Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 62
Found at i:10777231 original size:34 final size:31
Alignment explanation
Indices: 10777193--10777299 Score: 92
Period size: 34 Copynumber: 3.3 Consensus size: 31
10777183 TGTAATAGCA
*
10777193 ATATAATATATAGTTTAGAAAATATGTACGTAGT
1 ATATAATATATAGTTTAGAAAATATAT-CG-A-T
* *
10777227 ATATAACATATTAGTTTTAAATAAATATATCGAT
1 ATATAATATA-TAG-TTTAGA-AAATATATCGAT
* * *
10777261 ATATAGTATATAGTTTGGAAAAT-TAT-AAT
1 ATATAATATATAGTTTAGAAAATATATCGAT
10777290 ATATAATATA
1 ATATAATATA
10777300 GTAATATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 11 0.18
30 3 0.05
31 4 0.07
32 4 0.07
33 3 0.05
34 18 0.30
35 4 0.07
36 7 0.11
37 7 0.11
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (31 bp):
ATATAATATATAGTTTAGAAAATATATCGAT
Found at i:10777455 original size:3 final size:3
Alignment explanation
Indices: 10777447--10777489 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
10777437 TTATAATTTT
* *
10777447 TTA TTA TTA TTA TTA TTA TTCA TTA TTA ATA ATA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TT
10777490 TAATTGCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10783526 original size:8 final size:8
Alignment explanation
Indices: 10783514--10783588 Score: 73
Period size: 8 Copynumber: 9.6 Consensus size: 8
10783504 TTTTTAGTCC
*
10783514 ATATACAC
1 ATATACAT
*
10783522 ATATATAT
1 ATATACAT
10783530 ATATAC--
1 ATATACAT
* *
10783536 ATACACAC
1 ATATACAT
10783544 ATATACAT
1 ATATACAT
*
10783552 ATATATAT
1 ATATACAT
10783560 ATATACAT
1 ATATACAT
*
10783568 ACATACAT
1 ATATACAT
*
10783576 ATATATAT
1 ATATACAT
10783584 ATATA
1 ATATA
10783589 TTAATTTGGC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
6 5 0.09
8 49 0.91
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATACAT
Found at i:10783529 original size:2 final size:2
Alignment explanation
Indices: 10783522--10783589 Score: 64
Period size: 2 Copynumber: 34.0 Consensus size: 2
10783512 CCATATACAC
* * * * *
10783522 AT AT AT AT AT AT AC AT AC AC AC AT AT AC 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
* * *
10783564 AC AT AC AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10783590 TAATTTGGCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (2 bp):
AT
Found at i:10783543 original size:22 final size:22
Alignment explanation
Indices: 10783513--10783580 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
10783503 CTTTTTAGTC
* *
10783513 CATATACACATATATATATATA
1 CATACACACATATACATATATA
10783535 CATACACACATATACATATATA
1 CATACACACATATACATATATA
* * *
10783557 TATATATACATACATACATATATA
1 CATACACACAT--ATACATATATA
10783581 TATATATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 28 0.72
24 11 0.28
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (22 bp):
CATACACACATATACATATATA
Found at i:10783547 original size:30 final size:30
Alignment explanation
Indices: 10783513--10783589 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
10783503 CTTTTTAGTC
*
10783513 CATATACACATATATATATATACATACACA
1 CATATACATATATATATATATACATACACA
*
10783543 CATATACATATATATATATATACATACATA
1 CATATACATATATATATATATACATACACA
*
10783573 CATATATATATATATAT
1 CATATACATATATATAT
10783590 TAATTTGGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.36
Consensus pattern (30 bp):
CATATACATATATATATATATACATACACA
Found at i:10807188 original size:2 final size:2
Alignment explanation
Indices: 10807181--10807221 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
10807171 TGTGTAGTTA
*
10807181 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
10807222 GTGGGTGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10810903 original size:15 final size:15
Alignment explanation
Indices: 10810883--10810912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10810873 TGACTATGGT
*
10810883 ATATTTTAATGGAAA
1 ATATTTCAATGGAAA
10810898 ATATTTCAATGGAAA
1 ATATTTCAATGGAAA
10810913 TCGGTCATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (15 bp):
ATATTTCAATGGAAA
Found at i:10823033 original size:86 final size:86
Alignment explanation
Indices: 10822865--10823033 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 86
10822855 CTGCATATCA
* * **
10822865 GACCGTACTAAAGGATACATAGGACAGGTCAGTACAAATGGATACCTAGTGTTGATGGTGGGTAC
1 GACCGTACTAAAGGATACATAGGACAGGTCAATACAAATGGATACCTAGTGCTGATGGTGGAAAC
*
10822930 GACCTTATGTGTCATATTCGG
66 GACCTTACGTGTCATATTCGG
* * * *
10822951 GACCGTACTAAAGGATACCTAGGGCGGGTTAATACTAAA-GGATACCTAGTGCTGATGGTGGAAA
1 GACCGTACTAAAGGATACATAGGACAGGTCAATAC-AAATGGATACCTAGTGCTGATGGTGGAAA
* *
10823015 TGACCTCT-CGTGTTATATT
65 CGACCT-TACGTGTCATATT
10823034 GGTTTAGCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 66 0.94
87 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (86 bp):
GACCGTACTAAAGGATACATAGGACAGGTCAATACAAATGGATACCTAGTGCTGATGGTGGAAAC
GACCTTACGTGTCATATTCGG
Found at i:10832222 original size:21 final size:21
Alignment explanation
Indices: 10832198--10832266 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
10832188 CAGGTCATCT
10832198 ATAAGTCTTCTGAACAATATG
1 ATAAGTCTTCTGAACAATATG
** * *
10832219 ATAAGTCCTT-TGGGCCATCT-
1 ATAAGT-CTTCTGAACAATATG
*
10832239 ATAAGTCTTCCGAACAATATG
1 ATAAGTCTTCTGAACAATATG
10832260 ATAAGTC
1 ATAAGTC
10832267 CTCTAGGCCA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 3 0.08
20 11 0.31
21 19 0.53
22 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (21 bp):
ATAAGTCTTCTGAACAATATG
Found at i:10832228 original size:41 final size:41
Alignment explanation
Indices: 10832174--10832282 Score: 148
Period size: 41 Copynumber: 2.6 Consensus size: 41
10832164 TTTGAGCATG
* * *
10832174 ATGATTAAATCCTTCAGGTCATCTATAAGTCTTCTGAACAAT
1 ATGA-TAAGTCCTTCAGGCCATCTATAAGTCTTCCGAACAAT
**
10832216 ATGATAAGTCCTTTGGGCCATCTATAAGTCTTCCGAACAAT
1 ATGATAAGTCCTTCAGGCCATCTATAAGTCTTCCGAACAAT
10832257 ATGATAAGTCC-TCTAGGCCATCTATA
1 ATGATAAGTCCTTC-AGGCCATCTATA
10832283 TGACCTCCAT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 54 0.92
42 4 0.07
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (41 bp):
ATGATAAGTCCTTCAGGCCATCTATAAGTCTTCCGAACAAT
Found at i:10832922 original size:19 final size:19
Alignment explanation
Indices: 10832896--10832940 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10832886 AAAAATGATG
10832896 AAAAATAGAAAATGCAA-A
1 AAAAATAGAAAATGCAATA
*
10832914 AAAATATAGGAAATGCAATA
1 AAAA-ATAGAAAATGCAATA
10832934 AAAAATA
1 AAAAATA
10832941 AGATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (19 bp):
