGGATATGCTTCTACTACTCTTTAAGGAAAATCAGATCTA
9147280 A
129 A
* * *
9147281 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACCAAGTTTGATTTGCTTCGAC-ACT
1 AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAACTAAGGTTGATTTGCTTC-ACTACT
* * * * ** * *
9147345 CTTTAAAAAAGTCAAATCTAGAGAAATAAG-T-TTTTTCTGA-TACTCTTTAAGGAATATCATAT
65 CTTCAGAAGA-TCAAATCTAGA-AAA-AGGATATGCTTCT-ACTACTCTTTAAGGAAAATCAGAT
9147407 CTAA
126 CTAA
* ** *
9147411 AAACTTTGATTCACTTCACTACTTTTCAGGGAAGATTGAA-TAGAGGTTAATTTGCTTCACTACT
1 AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAACTA-AGGTTGATTTGCTTCACTACT
* *
9147475 CTTCAGGAATATCAAATCTAGAAAAAGGGATATGCTTCT-CTACTCTTT-AGGCAAAACCAGATC
65 CTTCA-GAAGATCAAATCTAGAAAAA-GGATATGCTTCTACTACTCTTTAAGG-AAAATCAGATC
*
9147538 TGGA
127 T-AA
** * * * *
9147542 AATTTTTTATTCATTTCACTGCTCTTCAAAGAAGATTGAACTGAGGTTGATTTGCTTCACTACTC
1 AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAACTAAGGTTGATTTGCTTCACTACTC
** * * * *
9147607 TTCTAGAAGATCAAATCTAGAAATGGGATATGC-TCTACTACTC-TTCAGGAAAGATTACATCTG
66 TTC-AGAAGATCAAATCTAGAAAAAGGATATGCTTCTACTACTCTTTAAGGAAA-ATCAGATCTA
*
9147670 G
129 A
* ** * **
9147671 AAACTTTGGTTCACACCACTACTCTTTATGGAAGATTGAA
1 AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAA
9147711 TCGAGATTGA
Statistics
Matches: 343, Mismatches: 66, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
128 4 0.01
129 114 0.33
130 139 0.41
131 84 0.24
132 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (129 bp):
AAACTTTGATTCACTTCACTACTCTTCAAAGAAGATTGAACTAAGGTTGATTTGCTTCACTACTC
TTCAGAAGATCAAATCTAGAAAAAGGATATGCTTCTACTACTCTTTAAGGAAAATCAGATCTAA
Found at i:9148181 original size:76 final size:76
Alignment explanation
Indices: 9148055--9148216 Score: 236
Period size: 76 Copynumber: 2.1 Consensus size: 76
9148045 TTCTAGGTAA
* * * *
9148055 ACTAAATTGAGCTTTCTAGGGTACAAGTCTTGAAAGAGTTAAGATTGATGTTTATAGGGAAATAG
1 ACTAAATTGAGCTTTCTAGGATACAAGTCCTGAAAGAGTCAAGATTGATGTTTATAGGGAAATAA
* *
9148120 TCTTAAGGATG
66 TCTTAAGAAAG
* *
9148131 ACTAAATTTAGCTTTCTAGGATACAAGTCCT-AAGAGAGTCAAGATTGATGTTTCTAGGGAAATA
1 ACTAAATTGAGCTTTCTAGGATACAAGTCCTGAA-AGAGTCAAGATTGATGTTTATAGGGAAATA
9148195 ATCTTAAGAAAG
65 ATCTTAAGAAAG
9148207 ACTAAATTGA
1 ACTAAATTGA
9148217 TTTTTCGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
75 2 0.03
76 74 0.97
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (76 bp):
ACTAAATTGAGCTTTCTAGGATACAAGTCCTGAAAGAGTCAAGATTGATGTTTATAGGGAAATAA
TCTTAAGAAAG
Found at i:9148216 original size:38 final size:38
Alignment explanation
Indices: 9148098--9148222 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 38
9148088 AAGAGTTAAG
* * * *
9148098 ATTGATGTTTATAGGGAAATAGTCTTAAGGATGACTAA
1 ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
* * * * * *
9148136 ATTTA-GCTTTCTA-GGATACAAGTCCTAAGAGAGTC-AA
1 ATTGATG-TTTCTAGGGAAATAA-TCTTAAGAAAGACTAA
9148173 GATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
1 -ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
*
9148212 ATTGATTTTTC
1 ATTGATGTTTC
9148223 GAAAGAGATT
Statistics
Matches: 64, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
37 8 0.12
38 47 0.73
39 9 0.14
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (38 bp):
ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
Found at i:9151339 original size:11 final size:11
Alignment explanation
Indices: 9151323--9151354 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
9151313 CCACAACTTG
9151323 GGAGCTAAATT
1 GGAGCTAAATT
9151334 GGAGCTAAATT
1 GGAGCTAAATT
9151345 GGAGCTAAAT
1 GGAGCTAAAT
9151355 AGAGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (11 bp):
GGAGCTAAATT
Found at i:9161734 original size:21 final size:22
Alignment explanation
Indices: 9161689--9161735 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
9161679 TTGAGCACCC
* *
9161689 AAAATAAAATTTTCATTTTAAT
1 AAAATAAAATTTTAATTATAAT
*
9161711 AAAA-AAAATTTTAATTATATT
1 AAAATAAAATTTTAATTATAAT
9161732 AAAA
1 AAAA
9161736 CAACATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATAAAATTTTAATTATAAT
Found at i:9162820 original size:22 final size:21
Alignment explanation
Indices: 9162768--9162821 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
9162758 ATGCATTATA
9162768 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
9162789 TCGCGTTGCGATTTTTCCCAA-T
1 TCGCAATGCGA-TTTT-CCAATT
9162811 TCGCAATGCGA
1 TCGCAATGCGA
9162822 ATAAGTAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.33
22 14 0.52
23 4 0.15
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:9162854 original size:21 final size:21
Alignment explanation
Indices: 9162828--9162902 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
9162818 GCGAATAAGT
9162828 AATCGCAATGCGAATTTGGAA
1 AATCGCAATGCGAATTTGGAA
* *
9162849 AATCGCAATGCG-ATACT-GAC
1 AATCGCAATGCGAAT-TTGGAA
*
9162869 TATCGCAATGCGAATTTGGAA
1 AATCGCAATGCGAATTTGGAA
* *
9162890 ATTCGCATTGCGA
1 AATCGCAATGCGA
9162903 TTTACGTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (21 bp):
AATCGCAATGCGAATTTGGAA
Found at i:9162922 original size:41 final size:40
Alignment explanation
Indices: 9162811--9162903 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 40
9162801 TTTTCCCAAT
* *
9162811 TCGCAATGCGA-ATAAGTAATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGATATGACT-ATCGCAATGCGAATTTGGAAAA
*
9162851 TCGCAATGCGATACTGACTATCGCAATGCGAATTTGGAAAT
1 TCGCAATGCGATA-TGACTATCGCAATGCGAATTTGGAAAA
*
9162892 TCGCATTGCGAT
1 TCGCAATGCGAT
9162904 TTACGTATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 11 0.23
41 33 0.70
42 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCAATGCGATATGACTATCGCAATGCGAATTTGGAAAA
Found at i:9162983 original size:20 final size:20
Alignment explanation
Indices: 9162811--9163044 Score: 127
Period size: 20 Copynumber: 11.6 Consensus size: 20
9162801 TTTTCCCAAT
*
9162811 TCGCAATGCGAATAAGT-AA
1 TCGCAATGCGAATACGTAAA
** *
9162830 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
9162851 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
** *
9162871 TCGCAATGCGAATTTGGAAA
1 TCGCAATGCGAATACGTAAA
* * *
9162891 TTCGCATTGCGATTTACGT-AT
1 -TCGCAATGCGA-ATACGTAAA
** * * * *
9162912 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
9162933 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
9162953 TCACAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
9162973 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
9162994 TTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
9163014 TCGCAATGCGAAT-CTTACTA
1 TCGCAATGCGAATACGTA-AA
9163034 TCGCAATGCGA
1 TCGCAATGCGA
9163045 TTTACATAGC
Statistics
Matches: 163, Mismatches: 41, Indels: 21
0.72 0.18 0.09
Matches are distributed among these distances:
19 17 0.10
20 90 0.55
21 54 0.33
22 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:9163021 original size:41 final size:41
Alignment explanation
Indices: 9162933--9163026 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
9162923 TTTTCATAAT
* *
9162933 TCGCAATGCGAA-TACGTAAATCACAACGCGATTAAGTAAA
1 TCGCAATGCGAATTACGAAAATCACAACGCGAATAAGTAAA
* ** * *
9162973 TCGCAATGCGAATTAGGAAAATTGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTACGAAAATCACAACGCGAATAAGTAAA
9163014 TCGCAATGCGAAT
1 TCGCAATGCGAAT
9163027 CTTACTATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 12 0.26
41 34 0.74
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATTACGAAAATCACAACGCGAATAAGTAAA
Found at i:9163614 original size:19 final size:19
Alignment explanation
Indices: 9163587--9163631 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
9163577 GCAACGAGAG
* *
9163587 AATCACAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
9163606 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
9163625 AATCGCA
1 AATCGCA
9163632 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.27, G:0.13, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:9163668 original size:14 final size:14
Alignment explanation
Indices: 9163649--9163697 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
9163639 TTTCATTTCG
*
9163649 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
*
9163663 CGTTGC-ATT-TCG
1 CGTTGCGATTCTCT
9163675 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
9163689 CGTTGCGAT
1 CGTTGCGAT
9163698 AGTCATTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 7 0.23
13 6 0.20
14 17 0.57
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9163678 original size:26 final size:26
Alignment explanation
Indices: 9163642--9163694 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
9163632 TTGCGATTTT
9163642 CATTTCGCGTTGCGATTCTATCGTTG
1 CATTTCGCGTTGCGATTCTATCGTTG
*
9163668 CATTTCGCGTTGCGATTCTCTCGTTG
1 CATTTCGCGTTGCGATTCTATCGTTG
9163694 C
1 C
9163695 GATAGTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (26 bp):
CATTTCGCGTTGCGATTCTATCGTTG
Found at i:9163723 original size:20 final size:20
Alignment explanation
Indices: 9163689--9163738 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9163679 GCGATTCTCT
**
9163689 CGTTGCGATAGTCATT-TCCG
1 CGTTGCGATTCTCATTAT-CG
*
9163709 CGTTGCGATTCTCATTATCT
1 CGTTGCGATTCTCATTATCG
9163729 CGTTGCGATT
1 CGTTGCGATT
9163739 TTTATTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTCTCATTATCG
Found at i:9167255 original size:13 final size:13
Alignment explanation
Indices: 9167210--9167246 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
9167200 TTTGATTGTT
9167210 AATTGATTTGTAA
1 AATTGATTTGTAA
*
9167223 AAGTGATTTGTAA
1 AATTGATTTGTAA
9167236 AATTGATTTGT
1 AATTGATTTGT
9167247 TTAATTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:9167396 original size:32 final size:33
Alignment explanation
Indices: 9167352--9167424 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
9167342 AAAAAATACT
*
9167352 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
9167384 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
9167417 ATCGCAAC
1 ATCGCAAC
9167425 AGAGAATCGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 15 0.38
33 24 0.62
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:9167430 original size:13 final size:14
Alignment explanation
Indices: 9167369--9167438 Score: 79
Period size: 14 Copynumber: 4.7 Consensus size: 14
9167359 TGCGAAATGA
9167369 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
9167383 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
9167402 AATCGCAACGAGAG
1 AATCGCAACGAGAG
9167416 AATCGCAAC-AGAG
1 AATCGCAACGAGAG
9167429 AATCGCAACG
1 AATCGCAACG
9167439 CGAAATGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
13 13 0.27
14 19 0.40
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 10 0.21
ACGTcount: A:0.44, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:9167437 original size:46 final size:47
Alignment explanation
Indices: 9167368--9167471 Score: 174
Period size: 46 Copynumber: 2.2 Consensus size: 47
9167358 ATGCGAAATG
* *
9167368 AAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATAGCAACGACA
*
9167415 GAATCGCAAC-AGAGAATCGCAACGCGAAATGAAAATAGCAACGACA
1 AAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATAGCAACGACA
9167461 AAATCGCAACG
1 AAATCGCAACG
9167472 CGAAACTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
46 43 0.83
47 9 0.17
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (47 bp):
AAATCGCAACGAGAGAATCGCAACGCGAAATGAAAATAGCAACGACA
Found at i:9167466 original size:33 final size:32
Alignment explanation
Indices: 9167420--9167495 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
9167410 CGAGAGAATC
* *
9167420 GCAACAGAGAATCGCAACGCGAAA-TGAAAATA
1 GCAACACAAAATCGCAACGCGAAACT-AAAATA
*
9167452 GCAACGACAAAATCGCAACGCGAAACTAAAATC
1 GCAAC-ACAAAATCGCAACGCGAAACTAAAATA
9167485 GCAACACAAAA
1 GCAACACAAAA
9167496 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
32 11 0.28
33 27 0.69
34 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.17, T:0.08
Consensus pattern (32 bp):
GCAACACAAAATCGCAACGCGAAACTAAAATA
Found at i:9167496 original size:19 final size:19
Alignment explanation
Indices: 9167460--9167505 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9167450 TAGCAACGAC
* *
9167460 AAAATCGCAACGCGAAACT
1 AAAATCGCAACACAAAACT
9167479 AAAATCGCAACACAAAACT
1 AAAATCGCAACACAAAACT
*
9167498 AAATTCGC
1 AAAATCGC
9167506 GTTTGCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.26, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACACAAAACT
Found at i:9167532 original size:19 final size:19
Alignment explanation
Indices: 9167508--9167632 Score: 82
Period size: 19 Copynumber: 7.4 Consensus size: 19
9167498 AAATTCGCGT
9167508 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
9167527 TTGCGA--TTC-CCTCG--
1 TTGCGATTTTCATTTCGCA
9167541 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
9167560 TTGCGA-----AATTCGCG
1 TTGCGATTTTCATTTCGCA
*
9167574 TTGCAATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
9167593 TTGGGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
9167607 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9167626 TTGCGAT
1 TTGCGAT
9167633 AGTAATTTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 30
0.64 0.12 0.25
Matches are distributed among these distances:
14 22 0.29
16 13 0.17
17 13 0.17
19 29 0.38
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:9167550 original size:33 final size:32
Alignment explanation
Indices: 9167508--9167632 Score: 180
Period size: 33 Copynumber: 3.8 Consensus size: 32
9167498 AAATTCGCGT