AAAAATAGAAAATGCAATA
Found at i:10832926 original size:28 final size:27
Alignment explanation
Indices: 10832869--10832926 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
10832859 GGTTTCAAGA
*
10832869 AAAAATGAAAAACAAAAAAAAATGATG
1 AAAAATGAAAAACAAAAAAAAATGAGG
* *
10832896 AAAAATAGAAAATGCAAAAAAATAT-AGG
1 AAAAAT-GAAAA-ACAAAAAAAAATGAGG
10832924 AAA
1 AAA
10832927 TGCAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 10 0.38
29 10 0.38
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (27 bp):
AAAAATGAAAAACAAAAAAAAATGAGG
Found at i:10835192 original size:30 final size:31
Alignment explanation
Indices: 10835158--10835218 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
10835148 TAATCACCAT
10835158 TAAACCAAGACACCTAA-CCTTATCATCTTC
1 TAAACCAAGACACCTAACCCTTATCATCTTC
10835188 TAAACCAAGACACCTAACCCTTATCATCTTC
1 TAAACCAAGACACCTAACCCTTATCATCTTC
10835219 CATAAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (31 bp):
TAAACCAAGACACCTAACCCTTATCATCTTC
Found at i:10835634 original size:31 final size:29
Alignment explanation
Indices: 10835599--10835657 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10835589 TTTGGTTCCT
* *
10835599 AAACTTTTCCAAAGTTTATACTTTGGTCACC
1 AAAC-TTT-CAAAATTTACACTTTGGTCACC
*
10835630 AAACTTTCAAAATTTACATTTTGGTCAC
1 AAACTTTCAAAATTTACACTTTGGTCAC
10835658 TATCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.72
30 3 0.12
31 4 0.16
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.39
Consensus pattern (29 bp):
AAACTTTCAAAATTTACACTTTGGTCACC
Found at i:10839443 original size:293 final size:293
Alignment explanation
Indices: 10838916--10839501 Score: 1154
Period size: 293 Copynumber: 2.0 Consensus size: 293
10838906 TGCACTATGG
10838916 CCAATGAATTGATTGCCACAATATCACTAGAAATAGGTTTTAAAGAGATTCTCCTATCTCTAACA
1 CCAATGAATTGATTGCCACAATATCACTAGAAATAGGTTTTAAAGAGATTCTCCTATCTCTAACA
10838981 AGTTTTGCACTAATATAATAATAAGTAGAACCGAGATTAATCAATACAAAAATAGGTTCAGCAAA
66 AGTTTTGCACTAATATAATAATAAGTAGAACCGAGATTAATCAATACAAAAATAGGTTCAGCAAA
10839046 GTGATAAAAGGTACCTTCTATAATCTCAAGAACATCTATGTCATCATTCTTCTTGATGTGATAAA
131 GTGATAAAAGGTACCTTCTATAATCTCAAGAACATCTATGTCATCATTCTTCTTGATGTGATAAA
10839111 CTCTTGCAGTAGTTCTGCCTTCACAATTAGATGTAGCCTCAGATGTACCAGGTTTACCTCATTTG
196 CTCTTGCAGTAGTTCTGCCTTCACAATTAGATGTAGCCTCAGATGTACCAGGTTTACCTCATTTG
10839176 CCACTCTTCCCCTCTAAAGTCCTGATACTGCCT
261 CCACTCTTCCCCTCTAAAGTCCTGATACTGCCT
10839209 CCAATGAATTGATTGCCACAATATCACTAGAAATAGGTTTTAAAGAGATTCTCCTATCTCTAACA
1 CCAATGAATTGATTGCCACAATATCACTAGAAATAGGTTTTAAAGAGATTCTCCTATCTCTAACA
*
10839274 AGTTTTGCACTAATATAATAATAAGTAGAACTGAGATTAATCAATACAAAAATAGGTTCAGCAAA
66 AGTTTTGCACTAATATAATAATAAGTAGAACCGAGATTAATCAATACAAAAATAGGTTCAGCAAA
*
10839339 GTGATAAAAGGTACCTTCTATAATCTCAAGAACATCTCTGTCATCATTCTTCTTGATGTGATAAA
131 GTGATAAAAGGTACCTTCTATAATCTCAAGAACATCTATGTCATCATTCTTCTTGATGTGATAAA
10839404 CTCTTGCAGTAGTTCTGCCTTCACAATTAGATGTAGCCTCAGATGTACCAGGTTTACCTCATTTG
196 CTCTTGCAGTAGTTCTGCCTTCACAATTAGATGTAGCCTCAGATGTACCAGGTTTACCTCATTTG
10839469 CCACTCTTCCCCTCTAAAGTCCTGATACTGCCT
261 CCACTCTTCCCCTCTAAAGTCCTGATACTGCCT
10839502 GATCTGGATG
Statistics
Matches: 291, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 291 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (293 bp):
CCAATGAATTGATTGCCACAATATCACTAGAAATAGGTTTTAAAGAGATTCTCCTATCTCTAACA
AGTTTTGCACTAATATAATAATAAGTAGAACCGAGATTAATCAATACAAAAATAGGTTCAGCAAA
GTGATAAAAGGTACCTTCTATAATCTCAAGAACATCTATGTCATCATTCTTCTTGATGTGATAAA
CTCTTGCAGTAGTTCTGCCTTCACAATTAGATGTAGCCTCAGATGTACCAGGTTTACCTCATTTG
CCACTCTTCCCCTCTAAAGTCCTGATACTGCCT
Found at i:10855149 original size:3 final size:3
Alignment explanation
Indices: 10855143--10855169 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10855133 TTATAAAAAT
10855143 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
10855170 AAATGTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10855151 original size:16 final size:19
Alignment explanation
Indices: 10855116--10855173 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
10855106 ATCAAATACA
10855116 ATAAATAATATTATTTATT
1 ATAAATAATATTATTTATT
10855135 ATAAA-AAT-TTA-TTATT
1 ATAAATAATATTATTTATT
* * *
10855151 ATTATTATTATTA-TTATT
1 ATAAATAATATTATTTATT
10855169 A-AAAT
1 ATAAAT
10855174 GTTGCAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.25
17 7 0.22
18 12 0.38
19 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAAATAATATTATTTATT
Found at i:10868553 original size:20 final size:20
Alignment explanation
Indices: 10868524--10868562 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10868514 AGAGCCCATG
*
10868524 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
10868544 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
10868563 GTGGTAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:10871656 original size:28 final size:28
Alignment explanation
Indices: 10871612--10871667 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10871602 TTGGCTGGAC
10871612 ATACTTTGGACGCTGGGATAAAGGTCCT
1 ATACTTTGGACGCTGGGATAAAGGTCCT
*
10871640 ATACTTTGGACGTTGGGATAAAGGTCCT
1 ATACTTTGGACGCTGGGATAAAGGTCCT
10871668 TAGTTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
ATACTTTGGACGCTGGGATAAAGGTCCT
Found at i:10876771 original size:20 final size:19
Alignment explanation
Indices: 10876746--10876786 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10876736 TGATTTAAGC
* *
10876746 ATTTAAATTTTATTTAATAA
1 ATTTAAATGTAATTTAA-AA
10876766 ATTTAAATGTAATTTAAAA
1 ATTTAAATGTAATTTAAAA
10876785 AT
1 AT
10876787 ATACATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTAAATGTAATTTAAAA
Found at i:10880823 original size:14 final size:13
Alignment explanation
Indices: 10880806--10880847 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
10880796 ATTGAAGTCC
10880806 TTTAATTTTATTAT
1 TTTAATTTTATT-T
10880820 TTTAATTTACTATTT
1 TTTAATTT--TATTT
10880835 TTT-ATTTTATTT
1 TTTAATTTTATTT
10880847 T
1 T
10880848 ATTTTTACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.23
14 12 0.46
15 4 0.15
16 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTAATTTTATTT
Found at i:10880841 original size:20 final size:21
Alignment explanation
Indices: 10880810--10880848 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10880800 AAGTCCTTTA
10880810 ATTTTATTATTTTAATTTACT
1 ATTTTATTATTTTAATTTACT
*
10880831 ATTTT-TTATTTTATTTTA
1 ATTTTATTATTTTAATTTA
10880849 TTTTTACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTATTATTTTAATTTACT
Found at i:10882223 original size:115 final size:115
Alignment explanation
Indices: 10882084--10882314 Score: 462
Period size: 115 Copynumber: 2.0 Consensus size: 115
10882074 GTTATTCCAA
10882084 AGAAAAAGAAAACAAGATTTTCTCTCTAGTTAAGGCTTACACTTATGTGAATATTTAGGACTGTT
1 AGAAAAAGAAAACAAGATTTTCTCTCTAGTTAAGGCTTACACTTATGTGAATATTTAGGACTGTT
10882149 GCATATCATAGGTCTAAACCTGAGCTGAATCCCAGTTTACTTAGGTAGGG
66 GCATATCATAGGTCTAAACCTGAGCTGAATCCCAGTTTACTTAGGTAGGG
10882199 AGAAAAAGAAAACAAGATTTTCTCTCTAGTTAAGGCTTACACTTATGTGAATATTTAGGACTGTT
1 AGAAAAAGAAAACAAGATTTTCTCTCTAGTTAAGGCTTACACTTATGTGAATATTTAGGACTGTT
10882264 GCATATCATAGGTCTAAACCTGAGCTGAATCCCAGTTTACTTAGGTAGGG
66 GCATATCATAGGTCTAAACCTGAGCTGAATCCCAGTTTACTTAGGTAGGG
10882314 A
1 A
10882315 AAACGTCACA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (115 bp):
AGAAAAAGAAAACAAGATTTTCTCTCTAGTTAAGGCTTACACTTATGTGAATATTTAGGACTGTT
GCATATCATAGGTCTAAACCTGAGCTGAATCCCAGTTTACTTAGGTAGGG
Found at i:10882841 original size:16 final size:16
Alignment explanation
Indices: 10882820--10882854 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
10882810 AAAGGTATTA
10882820 ATCCCTGGAATAACTG
1 ATCCCTGGAATAACTG
10882836 ATCCCTGGAATAACTG
1 ATCCCTGGAATAACTG
10882852 ATC
1 ATC
10882855 TTTAGAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (16 bp):
ATCCCTGGAATAACTG
Found at i:10883358 original size:21 final size:21
Alignment explanation
Indices: 10883334--10883374 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10883324 TGTGCATATT
10883334 TACATTAGCAT-ATATACATTG
1 TACATT-GCATGATATACATTG
*
10883355 TACATTGCATGATATTCATT
1 TACATTGCATGATATACATT
10883375 ACATCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
TACATTGCATGATATACATTG
Found at i:10884623 original size:12 final size:13
Alignment explanation
Indices: 10884594--10884631 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
10884584 TTGACAACAA
10884594 AAAAAAAGATATAGC
1 AAAAAAAGA-A-AGC
10884609 AAAAAAAGAAA-C
1 AAAAAAAGAAAGC
10884621 AAAAAAAGAAA
1 AAAAAAAGAAA
10884632 AAAGAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 1 0.04
14 1 0.04
15 9 0.39
ACGTcount: A:0.79, C:0.05, G:0.11, T:0.05
Consensus pattern (13 bp):
AAAAAAAGAAAGC
Found at i:10884647 original size:21 final size:22
Alignment explanation
Indices: 10884621--10884702 Score: 98
Period size: 21 Copynumber: 3.8 Consensus size: 22
10884611 AAAAAGAAAC
10884621 AAAA-AAAGAAAAAAGAGAGAG
1 AAAAGAAAGAAAAAAGAGAGAG
* *
10884642 AGAAA-AAATAAAGAAGAGAGAG
1 A-AAAGAAAGAAAAAAGAGAGAG
*
10884664 AAAAGAAAG-TAAAAGAGAGAG
1 AAAAGAAAGAAAAAAGAGAGAG
10884685 AAAAGAAAGCAAAAAAGA
1 AAAAGAAAG-AAAAAAGA
10884703 AAACAGATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
21 23 0.45
22 22 0.43
23 6 0.12
ACGTcount: A:0.72, C:0.01, G:0.24, T:0.02
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAGAGAGAG
Found at i:10884679 original size:10 final size:9
Alignment explanation
Indices: 10884612--10884705 Score: 54
Period size: 9 Copynumber: 10.4 Consensus size: 9
10884602 ATATAGCAAA
*
10884612 AAAAGAAAC
1 AAAAGAAAG
10884621 AAAA-AAAG
1 AAAAGAAAG
10884629 -AAA-AAAG
1 AAAAGAAAG
*
10884636 AGAGAGAGAA-
1 A-AAAGA-AAG
*
10884646 AAAATAAAG
1 AAAAGAAAG
* *
10884655 AAGAGAGAG
1 AAAAGAAAG
10884664 AAAAGAAAG
1 AAAAGAAAG
10884673 TAAAAGAGAGAG
1 -AAAAGA-A-AG
10884685 AAAAGAAAG
1 AAAAGAAAG
*
10884694 CAAA-AAAG
1 AAAAGAAAG
10884702 AAAA
1 AAAA
10884706 CAGATTAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
7 7 0.11
8 12 0.18
9 27 0.41
10 9 0.14
11 9 0.14
12 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:10887933 original size:99 final size:97
Alignment explanation
Indices: 10887624--10888006 Score: 316
Period size: 99 Copynumber: 3.9 Consensus size: 97
10887614 GCAAAGATAA
* * * * * *
10887624 AAAAATTTCTCACTTAAGATGATTTTTCTTAAAATCTATTTCATCTCACTTGAGACAGTTTCCCT
1 AAAAATTTATCACTTAA-ATGGTTTTTCTTAAAATCAATTTC-TCT-TCTTGAAACAGTTCCCCT
* ** *
10887689 CGAAATGCAAATTTTGAAATTGTTTTACTCGAAAC
63 TGAAACACAAATTTTGAAATTGTTTCACTCGAAAC
* * * * * *
10887724 -AAAATTTATCTCACTTAGGATGGTTTTTCTGAAAATCAACTGTCT-TTCTTAAAACAATTTCCC
1 AAAAATTTA--TCACTTA-AATGGTTTTTCTTAAAATCAA-TTTCTCTTCTTGAAACAGTTCCCC
10887787 TTGAAACACAAATTTTGAAATTGTTTC-CTCGAAGA-
62 TTGAAACACAAATTTTGAAATTGTTTCACTCGAA-AC
* *
10887822 AAAAATTTATCACTTGAAATGGTTTTTCTTAAAATCAATTTCATCTTTTTGAAATAGTTCCCCTT
1 AAAAATTTATCACTT-AAATGGTTTTTCTTAAAATCAATTTC-TCTTCTTGAAACAGTTCCCCTT
* *
10887887 GGAACACAGATTTTGAAATT-TCTTCACTCGAAAC
64 GAAACACAAATTTTGAAATTGT-TTCACTCGAAAC
** * * * * *
10887921 AAAAATTTATCACTTGAGTTGACTTTTTCTTAAAATC-ACTT-T-TGCTTGAGATAGTTCCCCTT
1 AAAAATTTATCACTT-AAATG-GTTTTTCTTAAAATCAATTTCTCTTCTTGAAACAGTTCCCC-T
* *
10887983 TG-AACACAGATTTTGGAATTGTTT
63 TGAAACACAAATTTTGAAATTGTTT
10888007 TACTTGAAGA
Statistics
Matches: 236, Mismatches: 32, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
96 37 0.16
97 32 0.14
98 44 0.19
99 80 0.34
100 15 0.06
101 25 0.11
102 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (97 bp):
AAAAATTTATCACTTAAATGGTTTTTCTTAAAATCAATTTCTCTTCTTGAAACAGTTCCCCTTGA
AACACAAATTTTGAAATTGTTTCACTCGAAAC
Found at i:10888024 original size:96 final size:96
Alignment explanation
Indices: 10887699--10888027 Score: 287
Period size: 96 Copynumber: 3.4 Consensus size: 96
10887689 CGAAATGCAA
* * *
10887699 ATTTTGAAATTGTTTTACTCGAA-ACAAAATTTATCTCACTT-AGGATGGTTTTTCTGAAAATCA
1 ATTTTGAAATTGTTTTACTCGAAGACAAAATTTA--TCACTTGA-AATGCTTTTTCTTAAAATCA
* * * * * * *
10887762 ACTGTCTTTC-TTAAAACAATTTCCCTTGAAACACAA
63 A-T-T-TATCTTTGAAATAGTTCCCCTTGGAACACAG
* * *
10887798 ATTTTGAAATTG-TTTCCTCGAAGAAAAAATTTATCACTTGAAATGGTTTTTCTTAAAATCAATT
1 ATTTTGAAATTGTTTTACTCGAAGACAAAATTTATCACTTGAAATGCTTTTTCTTAAAATCAATT
10887862 TCATCTTTTTGAAATAGTTCCCCTTGGAACACAG
66 T-ATC--TTTGAAATAGTTCCCCTTGGAACACAG
* **
10887896 ATTTTGAAATT-TCTTCACTCGAA-ACAAAAATTTATCACTTGAGTTGACTTTTTCTTAAAATCA
1 ATTTTGAAATTGT-TTTACTCGAAGAC-AAAATTTATCACTTGAAATG-CTTTTTCTTAAAATCA
* * *
10887959 CTTT-TGC-TTGAGATAGTTCCCCTTTGAACACAG
63 ATTTAT-CTTTGAAATAGTTCCCCTTGGAACACAG
* * *
10887992 ATTTTGGAATTGTTTTACTTGAAGACACAATTTATC
1 ATTTTGAAATTGTTTTACTCGAAGACAAAATTTATC
10888028 TCTTCTCGGA
Statistics
Matches: 193, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 52 0.27
97 28 0.15
98 43 0.22
99 48 0.25
100 18 0.09
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (96 bp):
ATTTTGAAATTGTTTTACTCGAAGACAAAATTTATCACTTGAAATGCTTTTTCTTAAAATCAATT
TATCTTTGAAATAGTTCCCCTTGGAACACAG