9167508 TTGCGATTTTCATTTCGCATTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATT-CCTCG
*
9167541 TTGCGATTTTCATTTCGCATTGCGAAATT-CGCG
1 TTGCGATTTTCATTTCGCATTGCG--ATTCCTCG
* *
9167574 TTGCAATTTTCATTTCGCATTGGGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTC-CTCG
9167607 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
9167633 AGTAATTTCT
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.43
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCATTGCGATTCCTCG
Found at i:9167607 original size:66 final size:67
Alignment explanation
Indices: 9167498--9167631 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 67
9167488 ACACAAAACT
*
9167498 AAATTCGCGTTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
1 AAATTCGCGTTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
9167563 CG
66 CG
* *
9167565 AAATTCGCG-TTGCAATTTTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 AAATTCGCGTTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
9167629 CG
66 CG
9167631 A
1 A
9167632 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 55 0.86
67 9 0.14
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (67 bp):
AAATTCGCGTTTGCAATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTG
CG
Found at i:9167854 original size:165 final size:164
Alignment explanation
Indices: 9167582--9167910 Score: 649
Period size: 165 Copynumber: 2.0 Consensus size: 164
9167572 CGTTGCAATT
9167582 TTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCTGCTT
1 TTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCTGCTT
9167647 TGCGATAGACATTAAGATGATTGCCTATTAAGTGATAACAACTGAACAGATCATAGCAATTTTCA
66 TGCGATAGACATTAAGATGATTGCCTATTAAGTGATAACAACTGAACAGATCATAGCAA-TTTCA
9167712 AACTCAAGTTACTAATACATGCCTAACTGAAAATG
130 AACTCAAGTTACTAATACATGCCTAACTGAAAATG
9167747 TTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCTGCTT
1 TTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCTGCTT
9167812 TGCGATAGACATTAAGATGATTGCCTATTAAGTGATAACAACTGAACAGATCATAGCAATTTCAA
66 TGCGATAGACATTAAGATGATTGCCTATTAAGTGATAACAACTGAACAGATCATAGCAATTTCAA
9167877 ACTCAAGTTACTAATACATGCCTAACTGAAAATG
131 ACTCAAGTTACTAATACATGCCTAACTGAAAATG
9167911 GTTAAAAGTT
Statistics
Matches: 164, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
164 40 0.24
165 124 0.76
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (164 bp):
TTCATTTCGCATTGGGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATAGTAATTTCTGCTT
TGCGATAGACATTAAGATGATTGCCTATTAAGTGATAACAACTGAACAGATCATAGCAATTTCAA
ACTCAAGTTACTAATACATGCCTAACTGAAAATG
Found at i:9170081 original size:14 final size:14
Alignment explanation
Indices: 9170064--9170097 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9170054 CTTCGGGGAC
9170064 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
9170078 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
9170092 TCTTTT
1 T-TTTT
9170098 TCAGGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:9170307 original size:24 final size:24
Alignment explanation
Indices: 9170273--9170326 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9170263 CTGAAACATC
*
9170273 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
9170297 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
9170321 ATCAAA
1 ATCAAA
9170327 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:9171181 original size:20 final size:20
Alignment explanation
Indices: 9171147--9171226 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
9171137 GAATTTGGAA
* *
9171147 TATCGCAATGCGATACTGAC
1 TATCGCAACGAGATACTGAC
*
9171167 TATCGCAACGAGATAGT-AC
1 TATCGCAACGAGATACTGAC
* *
9171186 AAAATCGCAACGAGATTCTGAC
1 --TATCGCAACGAGATACTGAC
* *
9171208 TTTCGCAACGAGATTCTGA
1 TATCGCAACGAGATACTGA
9171227 AAATCGCATC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 31 0.63
21 14 0.29
22 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (20 bp):
TATCGCAACGAGATACTGAC
Found at i:9171233 original size:20 final size:20
Alignment explanation
Indices: 9171186--9171234 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
9171176 GAGATAGTAC
9171186 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
9171206 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
9171226 AAAATCGCA
1 AAAATCGCA
9171235 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:9171501 original size:20 final size:20
Alignment explanation
Indices: 9171446--9171493 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
9171436 CAACGGGGAA
9171446 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
9171466 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
9171486 ATCGCAAC
1 ATCGCAAC
9171494 TAGAAAATCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:9172108 original size:21 final size:21
Alignment explanation
Indices: 9172084--9172127 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9172074 ACGTGCCAAG
9172084 CACATGCATACGAGAGGACCA
1 CACATGCATACGAGAGGACCA
9172105 CACATGCATACGAGAGGACCA
1 CACATGCATACGAGAGGACCA
9172126 CA
1 CA
9172128 ATCCCCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.30, G:0.23, T:0.09
Consensus pattern (21 bp):
CACATGCATACGAGAGGACCA
Found at i:9173140 original size:41 final size:41
Alignment explanation
Indices: 9173067--9173172 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
9173057 TCTGGAATGG
* ** * *
9173067 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGGA-CTCTTGAGGGATGACAGGGGCCTCTTGAACGA
* *
9173109 TGGGGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGGGACTCTTGAGGGATGACAGGGGCCTCTTGAACGA
* *
9173150 TTGGAGGGACTCTTGAGGAATGA
1 TGGGAGGGACTCTTGAGGGATGA
9173173 GGTGAGTCGG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 46 0.85
42 8 0.15
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.23
Consensus pattern (41 bp):
TGGGAGGGACTCTTGAGGGATGACAGGGGCCTCTTGAACGA
Found at i:9173624 original size:19 final size:19
Alignment explanation
Indices: 9173597--9173693 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
9173587 CGAACACAAA
9173597 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* * *
9173616 TCGCGTTGC-AATTT--TG
1 TCGCATTGCGATTTTCATT
9173632 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
9173649 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
9173665 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
9173682 TCGCATTGCGAT
1 TCGCATTGCGAT
9173694 AGCCATTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 11 0.18
15 7 0.12
16 6 0.10
17 6 0.10
18 7 0.12
19 23 0.38
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:9173691 original size:33 final size:33
Alignment explanation
Indices: 9173600--9173693 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
9173590 ACACAAATCG
* *
9173600 CATTGCGATTTTCATTTCGCGTTGCAATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
9173633 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
*
9173666 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
9173694 AGCCATTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:9173712 original size:20 final size:19
Alignment explanation
Indices: 9173678--9173732 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9173668 TTGCGATTTT
*
9173678 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9173697 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9173717 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9173733 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9174546 original size:19 final size:20
Alignment explanation
Indices: 9174492--9174558 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
9174482 TAGTTTACTT
* *
9174492 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
9174512 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
9174532 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
9174551 TCGCAACG
1 TCGCAACG
9174559 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:9174566 original size:14 final size:14
Alignment explanation
Indices: 9174547--9174605 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
9174537 ATGCGAAATG
9174547 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
9174561 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
9174580 AAAATCGCAACGAC
1 AAAATCGCAACGAC
9174594 AAAATCGCAACG
1 AAAATCGCAACG
9174606 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:9174573 original size:33 final size:33
Alignment explanation
Indices: 9174531--9174622 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
9174521 GGAAATGGCT
9174531 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
9174564 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
9174597 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
9174623 TGCGATTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:9174585 original size:19 final size:19
Alignment explanation
Indices: 9174531--9174627 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
9174521 GGAAATGGCT
9174531 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9174550 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
9174564 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
9174583 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
9174597 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
9174616 ATCGCAATGCGA
1 ATCGCAATGCGA
9174628 TTTGTTTCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:9174696 original size:20 final size:19
Alignment explanation
Indices: 9174662--9174716 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
9174652 TTGCGATTTT
*
9174662 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
9174681 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
9174701 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
9174717 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:9175097 original size:21 final size:21
Alignment explanation
Indices: 9175071--9175124 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9175061 CTGTCATTCC
* *
9175071 TCAAGAGTCCCCTCTAATCGT
1 TCAAGAGTCCCCTATAATCCT
* *
9175092 TCAAGAGGCCCCTATCATCCT
1 TCAAGAGTCCCCTATAATCCT
9175113 TCAAGAGTCCCC
1 TCAAGAGTCCCC
9175125 CCCCACCGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (21 bp):
TCAAGAGTCCCCTATAATCCT
Found at i:9175173 original size:42 final size:42
Alignment explanation
Indices: 9175071--9175151 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
9175061 CTGTCATTCC
* ** * *
9175071 TCAAGAGTCCCCTCTAATCGTTCAAGAGGCCCCTATCATCCT
1 TCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTATCATCCT
*
9175113 TCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTGTCAT
1 TCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTATCAT
9175152 TGTTGAAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.38, G:0.16, T:0.22
Consensus pattern (42 bp):
TCAAGAGTCCCCCCCCACCGTTCAAGAGGCCACTATCATCCT
Found at i:9176591 original size:14 final size:14
Alignment explanation
Indices: 9176557--9176595 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9176547 TTGATTGTTT
9176557 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
9176571 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
9176585 TGTTGATTTGT
1 AATTGATTTGT
9176596 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:9176786 original size:19 final size:19
Alignment explanation
Indices: 9176712--9176779 Score: 127
Period size: 19 Copynumber: 3.6 Consensus size: 19
9176702 ATCGCAACGA
9176712 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
9176731 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
9176750 GAAAATTGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
9176769 GAAAATCGCAA
1 GAAAATCGCAA
9176780 CGAGAAAATC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.16
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:9176842 original size:20 final size:20
Alignment explanation
Indices: 9176817--9176892 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
9176807 TCGCATTGCG
*
9176817 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
9176837 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
9176858 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
9176877 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
9176893 TTCCCCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:9176908 original size:34 final size:34
Alignment explanation
Indices: 9176805--9176908 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 34
9176795 GCGATTTTCA
* * *
9176805 TTTCGCATTGCGATTTTCTAGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTCCTCGTTGCGATAGCCAT
*
9176839 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA--TTTC--CTCG--TTGCGATAGCCAT
* *
9176879 TTTCGCGTTGCGATTTCCCCGTTGTGATAG
1 TTTCGCGTTGCGATTTCCTCGTTGCGATAG
9176909 TCAAATGAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
34 20 0.35
36 5 0.09
38 6 0.11
40 26 0.46
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTCCTCGTTGCGATAGCCAT
Found at i:9177130 original size:20 final size:20
Alignment explanation
Indices: 9177105--9177155 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9177095 TTTGAAGATG
9177105 ATTGCGATTTTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
***
9177125 ATTGCGAAAGTCAGAATCTC
1 ATTGCGATTTTCAGAATCTC
*
9177145 GTTGCGATTTT
1 ATTGCGATTTT
9177156 GTACTATCTC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTGCGATTTTCAGAATCTC
Found at i:9177226 original size:20 final size:21
Alignment explanation
Indices: 9177182--9177237 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
9177172 ATAGTCAGTA