Found at i:10888555 original size:139 final size:139
Alignment explanation
Indices: 10888305--10889505 Score: 1831
Period size: 139 Copynumber: 8.7 Consensus size: 139
10888295 GGATAAACCA
* *
10888305 ATCAACATTTCCAGTGGATAGTTCATAATGAGAAGAACTCATCCT-ATGAGGGAGAAGAAATTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCAT-CTGATGAGGGAGAAGAAGTTCA
* * * * *
10888369 TAATGAGGAGAACTTGTTCAACATTAGTTCGATTCATCACATATGGAGTTAAATCAGCAACACCT
65 TAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTT
*
10888434 CACTCTAGGG
130 CACTCGAGGG
* * * * *
10888444 ATCAATATTTCCAGTAGAGAGTTCATAATGAGAATAACCCATCTGATGAGGGAGAAGAAGTTTAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
* *
10888509 AATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAGCAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTTC
10888574 ACTCGAGGG
131 ACTCGAGGG
*
10888583 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCAT-TCGATGAGAGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCT-GATGAGGGAGAAGAAGTTCA
* *
10888647 TAATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAGCAACACTT
65 TAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTT
*
10888712 CACTCGAGGA
130 CACTCGAGGG
* * *
10888722 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCAT-TCGATGAGAGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCT-GATGAGGGAGAAGAAGTTCA
* *
10888786 TAATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAGCAACACTT
65 TAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTT
*
10888851 CACTCGAGGA
130 CACTCGAGGG
* * *
10888861 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
* * * * *
10888926 AATG-GAAGAACTTGTTCAACTTTAGCTCGATTCATCATATATGGAGTTGAATCTGTAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTTC
10888990 ACTCGAGGG
131 ACTCGAGGG
* *
10888999 ATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCAT-TCGATGAGAGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCT-GATGAGGGAGAAGAAGTTCA
* * *
10889063 TAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGCAGTTGAATCAACAACACTT
65 TAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTT
*
10889128 CAATCGAGGG
130 CACTCGAGGG
* * *
10889138 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
* * *
10889203 AATG-GAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGTAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTTC
10889267 ACTCGAGGG
131 ACTCGAGGG
* *
10889276 ATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCAT-TCGATGAGAGAGAAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCT-GATGAGGGAGAAGAAGTTCA
* *
10889340 TAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAACAACACTT
65 TAATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTT
*
10889405 CAATCGAGGG
130 CACTCGAGGG
* *
10889415 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
*
10889480 AATGAGAAGAACTTATTCAACCTTAG
66 AATGAGAAGAACTTGTTCAACCTTAG
10889506 CTCGTTTCCA
Statistics
Matches: 974, Mismatches: 79, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
138 252 0.26
139 722 0.74
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGATCGATTCATCACATATGGAGTTGAATCAGCAACACTTC
ACTCGAGGG
Found at i:10889076 original size:277 final size:278
Alignment explanation
Indices: 10888305--10889522 Score: 1974
Period size: 277 Copynumber: 4.4 Consensus size: 278
10888295 GGATAAACCA
* * * *
10888305 ATCAACATTTCCAGTGGATAGTTCATAATGAGAAGAACTCATCCTATGAGGGAGAAGAAATTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * * *
10888370 AATGAGGAGAACTTGTTCAACATTAGTTCGATTCATCACATATGGAGTTAAATCAGCAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGCAACACTTC
* * * * * *
10888435 ACTCTAGGGATCAATATTTCCAGTAGAGAGTTCATAATGAGAATAACCCA-TCTGATGAGGGAGA
131 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTC-GATGAGAGAGA
* * * *
10888499 AGAAGTTTATAATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCA
195 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCA
* *
10888564 GCAACACTTCACTCGAGGG
260 ACAACACTTCAATCGAGGG
* * *
10888583 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGAGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
10888648 AATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAGCAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGCAACACTTC
* * *
10888713 ACTCGAGGAATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCATTCGATGAGAGAGAA
131 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGAGAGAA
* *
10888778 GAAGTTCATAATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAG
196 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAA
* *
10888843 CAACACTTCACTCGAGGA
261 CAACACTTCAATCGAGGG
*
10888861 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * *
10888926 AATG-GAAGAACTTGTTCAACTTTAGCTCGATTCATCATATATGGAGTTGAATCTGTAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGCAACACTTC
*
10888990 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCATTCGATGAGAGAGAA
131 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGAGAGAA
*
10889055 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGCAGTTGAATCAA
196 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAA
10889120 CAACACTTCAATCGAGGG
261 CAACACTTCAATCGAGGG
*
10889138 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
*
10889203 AATG-GAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGTAACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGCAACACTTC
*
10889267 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCATTCGATGAGAGAGAA
131 ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGAGAGAA
10889332 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAA
196 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAA
10889397 CAACACTTCAATCGAGGG
261 CAACACTTCAATCGAGGG
10889415 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* *
10889480 AATGAGAAGAACTTATTCAACCTTAGCTCGTTTCCATCATATA
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATT-CATCATATA
10889523 AGGAATTGGA
Statistics
Matches: 882, Mismatches: 55, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
277 532 0.60
278 339 0.38
279 11 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (278 bp):
ATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGCAACACTTC
ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGATGAGAGAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAA
CAACACTTCAATCGAGGG
Found at i:10889076 original size:416 final size:416
Alignment explanation
Indices: 10888304--10889505 Score: 1931
Period size: 416 Copynumber: 2.9 Consensus size: 416
10888294 AGGATAAACC
* * * *
10888304 AATCAACATTTCCAGTGGATAGTTCATAATGAGAAGAACTCATCCTATGAGGGAGAAGAAATTCA
1 AATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * * *
10888369 TAATGAGGAGAACTTGTTCAACATTAGTTCGATTCATCACATATGGAGTTAAATCAGCAACACCT
66 TAATGAGAAGAACTTGTTCAACCTTAGTT-GATTCATCACATATGGAGTTGAATCAGCAACACTT
* * * * * *
10888434 CACTCTAGGGATCAATATTTCCAGTAGAGAGTTCATAATGAGAATAACCCATCTGATGAGGGAGA
130 CACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGA
* *
10888499 AGAAGTTTATAATGAGAATAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCA
195 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCA
10888564 GCAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGA
260 GCAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGA
* *
10888629 TGAGAGAGAAGAAGTTCATAATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGA
325 TGAGAGAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTAGATTGATTCATCACATATGCA
* *
10888694 GTTGAATCAGCAACACTTCACTCGAGG
390 GTTGAATCAACAACACTTCAATCGAGG
* * *
10888721 AATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCATTCGATGAGAGAGAAGAAGTTCA
1 AATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
*
10888786 TAATGAGAAGAACTTTTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCAGCAACACTT
66 TAATGAGAAGAACTTGTTCAACCTTAG-TTGATTCATCACATATGGAGTTGAATCAGCAACACTT
* * *
10888851 CACTCGAGGAATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAATTCATCCGATGAGGGAGA
130 CACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGA
* * *
10888916 AGAAGTTCATAATG-GAAGAACTTGTTCAACTTTAGCTCGATTCATCATATATGGAGTTGAATCT
195 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCA
* *
10888980 GTAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCATTCGA
260 GCAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGA
*
10889045 TGAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGCA
325 TGAGAGAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTAGATTGATTCATCACATATGCA
10889110 GTTGAATCAACAACACTTCAATCGAGG
390 GTTGAATCAACAACACTTCAATCGAGG
* *
10889137 GATCAACATTTCCAGTGGAGAGTTCATACTGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCA
1 AATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * *
10889202 TAATG-GAAGAACTTGTTCAACCTTAGCTCGATTCATCATATATGGAGTTGAATCAGTAACACTT
66 TAATGAGAAGAACTTGTTCAACCTTAG-TTGATTCATCACATATGGAGTTGAATCAGCAACACTT
* * *
10889266 CACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGATAAGAACTCATTCGATGAGAGAGA
130 CACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGA
* *
10889331 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGATTGATTCATCACATATGGAGTTGAATCA
195 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCA
* * * *
10889396 ACAACACTTCAATCGAGGGATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGA
260 GCAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGA
*
10889461 TGAGGGAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTAG
325 TGAGAGAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTAG
10889506 CTCGTTTCCA
Statistics
Matches: 722, Mismatches: 61, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
415 127 0.18
416 409 0.57
417 184 0.25
418 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (416 bp):
AATCAACATTTCCAGTGGAGAGTTCATACTGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTAGTTGATTCATCACATATGGAGTTGAATCAGCAACACTTC
ACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATGGAGTTGAATCAG
CAACACTTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATTCGAT
GAGAGAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTAGATTGATTCATCACATATGCAG
TTGAATCAACAACACTTCAATCGAGG
Found at i:10890637 original size:21 final size:21
Alignment explanation
Indices: 10890611--10890656 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10890601 ATTTATGGGG
*
10890611 GAGTTTTAGAGA-GAGAGGAGA
1 GAGTTTAAGAGATGAGA-GAGA
*
10890632 GAGTTTAAGTGATGAGAGAGA
1 GAGTTTAAGAGATGAGAGAGA
10890653 GAGT
1 GAGT
10890657 GAAGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (21 bp):
GAGTTTAAGAGATGAGAGAGA
Found at i:10891561 original size:4 final size:4
Alignment explanation
Indices: 10891552--10891582 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10891542 ACCGCTAATT
10891552 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
10891583 TATGTTCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:10894970 original size:23 final size:23
Alignment explanation
Indices: 10894944--10894995 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
10894934 AATATATATA
*
10894944 TTTAAATTAGTTGTATCATATTT
1 TTTAAATTAATTGTATCATATTT
*
10894967 TTTAAATTAATTGTATGATATTT
1 TTTAAATTAATTGTATCATATTT
*
10894990 TCTAAA
1 TTTAAA
10894996 AGAAATCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (23 bp):
TTTAAATTAATTGTATCATATTT
Found at i:10902658 original size:233 final size:233
Alignment explanation
Indices: 10902251--10902724 Score: 939
Period size: 233 Copynumber: 2.0 Consensus size: 233
10902241 TCAACTGTAT
10902251 ATAATTTTTTTTTGAAAACTTCTTCACGACTGGCGCAACGTATTCGGGAAAACTAAAGGGCACGG
1 ATAATTTTTTTTTGAAAACTTCTTCACGACTGGCGCAACGTATTCGGGAAAACTAAAGGGCACGG
10902316 TTAAAGAAAATTCCCCCTCGTTGAATGACAAATTCTGAGACCAACGAAGCTTAATTCCAATATTA
66 TTAAAGAAAATTCCCCCTCGTTGAATGACAAATTCTGAGACCAACGAAGCTTAATTCCAATATTA
10902381 GTACCTCCAACCTGGAAATACAAAACAAAACCATTCATTGGCAACAATGGACTTAAATTACATCA
131 GTACCTCCAACCTGGAAATACAAAACAAAACCATTCATTGGCAACAATGGACTTAAATTACATCA
10902446 ATTAAAAGCATTCATTGGCAACAATGGACTTCAACAAC
196 ATTAAAAGCATTCATTGGCAACAATGGACTTCAACAAC
10902484 ATAATTTTTTTTTGAAAACTTCTTCACGACTGGCGCAACGTATTCGGGAAAACTAAAGGGCACGG
1 ATAATTTTTTTTTGAAAACTTCTTCACGACTGGCGCAACGTATTCGGGAAAACTAAAGGGCACGG
10902549 TTAAAGAAAATTCCCCCTCGTTGAATGACAAATTCTGAGACCAACGAAGCTTAATTCCAATATTA
66 TTAAAGAAAATTCCCCCTCGTTGAATGACAAATTCTGAGACCAACGAAGCTTAATTCCAATATTA
10902614 GTACCTCCAACCTGGAAATACAAAACAAAACCATTCATTGGCAACAATGGACTTAAATTACATCA
131 GTACCTCCAACCTGGAAATACAAAACAAAACCATTCATTGGCAACAATGGACTTAAATTACATCA
10902679 ATTAAAAGCATTCATTGGCAACAATGGACTTCAACAAC
196 ATTAAAAGCATTCATTGGCAACAATGGACTTCAACAAC
10902717 ATCAATTT
1 AT-AATTT
10902725 AAAGCATTCA
Statistics
Matches: 240, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
233 235 0.98
234 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (233 bp):
ATAATTTTTTTTTGAAAACTTCTTCACGACTGGCGCAACGTATTCGGGAAAACTAAAGGGCACGG
TTAAAGAAAATTCCCCCTCGTTGAATGACAAATTCTGAGACCAACGAAGCTTAATTCCAATATTA
GTACCTCCAACCTGGAAATACAAAACAAAACCATTCATTGGCAACAATGGACTTAAATTACATCA