*
9177182 TCGCATTGCGATATTCCAAAT
1 TCGCATTGCGATATTACAAAT
**
9177203 TCGCATTGCGAT-TTACTTAT
1 TCGCATTGCGATATTACAAAT
9177223 TCGCATTGCGA-ATTA
1 TCGCATTGCGATATTA
9177238 GGAAAATCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATATTACAAAT
Found at i:9177466 original size:12 final size:12
Alignment explanation
Indices: 9177430--9177463 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9177420 ATCTCCGGCG
9177430 ACATCCGTTCCT
1 ACATCCGTTCCT
*
9177442 ATATCCGTTCCT
1 ACATCCGTTCCT
9177454 ACATCC-TTCC
1 ACATCCGTTCC
9177464 CTATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:9178256 original size:12 final size:12
Alignment explanation
Indices: 9178239--9178263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9178229 ATATAATCCT
9178239 GAAGAAGAAAAA
1 GAAGAAGAAAAA
9178251 GAAGAAGAAAAA
1 GAAGAAGAAAAA
9178263 G
1 G
9178264 TCCCCGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:9180599 original size:33 final size:33
Alignment explanation
Indices: 9180552--9180678 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
9180542 GGAAATTACT
* *
9180552 ATCGCAATGTGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9180585 ATCCCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
9180617 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
9180651 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
9180679 CGAATTTAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9180615 original size:19 final size:19
Alignment explanation
Indices: 9180593--9180682 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 19
9180583 GAATCCCAAT
9180593 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
* *
9180612 GCG-AAT----TTCGCAAT
1 GCGAAATGAAAATCGCAAC
9180626 GCGAAATGAAAATCGCAA-
1 GCGAAATGAAAATCGCAAC
** *
9180644 -CG--A-GGGAATCGCAAT
1 GCGAAATGAAAATCGCAAC
9180659 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
9180678 GCGAA
1 GCGAA
9180683 TTTAGTTTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
14 18 0.34
15 4 0.08
16 2 0.04
17 2 0.04
18 4 0.08
19 23 0.43
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:9180659 original size:66 final size:66
Alignment explanation
Indices: 9180553--9180685 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
9180543 GAAATTACTA
*
9180553 TCGCAATGTGAAATAAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAACGCGAAT
9180618 T
66 T
* * *
9180619 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAACGCGAAT
9180684 T
66 T
9180685 T
1 T
9180686 AGTTTCACGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCCCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:9180720 original size:19 final size:19
Alignment explanation
Indices: 9180678--9180806 Score: 113
Period size: 19 Copynumber: 7.3 Consensus size: 19
9180668 AAATCGCAAC
* *
9180678 GCGAATTTAGTTTCACGTT
1 GCGATTTTAGTTTCGCGTT
9180697 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
9180716 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
9180730 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
9180744 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
9180763 GCGATTTTCA-TTTTGCGTT
1 GCGATTTT-AGTTTCGCGTT
9180782 GCGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
9180801 GCGATT
1 GCGATT
9180807 CTCTCGTTAC
Statistics
Matches: 100, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
14 26 0.26
16 1 0.01
17 1 0.01
18 1 0.01
19 71 0.71
ACGTcount: A:0.12, C:0.17, G:0.24, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:9180731 original size:14 final size:14
Alignment explanation
Indices: 9180712--9180751 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
9180702 TTTAGTTTCG
9180712 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
9180726 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
9180740 CGTTGCGATTTT
1 CGTTGCGATTTT
9180752 CATTTCGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.15, G:0.28, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:9180763 original size:33 final size:33
Alignment explanation
Indices: 9180726--9180838 Score: 145
Period size: 33 Copynumber: 3.3 Consensus size: 33
9180716 GCGATTTTGT
*
9180726 CGTTGCGATTTTGTCGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCTCGTTGCGATTTTCATTTCG
9180759 CGTTGCGATTTTCATTTTGCGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTC----T-CGTTGCGATTTTCATTTCG
* *
9180797 CGTTGCGATTCTCTCGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCTCGTTGCGATTTTCATTTCG
*
9180830 CATTGCGAT
1 CGTTGCGAT
9180839 AGTATTTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
33 38 0.54
34 1 0.01
37 1 0.01
38 31 0.44
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCTCGTTGCGATTTTCATTTCG
Found at i:9180785 original size:38 final size:37
Alignment explanation
Indices: 9180733--9180838 Score: 139
Period size: 38 Copynumber: 2.9 Consensus size: 37
9180723 TGTCGTTGCG
9180733 ATTTTGTCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
1 ATTTTG-CGTTGCGATTTTCATTTCGCGTTGCGA-TTTC
9180772 ATTTTGCGTTGCGATTTTCATTTCGCGTTGCGA-TTC
1 ATTTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTC
* * *
9180808 --TCT-CGTTACGATTTTCATTTCGCATTGCGAT
1 ATTTTGCGTTGCGATTTTCATTTCGCGTTGCGAT
9180839 AGTATTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
33 25 0.40
34 2 0.03
36 3 0.05
38 27 0.43
39 6 0.10
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (37 bp):
ATTTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTC
Found at i:9180964 original size:14 final size:14
Alignment explanation
Indices: 9180945--9180981 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9180935 CATCAATTAA
9180945 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
9180959 ACAAATCACCTTTT
1 ACAAATCAACTTTT
9180973 ACAAATCAA
1 ACAAATCAA
9180982 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:9182401 original size:21 final size:21
Alignment explanation
Indices: 9182335--9182401 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9182325 GTGAATCGGG
*
9182335 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
9182355 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
9182377 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
9182398 CTCT
1 CTCT
9182402 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:9182855 original size:91 final size:94
Alignment explanation
Indices: 9182675--9182860 Score: 290
Period size: 91 Copynumber: 2.0 Consensus size: 94
9182665 ATTTCAAACT
* *
9182675 TTCAACCAAAAGACAAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAAAAAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAG
9182740 CAGAATTGGAAGCAACCGAATAAATTTAC
66 CAGAATTGGAAGCAACCGAATAAATTTAC
*
9182769 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAATGTT-AATAA-ACA-A-TTTA