ATTAAAAGCATTCATTGGCAACAATGGACTTCAACAAC
Found at i:10902704 original size:42 final size:42
Alignment explanation
Indices: 10902645--10902857 Score: 302
Period size: 42 Copynumber: 5.1 Consensus size: 42
10902635 AAAACAAAAC
* *
10902645 CATTCATTGGCAACAATGGACTTAAATTACATCAATTAAAAG
1 CATTCATTGGCAACAATGGACTTAAACTACATCAATTTAAAG
* *
10902687 CATTCATTGGCAACAATGGACTTCAACAACATCAATTTAAAG
1 CATTCATTGGCAACAATGGACTTAAACTACATCAATTTAAAG
** * * *
10902729 CATTCATTCACAACATTGGACTTAAACTACTTCGATTTAAAG
1 CATTCATTGGCAACAATGGACTTAAACTACATCAATTTAAAG
* **
10902771 CATTCATTGGCAGCAATGGACTTAAACTACATCGGTTTAAAG
1 CATTCATTGGCAACAATGGACTTAAACTACATCAATTTAAAG
10902813 CATTCATTGGCAACAATGGACTTAAACTACA-CAGATTTAAAG
1 CATTCATTGGCAACAATGGACTTAAACTACATCA-ATTTAAAG
10902855 CAT
1 CAT
10902858 CATAACTTCG
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 1 0.01
42 149 0.99
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (42 bp):
CATTCATTGGCAACAATGGACTTAAACTACATCAATTTAAAG
Found at i:10909884 original size:55 final size:55
Alignment explanation
Indices: 10909816--10910141 Score: 481
Period size: 55 Copynumber: 5.9 Consensus size: 55
10909806 TTCTTTGAGG
** * * *
10909816 TGCACACACAGTGCCGATACAGTCATTCGTAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* * *
10909871 TTCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCGTGGGTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* *
10909926 TGCACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAATTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* * * *
10909981 TGCAAACTTAGTGCCGATACGGTTGTTCATAAGCATATTATGAATTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
10910036 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
* ** * *
10910091 TACACACTTAGTATCGATACGGTAGTTCATAAACATATTATGAATTTCGTG
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTG
10910142 CCGATAGTAC
Statistics
Matches: 245, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 245 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCCGTGGTTT
Found at i:10910843 original size:24 final size:24
Alignment explanation
Indices: 10910814--10910863 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
10910804 CTAAAATCTA
* *
10910814 CAAAGAATATCTCAAACCAAGAAT
1 CAAAGAACATATCAAACCAAGAAT
10910838 CAAAGAACATATCAAACCAAGAAT
1 CAAAGAACATATCAAACCAAGAAT
10910862 CA
1 CA
10910864 TACTACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.22, G:0.08, T:0.14
Consensus pattern (24 bp):
CAAAGAACATATCAAACCAAGAAT
Found at i:10912710 original size:3 final size:3
Alignment explanation
Indices: 10912702--10912782 Score: 87
Period size: 3 Copynumber: 27.3 Consensus size: 3
10912692 ACAGTTTTTA
* * *
10912702 ATT ATT ATT -TT ATT ATT TTT ATT TTT ATT A-C ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
10912746 ATT TTT ATT A-T ATT ATT ATT ATT ATT ATT AATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT A
10912783 CAAGCCCGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.08
3 54 0.83
4 6 0.09
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:10912779 original size:24 final size:23
Alignment explanation
Indices: 10912703--10912780 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
10912693 CAGTTTTTAA
* *
10912703 TTATTATTTTATTATTTTTATTT
1 TTATTATATTATTATTATTATTT
*
10912726 TTATTACATTATTATTATTTATTT
1 TTATTATATTATTATTA-TTATTT
10912750 TTATTATATTATTATTATTATTAT
1 TTATTATATTATTATTATTATT-T
*
10912774 TAATTAT
1 TTATTAT
10912781 TACAAGCCCG
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 19 0.40
24 29 0.60
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (23 bp):
TTATTATATTATTATTATTATTT
Found at i:10913893 original size:21 final size:20
Alignment explanation
Indices: 10913869--10913913 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
10913859 ATTTAAGGCC
10913869 TTTAAT-TTATATATTTTACAT
1 TTTAATCTTAT-TATTTTA-AT
10913890 TTTAATCTTATTATTTTAAT
1 TTTAATCTTATTATTTTAAT
10913910 TTTA
1 TTTA
10913914 TTTGTTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATCTTATTATTTTAAT
Found at i:10914069 original size:23 final size:21
Alignment explanation
Indices: 10914033--10914077 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
10914023 TAGTCATATA
10914033 AATATATATATATTTGATTAAAT
1 AATATATATATATTT--TTAAAT
* *
10914056 AATATTTATTTATTTTTAAAT
1 AATATATATATATTTTTAAAT
10914077 A
1 A
10914078 TTAAGAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
AATATATATATATTTTTAAAT
Found at i:10914226 original size:18 final size:17
Alignment explanation
Indices: 10914193--10914230 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10914183 TTTATTCAAA
10914193 TTATTTTTTATTAATAT
1 TTATTTTTTATTAATAT
*
10914210 TTATTTATTTTTTAATAT
1 TTATTT-TTTATTAATAT
10914228 TTA
1 TTA
10914231 AGAAAGGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTTATTAATAT
Found at i:10914370 original size:151 final size:147
Alignment explanation
Indices: 10914062--10914342 Score: 323
Period size: 151 Copynumber: 1.9 Consensus size: 147
10914052 AAATAATATT
* *
10914062 TATTTATTTTTAAATATTAAGAAAGGGTTGTCTTAAATTAACTAGAGGTCATATTCCGATATTTT
1 TATTTATTTTTAAATATTAAGAAAGGGATGTCTTAAAGTAACTAGAGGTCATATTCCGATATTTT
* * ***
10914127 TAAATAAATAAATACCTTACTTATAAAAACAAAAATATATATATAGTTTTTTTAGTTTTATTCAA
66 TAAATAAATAAATACCCTACTTATAAAAACAAAAATATATATATAGTTTTTATAAAATTATTCAA
* *
10914192 ATTATTTTTTATTAATA
131 ATTATTTTCTATTAAGA
* * * * *
10914209 TTTATTTATTTTTTAATATTTAAGAAAGGGGATGTCTTAAAGTAACTAGATGT-TTGTTTCTGAT
1 --TATTTATTTTTAAATA-TTAAGAAA-GGGATGTCTTAAAGTAACTAGAGGTCAT-ATTCCGAT
* *
10914273 ATTTTTAAATAAATAAATACCCTATTTA-AAAAACCCTAAATATATATATAGTAGTTTTTATAAA
61 ATTTTTAAATAAATAAATACCCTACTTATAAAAA--C-AAAAATATATATA-TAGTTTTTATAAA
10914337 ATTATT
122 ATTATT
10914343 TTAATATATC
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
149 15 0.14
150 14 0.13
151 54 0.49
152 1 0.01
153 12 0.11
154 15 0.14
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (147 bp):
TATTTATTTTTAAATATTAAGAAAGGGATGTCTTAAAGTAACTAGAGGTCATATTCCGATATTTT
TAAATAAATAAATACCCTACTTATAAAAACAAAAATATATATATAGTTTTTATAAAATTATTCAA
ATTATTTTCTATTAAGA
Found at i:10919554 original size:8 final size:8
Alignment explanation
Indices: 10919541--10919633 Score: 90
Period size: 8 Copynumber: 11.9 Consensus size: 8
10919531 CCATCAGAGA
10919541 AGAAAAAG
1 AGAAAAAG
10919549 AGAAAAA-
1 AGAAAAAG
*
10919556 AGAGAAACG
1 AGA-AAAAG
10919565 A-AAAAAG
1 AGAAAAAG
*
10919572 AAAAGAAAG
1 AGAA-AAAG
10919581 -GAAAAA-
1 AGAAAAAG
10919587 AGAAAAAG
1 AGAAAAAG
10919595 AG--AAAG
1 AGAAAAAG
10919601 AGAAAAAG
1 AGAAAAAG
10919609 AGAAAAAAG
1 AG-AAAAAG
10919618 AGAAAAAAG
1 AG-AAAAAG
10919627 AGAAAAA
1 AGAAAAA
10919634 AATGAATCAA
Statistics
Matches: 73, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
6 6 0.08
7 17 0.23
8 28 0.38
9 22 0.30
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:10919557 original size:9 final size:9
Alignment explanation
Indices: 10919543--10919634 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
10919533 ATCAGAGAAG
10919543 AAAAAGAGA
1 AAAAAGAGA
10919552 AAAAAGAG-
1 AAAAAGAGA
*
10919560 --AAA-CGA
1 AAAAAGAGA
10919566 AAAAAGA-A
1 AAAAAGAGA
10919574 AAGAAAG-GA
1 AA-AAAGAGA
10919583 AAAAAGA-A
1 AAAAAGAGA
*
10919591 AAAGAGAAAGA
1 AAA-A-AGAGA
10919602 GAAAAAGAGA
1 -AAAAAGAGA
10919612 AAAAAGAGA
1 AAAAAGAGA
10919621 AAAAAGAGA
1 AAAAAGAGA
10919630 AAAAA
1 AAAAA
10919635 ATGAATCAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
8 14 0.21
9 39 0.57
10 6 0.09
11 2 0.03
12 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:10919569 original size:14 final size:13
Alignment explanation
Indices: 10919549--10919613 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 13
10919539 GAAGAAAAAG
10919549 AGAAAAAAGAGAA
1 AGAAAAAAGAGAA
10919562 ACGAAAAAAGA-AA
1 A-GAAAAAAGAGAA
*
10919575 AGAAAGGAA-A-AA
1 AGAAA-AAAGAGAA
10919587 AG-AAAAAGAGAA
1 AGAAAAAAGAGAA
10919599 AGAGAAAAAGAGAA
1 AGA-AAAAAGAGAA
10919613 A
1 A
10919614 AAAGAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
10 2 0.05
11 3 0.07
12 13 0.30
13 6 0.14
14 20 0.45
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAGAA
Found at i:10919573 original size:12 final size:11
Alignment explanation
Indices: 10919543--10919627 Score: 56
Period size: 12 Copynumber: 7.6 Consensus size: 11
10919533 ATCAGAGAAG
10919543 AAAAAGAGAA-A
1 AAAAAGA-AAGA
*
10919554 AAAGAGAAACGA
1 AAAAAGAAA-GA
10919566 AAAAAGAAAAGA
1 AAAAAG-AAAGA
10919578 AAGGAAA-AAAGA
1 AA--AAAGAAAGA
10919590 AAAAGAGAAAGA
1 AAAA-AGAAAGA
10919602 GAAAAAG--AGA
1 -AAAAAGAAAGA
10919612 AAAAAG--AGA
1 AAAAAGAAAGA
10919621 AAAAAGA
1 AAAAAGA
10919628 GAAAAAAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
9 15 0.24
10 7 0.11
11 7 0.11
12 24 0.38
13 7 0.11
14 3 0.05
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:10919614 original size:46 final size:47
Alignment explanation
Indices: 10919540--10919634 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 47
10919530 TCCATCAGAG
* *
10919540 AAGAAAAAGAGAAAAAAGAGAAACGAAAAAAGA-AAAGAAAG-GAAAA
1 AAGAAAAAGAGAAAAAAGAAAAAAGAAAAAAGAGAAA-AAAGAGAAAA
*
10919586 AAGAAAAAGAG-AAAGAGAAAAAGAGAAAAAAGAGAAAAAAGAGAAAA
1 AAGAAAAAGAGAAAAAAGAAAAA-AGAAAAAAGAGAAAAAAGAGAAAA
10919633 AA
1 AA
10919635 ATGAATCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 9 0.21
46 24 0.56
47 10 0.23
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (47 bp):
AAGAAAAAGAGAAAAAAGAAAAAAGAAAAAAGAGAAAAAAGAGAAAA
Found at i:10919645 original size:18 final size:18
Alignment explanation
Indices: 10919543--10919634 Score: 81
Period size: 17 Copynumber: 5.3 Consensus size: 18
10919533 ATCAGAGAAG
10919543 AAAAAGAGAAAAAAGAG-
1 AAAAAGAGAAAAAAGAGA
*
10919560 --AAA-CGAAAAAAGA-A
1 AAAAAGAGAAAAAAGAGA
10919574 AAGAAAG-GAAAAAAGA-A
1 AA-AAAGAGAAAAAAGAGA
*
10919591 AAAGAGAAAGAGAAAAAGAGA
1 AAA-A-AGAGA-AAAAAGAGA
10919612 AAAAAGAGAAAAAAGAGA
1 AAAAAGAGAAAAAAGAGA
10919630 AAAAA
1 AAAAA
10919635 ATGAATCAAG
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
14 9 0.15
15 3 0.05
16 1 0.02
17 16 0.26
18 15 0.24
19 6 0.10
20 8 0.13
21 4 0.06
ACGTcount: A:0.77, C:0.01, G:0.22, T:0.00
Consensus pattern (18 bp):
AAAAAGAGAAAAAAGAGA
Found at i:10921345 original size:54 final size:54
Alignment explanation
Indices: 10921259--10921371 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
10921249 TTCACTGATT
*
10921259 GAACATCTGGGCAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
1 GAACATCTGGACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
* * * * * *
10921313 GAACATCTGTACATAAGCCACAGGAAATGATGAATGTGTTGTTAAATGTTTTAT
1 GAACATCTGGACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
10921367 GAACA
1 GAACA
10921372 AGTGATTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (54 bp):
GAACATCTGGACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATATTTTAC
Found at i:10921757 original size:22 final size:23
Alignment explanation
Indices: 10921731--10921777 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
10921721 ATCTAAATTC
*
10921731 TTCAAAGATG-ATAGATTTTCTT
1 TTCAAAGATGAATAGATTCTCTT
10921753 TTCAAAGATGAATAGATTCTCTT
1 TTCAAAGATGAATAGATTCTCTT
10921776 TT
1 TT
10921778 TCTAAAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (23 bp):
TTCAAAGATGAATAGATTCTCTT
Found at i:10922859 original size:42 final size:42
Alignment explanation
Indices: 10922807--10922892 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
10922797 GTTTCTTAAT
* **
10922807 TTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATG
1 TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATG
*
10922849 TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATG
1 TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATG
10922891 TT
1 TT
10922893 TTCAAATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATG
Found at i:10922923 original size:129 final size:129
Alignment explanation
Indices: 10922520--10922922 Score: 673
Period size: 129 Copynumber: 3.1 Consensus size: 129
10922510 TTGACAACTA
* *
10922520 AGAAACTAAGCCTTCGAGAGTTTCTTAATTTAAATCCTTTGGGTCATCTATAAGACCTTCAGTGC
1 AGAAACTAAGCCTTCGAGAGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGC
10922585 AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTT
66 AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTT
* * * *
10922649 AGAAACTAAGCCTTCAAGCGTTTCTTAATTTAAATCCTTCGTGTCATCTGTAAGACATTCAGTGC
1 AGAAACTAAGCCTTCGAGAGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGC
* *
10922714 AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCATGATGTTTCCAAATGAGATTT
66 AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTT
* *
10922778 AGAAACTAAACCTTCGGGAGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGC
1 AGAAACTAAGCCTTCGAGAGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGC
* *
10922843 AAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA-ATTTT
66 AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGA-TTT
*
10922907 AGAAACCAAGCCTTCG
1 AGAAACTAAGCCTTCG
10922923 GCGGTTTACT