1 TTCAACCAAAAGACAAAA-AAAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTA
* *
9182830 GCAGTATTGGCAGCAACCGAATAAATTTAC
65 GCAGAATTGGAAGCAACCGAATAAATTTAC
9182860 T
1 T
9182861 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
91 33 0.38
92 1 0.01
93 3 0.03
94 22 0.26
95 27 0.31
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (94 bp):
TTCAACCAAAAGACAAAAAAAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAG
CAGAATTGGAAGCAACCGAATAAATTTAC
Found at i:9184627 original size:33 final size:33
Alignment explanation
Indices: 9184568--9184702 Score: 135
Period size: 33 Copynumber: 3.9 Consensus size: 33
9184558 ACGAGATAAT
* *
9184568 GAGAATCGCAACGCGGAAATGCCTATCTCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
9184602 GAGAATCGCAACGCGAAATGACTATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* * **
9184639 TGAAAATTGCAACGCGAAATGAAAATCGCAACGA
1 -GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
9184673 TAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
9184703 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
33 41 0.47
34 15 0.17
35 2 0.02
36 2 0.02
37 1 0.01
38 26 0.30
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:9184630 original size:19 final size:19
Alignment explanation
Indices: 9184605--9184707 Score: 126
Period size: 19 Copynumber: 5.7 Consensus size: 19
9184595 TCAACGAGAG
*
9184605 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
9184624 TATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
9184643 AATTGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
9184662 AATCGCAA--CG--AT-AG
1 AATCGCAACGCGAAATGAA
9184676 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
9184695 AATCGCAATGCGA
1 AATCGCAACGCGA
9184708 TTTTGGTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.13
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 54 0.76
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:9184678 original size:71 final size:73
Alignment explanation
Indices: 9184543--9184708 Score: 219
Period size: 71 Copynumber: 2.3 Consensus size: 73
9184533 TCTTTTGGTT
* * *** *
9184543 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGCCTATCTCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
9184608 CGCAACGC
66 CGCAACGC
** * *
9184616 GAAATGACTATCGCAACGCGA-AATGAAAATTGCAACGC-GAAATGAAAATCGCAACGATAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
9184679 CGCAACGC
66 CGCAACGC
*
9184687 GAAATGAAAATCGCAATGCGAT
1 GAAATGAAAATCGCAACGCGAT
9184709 TTTGGTTTTG
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
71 46 0.58
72 15 0.19
73 18 0.23
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (73 bp):
GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
CGCAACGC
Found at i:9185341 original size:20 final size:20
Alignment explanation
Indices: 9185289--9185398 Score: 114
Period size: 20 Copynumber: 5.5 Consensus size: 20
9185279 GCTATGTAAA
* *
9185289 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
9185309 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
9185329 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* * *
9185350 TCGCATTGCAATTTACTTAA
1 TCGCATTGCGATTTACGTAT
* *
9185370 TCGCGTTACGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
9185390 TCGCATTGC
1 TCGCATTGC
9185399 AAATTATGAA
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 53 0.73
21 17 0.23
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:9185364 original size:41 final size:40
Alignment explanation
Indices: 9185307--9185400 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 40
9185297 CGATAGTAAG
* * * *
9185307 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCAATTTACGTAATCGCATTACGATTTACCT
* * *
9185347 AATTCGCATTGCAATTTACTTAATCGCGTTACGATTTACGT
1 -ATTCGCATTGCAATTTACGTAATCGCATTACGATTTACCT
9185388 ATTCGCATTGCAA
1 ATTCGCATTGCAA
9185401 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 13 0.28
41 33 0.72
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (40 bp):
ATTCGCATTGCAATTTACGTAATCGCATTACGATTTACCT
Found at i:9185498 original size:21 final size:21
Alignment explanation
Indices: 9185443--9185506 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
9185433 GCAATGCAAA
9185443 TTTCCAAATTCGCATTGCGAT
1 TTTCCAAATTCGCATTGCGAT
** *
9185464 AGT-C-AGTATCGCATTGCGAT
1 TTTCCAAAT-TCGCATTGCGAT
9185484 TTTCCAAATTCGCATTGCGAT
1 TTTCCAAATTCGCATTGCGAT
9185505 TT
1 TT
9185507 ACTTATTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.06
20 14 0.41
21 16 0.47
22 2 0.06
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (21 bp):
TTTCCAAATTCGCATTGCGAT
Found at i:9185565 original size:21 final size:22
Alignment explanation
Indices: 9185517--9185565 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9185507 ACTTATTCGT
9185517 ATTGCG-AATTGGGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
**
9185538 AACGCGAAATT-GGAAAATCGC
1 ATTGCGAAATTGGGAAAATCGC
9185559 ATTGCGA
1 ATTGCGA
9185566 TAGTCATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (22 bp):
ATTGCGAAATTGGGAAAATCGC
Found at i:9187118 original size:24 final size:23
Alignment explanation
Indices: 9187085--9187129 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
9187075 CATATAAAAT
9187085 TAAGAATAAAATGTGAAAAGCAACA
1 TAAGAATAAAA--TGAAAAGCAACA
9187110 TAAG-ATAAAATGAAAAGCAA
1 TAAGAATAAAATGAAAAGCAA
9187130 TTAGGACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
24 6 0.30
25 4 0.20
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAGAATAAAATGAAAAGCAACA
Found at i:9189896 original size:17 final size:17
Alignment explanation
Indices: 9189874--9189915 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
9189864 CTTCAGGTTG
*
9189874 GACTTGTTTCTGATTAT
1 GACTTGCTTCTGATTAT
9189891 GACTTGCTTCTGATTAT
1 GACTTGCTTCTGATTAT
9189908 GACTTGCT
1 GACTTGCT
9189916 AGCATTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (17 bp):
GACTTGCTTCTGATTAT
Found at i:9193337 original size:13 final size:13
Alignment explanation
Indices: 9193321--9193364 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
9193311 TCAATGTGCA
9193321 TCATAAATGAGCG
1 TCATAAATGAGCG
* *
9193334 TCATAAATGTGTG
1 TCATAAATGAGCG
*
9193347 TCATAAATGCGCG
1 TCATAAATGAGCG
9193360 TCATA
1 TCATA
9193365 GATTTATGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (13 bp):
TCATAAATGAGCG
Found at i:9193343 original size:26 final size:26
Alignment explanation
Indices: 9193313--9193364 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
9193303 AATGACGCTC
9193313 AATGTGCATCATAAATGAGCGTCATA
1 AATGTGCATCATAAATGAGCGTCATA
** *
9193339 AATGTGTGTCATAAATGCGCGTCATA
1 AATGTGCATCATAAATGAGCGTCATA
9193365 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (26 bp):
AATGTGCATCATAAATGAGCGTCATA
Found at i:9194349 original size:17 final size:18
Alignment explanation
Indices: 9194314--9194349 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9194304 AGCCAACGTG
9194314 CTGGAGATTAAGTAAGCA
1 CTGGAGATTAAGTAAGCA
9194332 CTGGAGATTAAG-AAGCA
1 CTGGAGATTAAGTAAGCA
9194349 C
1 C
9194350 AAGTGGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (18 bp):
CTGGAGATTAAGTAAGCA
Found at i:9195990 original size:25 final size:25
Alignment explanation
Indices: 9195932--9195990 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
9195922 ATCTTAAATT
*
9195932 GTACTTTTGTACAACACTTTTAAAA
1 GTACTTTTCTACAACACTTTTAAAA
* * *
9195957 GTTCGTTTCTACAATACTTTTAAAA
1 GTACTTTTCTACAACACTTTTAAAA
9195982 -TCACTTTTC
1 GT-ACTTTTC
9195991 AAAAGCTGCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (25 bp):
GTACTTTTCTACAACACTTTTAAAA
Found at i:9197791 original size:34 final size:34
Alignment explanation
Indices: 9197752--9197828 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
9197742 ATCAACGGGA
* *
9197752 TGGGGATGGGGAAGTTTTATCCCCAAAGTTTAAT
1 TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
9197786 TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
1 TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
*
9197820 TAGGGATGG
1 TGGGGATGG
9197829 AGACGGAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (34 bp):
TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
Found at i:9199959 original size:20 final size:20
Alignment explanation
Indices: 9199936--9200003 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
9199926 GAATATGTAA
9199936 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTAACT
* ** **
9199956 ATCGTAACGCGATAATACAAA
1 ATCGCAACGCGATTCTA-ACT
9199977 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTAACT
9199997 ATCGCAA
1 ATCGCAA
9200004 TGTGATAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTAACT
Found at i:9199985 original size:21 final size:20
Alignment explanation
Indices: 9199934--9200024 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
9199924 GCGAATATGT
**
9199934 AAATCGCAACGCGATTCTAA
1 AAATCGCAACGCGATAATAA
** *
9199954 CTATCGTAACGCGATAATACA
1 AAATCGCAACGCGATAATA-A
**
9199975 AAATCGCAACGCGATTCTAA
1 AAATCGCAACGCGATAATAA
** * *
9199995 CTATCGCAATGTGATAATACA
1 AAATCGCAACGCGATAATA-A
9200016 AAATCGCAA
1 AAATCGCAA
9200025 TGCAACGCGA
Statistics
Matches: 51, Mismatches: 18, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
20 28 0.55
21 23 0.45
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGATAATAA
Found at i:9199991 original size:41 final size:41
Alignment explanation
Indices: 9199934--9200077 Score: 198
Period size: 41 Copynumber: 3.4 Consensus size: 41
9199924 GCGAATATGT
* *
9199934 AAATCGCAACGCGATTCTAACTATCGTAACGCGATAATACA
1 AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
9199975 AAATCGCAACGCGATTCTAACTATCGCAATGTGATAATACA
1 AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
9200016 AAATCGCAATGCAACGCGATTCTGACTATCGCAATGCGATAATACA
1 AAAT--C---GCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
9200062 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
9200078 TTCCAAATTC
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
41 52 0.57
43 1 0.01
44 1 0.01
46 38 0.41
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
Found at i:9200047 original size:46 final size:46
Alignment explanation
Indices: 9199939--9200073 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
9199929 TATGTAAATC
* *
9199939 GCAACGCGATTCTAACTATCGTAACGCGATAATACAAAAT--C---
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
*
9199980 GCAACGCGATTCTAACTATCGCAATGTGATAATACAAAATCGCAAT
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
*
9200026 GCAACGCGATTCTGACTATCGCAATGCGATAATACAAAATCGCAAT
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
9200072 GC
1 GC
9200074 GATTTTCCAA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
41 37 0.44
43 1 0.01
46 46 0.55
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (46 bp):
GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
Found at i:9200084 original size:21 final size:21
Alignment explanation
Indices: 9199964--9200076 Score: 75
Period size: 21 Copynumber: 5.2 Consensus size: 21
9199954 CTATCGTAAC
*
9199964 GCGATAATACAAAATCGCAAC
1 GCGATAATACAAAATCGCAAT
** **
9199985 GCGATTCTA-ACTATCGCAAT
1 GCGATAATACAAAATCGCAAT
*
9200005 GTGATAATACAAAATCGCAAT
1 GCGATAATACAAAATCGCAAT
* ** * **
9200026 GCAACGCGATTCTGACTATCGCAAT
1 GCGA--TAATAC--AAAATCGCAAT
9200051 GCGATAATACAAAATCGCAAT
1 GCGATAATACAAAATCGCAAT
9200072 GCGAT
1 GCGAT
9200077 TTTCCAAATT
Statistics
Matches: 64, Mismatches: 23, Indels: 10
0.66 0.24 0.10
Matches are distributed among these distances:
20 14 0.22
21 32 0.50
23 6 0.09
25 12 0.19
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
GCGATAATACAAAATCGCAAT
Found at i:9200101 original size:19 final size:19
Alignment explanation
Indices: 9200079--9200128 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
9200069 AATGCGATTT
*
9200079 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
9200098 TCCAAGTTCACGTTGCGATAG
1 TCCAAGTT--CGTTGCGATAG
9200119 TCCAAGTTCG
1 TCCAAGTTCG
9200129 CGTTGCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (19 bp):
TCCAAGTTCGTTGCGATAG
Found at i:9200113 original size:21 final size:21
Alignment explanation
Indices: 9200087--9200137 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
9200077 TTTCCAAATT
9200087 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
*
9200108 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
9200129 CGTTGCGAT
1 CGTTGCGAT
9200138 TTTGGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCA
Found at i:9200479 original size:6 final size:6
Alignment explanation
Indices: 9200468--9200493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9200458 GACACGTATT
9200468 ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG AC
9200494 ACCGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:9200858 original size:19 final size:19
Alignment explanation
Indices: 9200831--9200887 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
9200821 ACGTTTTTCA
* *
9200831 AACTCTCGCAAAACATTTT
1 AACTATCGCAACACATTTT
9200850 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
9200869 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
9200888 TCAAAATCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:9200915 original size:20 final size:21
Alignment explanation
Indices: 9200892--9200952 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
9200882 CATTTTTCAA
*
9200892 AATCGCGTTGCGAATCT-TAC
1 AATCGCGTTGCGAATCTGGAC
* *
9200912 AATCGCGTTGTGAATCTGGAT
1 AATCGCGTTGCGAATCTGGAC
* *
9200933 ATTCGCGTTGCGAATTTGGA
1 AATCGCGTTGCGAATCTGGA
9200953 AACTGAGTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (21 bp):
AATCGCGTTGCGAATCTGGAC
Found at i:9204763 original size:41 final size:41
Alignment explanation
Indices: 9204706--9204788 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
9204696 CTACCGTTGA
*
9204706 ACAAAGTGTCCTTGCACACTGTAGTA-CTGAATTAAACCTAC
1 ACAAAGTGTCCTTGCACACTATAG-AGCTGAATTAAACCTAC
*
9204747 ACAAAGTGTCCTTGCACACTATAGAGTTGAATTAAACCTAC
1 ACAAAGTGTCCTTGCACACTATAGAGCTGAATTAAACCTAC
9204788 A
1 A
9204789 GCTGCTAGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (41 bp):
ACAAAGTGTCCTTGCACACTATAGAGCTGAATTAAACCTAC
Found at i:9222139 original size:29 final size:30
Alignment explanation
Indices: 9222107--9222230 Score: 98
Period size: 29 Copynumber: 4.2 Consensus size: 30
9222097 GGTCAAAACA
*
9222107 CCTAAA-TTTTAGAAA-TTACATTTTTGGTC
1 CCTAAACTTTT-GAAATTTACACTTTTGGTC
*
9222136 CCTAAACTTTTGAAATTTACCCTTTTGGTC
1 CCTAAACTTTTGAAATTTACACTTTTGGTC
* *
9222166 CCTAAACTTCTCT-AAACTTTATAC-TTTGGGC
1 CCTAAACTT-T-TGAAA-TTTACACTTTTGGTC
* *
9222197 ACTAAAC-TTTCAAATATTACA-TTTTGGTC
1 CCTAAACTTTTGAAAT-TTACACTTTTGGTC
*
9222226 ACTAA
1 CCTAA
9222231 CCAAAATTAT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
28 2 0.03
29 29 0.37
30 26 0.33
31 16 0.20
32 6 0.08
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (30 bp):
CCTAAACTTTTGAAATTTACACTTTTGGTC
Found at i:9222164 original size:30 final size:30
Alignment explanation
Indices: 9222107--9222174 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
9222097 GGTCAAAACA
*
9222107 CCTAAA-TTTTAGAAATTACATTTTTGGTC
1 CCTAAACTTTTAGAAATTACACTTTTGGTC
*
9222136 CCTAAACTTTT-GAAATTTACCCTTTTGGTC
1 CCTAAACTTTTAGAAA-TTACACTTTTGGTC
9222166 CCTAAACTT
1 CCTAAACTT
9222175 CTCTAAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (30 bp):
CCTAAACTTTTAGAAATTACACTTTTGGTC
Found at i:9233267 original size:41 final size:41
Alignment explanation
Indices: 9233220--9233386 Score: 196
Period size: 41 Copynumber: 4.0 Consensus size: 41
9233210 ATTCGCGTTG
9233220 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCT-AAAATCGCGTTGCGATTTTC
* *
9233261 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTAAAATCGCGTTGCGATTTTC
* * *
9233302 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTAAAATCG-CGTTGCGATTTTC
* * * *
9233344 CTAATT--CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 C-ATTTCGCGTTGCGATAGTCTAAAATCG-CGTTGCGATTTTC
9233385 CA
1 CA
9233387 AATTCGTTGT
Statistics
Matches: 119, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.01
41 100 0.84
42 15 0.13
43 3 0.03
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTCTAAAATCGCGTTGCGATTTTC
Found at i:9233270 original size:20 final size:20
Alignment explanation
Indices: 9233245--9233317 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
9233235 TAGTTGAAAA
9233245 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
9233265 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
9233286 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
9233306 TCGCGTTGCGAT
1 TCGCGTTGCGAT
9233318 AGTCTACAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.09
20 24 0.55
21 12 0.27
22 4 0.09
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:9233315 original size:82 final size:83
Alignment explanation
Indices: 9233220--9233386 Score: 234
Period size: 82 Copynumber: 2.0 Consensus size: 83
9233210 ATTCGCGTTG
*
9233220 CATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCT
1 CATTTCGCGTTGCGATAGTCT-AAAATCGTCGTTGCGATTTTCCTAATT--CGTTGCGATAGTCT
9233282 ACAGTCG-CGTTGCGATTTTC
63 ACAGTCGTCGTTGCGATTTTC
* * *
9233302 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCTAATTCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTCTAAAATCGTCGTTGCGATTTTCCTAATTCGTTGCGATAGTCTACA
*
9233367 GTTGTCGTTGCGATTTTC
66 GTCGTCGTTGCGATTTTC
9233385 CA
1 CA
9233387 AATTCGTTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
82 43 0.57
83 30 0.39
84 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (83 bp):
CATTTCGCGTTGCGATAGTCTAAAATCGTCGTTGCGATTTTCCTAATTCGTTGCGATAGTCTACA
GTCGTCGTTGCGATTTTC
Found at i:9233354 original size:19 final size:19
Alignment explanation
Indices: 9233330--9233395 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
9233320 TCTACAGTTG
9233330 TCGTTGCGATTTTCCTAAT
1 TCGTTGCGATTTTCCTAAT
**
9233349 TCGTTGCGATAGT-CTACAGTT
1 TCGTTGCGATTTTCCTA-A--T
*
9233370 GTCGTTGCGATTTTCCAAAT
1 -TCGTTGCGATTTTCCTAAT
9233390 TCGTTG
1 TCGTTG
9233396 TGATAGTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
18 3 0.08
19 18 0.49
20 1 0.03
21 1 0.03
22 12 0.32
23 2 0.05
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCTAAT
Found at i:9233391 original size:41 final size:41
Alignment explanation
Indices: 9233248--9233402 Score: 217
Period size: 41 Copynumber: 3.8 Consensus size: 41
9233238 TTGAAAATCG
* *
9233248 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG-
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
*
9233289 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTCTACAGTTGT
9233331 CGTTGCGATTTTCCTAATT-CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGTCTACAGTTGT
*
9233372 CGTTGCGATTTTCCAAATT-CGTTGTGATAGT
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGT
9233403 TAAAAAAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
41 91 0.84
42 14 0.13
43 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTTCCAATTCCGTTGCGATAGTCTACAGTTGT
Found at i:9233505 original size:5 final size:5
Alignment explanation
Indices: 9233495--9233535 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
9233485 GACCACGACC
9233495 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
9233536 GCGGCGGCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.37, C:0.22, G:0.41, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:9234028 original size:5 final size:5
Alignment explanation
Indices: 9234020--9234071 Score: 68
Period size: 5 Copynumber: 9.6 Consensus size: 5
9234010 CCGTCTCGTC
9234020 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG-GG
9234069 TCG
1 TCG
9234072 TGGTAATACG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 23 0.50
6 23 0.50
ACGTcount: A:0.00, C:0.19, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:9234054 original size:6 final size:6
Alignment explanation
Indices: 9234023--9234075 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
9234013 TCTCGTCTCG
9234023 GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
9234067 GGTCGT GGT
1 GGTCGT GGT
9234076 AATACGTGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 20 0.43
6 27 0.57
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.28
Consensus pattern (6 bp):
GGTCGT
Done.