Statistics
Matches: 253, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
128 1 0.00
129 252 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (129 bp):
AGAAACTAAGCCTTCGAGAGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGC
AAGATGTTAAAGTCTTTGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTT
Found at i:10923270 original size:3 final size:3
Alignment explanation
Indices: 10923262--10923359 Score: 96
Period size: 3 Copynumber: 33.3 Consensus size: 3
10923252 ACAGTTTTTA
* * * * *
10923262 ATT ATT ATT -TT ATT ATT TTT TTT ATT A-C ATT ATT ATT TTT ATT A-C
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10923307 ATT ATT ATT ATTT ATT TTT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10923352 AATT ATT A
1 -ATT ATT A
10923360 CAAGCCCAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
2 6 0.08
3 67 0.85
4 6 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10923286 original size:20 final size:20
Alignment explanation
Indices: 10923256--10923352 Score: 97
Period size: 20 Copynumber: 4.6 Consensus size: 20
10923246 TTTGTCACAG
10923256 TTTTTAATTATTATTTTATTA
1 TTTTT-ATTATTATTTTATTA
* **
10923277 TTTTTTTTATTACATTATTA
1 TTTTTATTATTATTTTATTA
10923297 TTTTTATTACATTATTATTATTTA
1 TTTTTATT--ATTATT-TTA-TTA
10923321 TTTTTATTA-TATTATTATTA
1 TTTTTATTATTATT-TTATTA
*
10923341 TTATTATTATTA
1 TTTTTATTATTA
10923353 ATTATTACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
20 30 0.47
21 15 0.23
22 5 0.08
23 3 0.05
24 11 0.17
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTATTATTATTTTATTA
Found at i:10923344 original size:17 final size:17
Alignment explanation
Indices: 10923262--10923359 Score: 91
Period size: 17 Copynumber: 6.1 Consensus size: 17
10923252 ACAGTTTTTA
*
10923262 ATTATTATTTTATTATT
1 ATTATTATTATATTATT
* * *
10923279 TTTTTTATTACATTATT
1 ATTATTATTATATTATT
* *
10923296 ATTTTTATTACATTATT
1 ATTATTATTATATTATT
10923313 ATTA-T-TTAT-TT-TT
1 ATTATTATTATATTATT
10923326 ATTA-TATTATTATTATT
1 ATTATTATTA-TATTATT
10923343 ATTATTATTA-ATTATT
1 ATTATTATTATATTATT
10923359 A
1 A
10923360 CAAGCCCAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
13 7 0.10
14 5 0.07
15 4 0.06
16 10 0.14
17 38 0.55
18 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTATTATTATATTATT
Found at i:10923845 original size:96 final size:98
Alignment explanation
Indices: 10923680--10923874 Score: 376
Period size: 96 Copynumber: 2.0 Consensus size: 98
10923670 GCCACCACCG
10923680 AACCCGCAAAAAAAGAAAGGAGAGGAAGAAGATACGAACACTAACAGAGCAAGAACAACAACCAA
1 AACCCGCAAAAAAAGAAAGGAGAGGAAGAAGATACGAACACTAACAGAGCAAGAACAACAACCAA
10923745 CAAGAGC-ACCATCGATAGCAAACAGAAAGGAA
66 CAAGAGCAACCATCGATAGCAAACAGAAAGGAA
10923777 AACCCGC-AAAAAAGAAAGGAGAGGAAGAAGATACGAACACTAACAGAGCAAGAACAACAACCAA
1 AACCCGCAAAAAAAGAAAGGAGAGGAAGAAGATACGAACACTAACAGAGCAAGAACAACAACCAA
10923841 CAAGAGCAACCATCGATAGCAAACAGAAAGGAA
66 CAAGAGCAACCATCGATAGCAAACAGAAAGGAA
10923874 A
1 A
10923875 GAGAGCAAGA
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 64 0.66
97 33 0.34
ACGTcount: A:0.55, C:0.21, G:0.21, T:0.04
Consensus pattern (98 bp):
AACCCGCAAAAAAAGAAAGGAGAGGAAGAAGATACGAACACTAACAGAGCAAGAACAACAACCAA
CAAGAGCAACCATCGATAGCAAACAGAAAGGAA
Found at i:10924482 original size:21 final size:20
Alignment explanation
Indices: 10924458--10924502 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
10924448 AATTAAGGAC
10924458 TTTAAT-TTATATATTTTACAT
1 TTTAATCTTAT-TATTTTA-AT
10924479 TTTAATCTTATTATTTTAAT
1 TTTAATCTTATTATTTTAAT
10924499 TTTA
1 TTTA
10924503 TTTGTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATCTTATTATTTTAAT
Found at i:10926357 original size:10 final size:10
Alignment explanation
Indices: 10926342--10926367 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10926332 TGGAGGACTA
10926342 AATTTATTTT
1 AATTTATTTT
10926352 AATTTATTTT
1 AATTTATTTT
10926362 AATTTA
1 AATTTA
10926368 ATAGATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
AATTTATTTT
Found at i:10926699 original size:37 final size:36
Alignment explanation
Indices: 10926658--10926922 Score: 264
Period size: 37 Copynumber: 7.1 Consensus size: 36
10926648 GGACTAGATG
*
10926658 TATAGTTTTAAAAACATTTTTGAAAACATATATAATA
1 TATAGTTTTGAAAACATTTTTGAAAA-ATATATAATA
* *
10926695 TATAGTTTGGAAAACATTTTTTAAAATATATATAATA
1 TATAGTTTTGAAAACATTTTTGAAAA-ATATATAATA
* * * *
10926732 TGTAATTTTGAATACATTTTTAAAAAATATGTATAATA
1 TATAGTTTTGAAAACATTTTTGAAAAATA--TATAATA
*
10926770 TATAGTTTTGAAAATATTTTTCG-AAAATATATAATA
1 TATAGTTTTGAAAACATTTTT-GAAAAATATATAATA
*
10926806 TATAGTTTT-AAAACGTTTTTGAAAAATACATATAATA
1 TATAGTTTTGAAAACATTTTTGAAAAAT--ATATAATA
* * *
10926843 TATAGTTTAGAAAAAATGTTTGAAAATATATATAATA
1 TATAGTTTTGAAAACATTTTTGAAAA-ATATATAATA
* * * **
10926880 TATATTTTTTGAAAACGGTTTTCGAAGTATATATATATA
1 TATA-GTTTTGAAAAC-ATTTTTGAAAAATATATA-ATA
10926919 TATA
1 TATA
10926923 TATATATATA
Statistics
Matches: 189, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
34 1 0.01
35 14 0.07
36 19 0.10
37 82 0.43
38 58 0.31
39 15 0.08
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (36 bp):
TATAGTTTTGAAAACATTTTTGAAAAATATATAATA
Found at i:10926832 original size:111 final size:110
Alignment explanation
Indices: 10926658--10926922 Score: 291
Period size: 111 Copynumber: 2.4 Consensus size: 110
10926648 GGACTAGATG
* *
10926658 TATAGTTTTAAAAACATTTTT-GAAAACATATATAATATATAGTTTGGAAAACATTTTTTAAAAT
1 TATAGTTTTGAAAACATTTTTCG-AAA-ATATATAATATATAGTTTGGAAAACATTTTTAAAAAT
* * * * * * *
10926722 ATATATAATATGTAATTTTGAATACATTTTTAAAAAATATGTATAATA
64 ACATATAATATATAATTTAGAAAAAATGTTT-AAAAATATATATAATA
* * *
10926770 TATAGTTTTGAAAATATTTTTCGAAAATATATAATATATAGTTT-TAAAACGTTTTTGAAAAATA
1 TATAGTTTTGAAAACATTTTTCGAAAATATATAATATATAGTTTGGAAAACATTTTT-AAAAATA
* *
10926834 CATATAATATATAGTTTAGAAAAAATGTTTGAAAATATATATAATA
65 CATATAATATATAATTTAGAAAAAATGTTTAAAAATATATATAATA
* ** *
10926880 TATATTTTTTGAAAACGGTTTTCGAAGTATATATATATATATA
1 TATA-GTTTTGAAAACATTTTTCGAA-AATATATA-ATATATA
10926923 TATATATATA
Statistics
Matches: 129, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
110 28 0.22
111 64 0.50
112 29 0.22
113 8 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (110 bp):
TATAGTTTTGAAAACATTTTTCGAAAATATATAATATATAGTTTGGAAAACATTTTTAAAAATAC
ATATAATATATAATTTAGAAAAAATGTTTAAAAATATATATAATA
Found at i:10926914 original size:2 final size:2
Alignment explanation
Indices: 10926907--10926957 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
10926897 GTTTTCGAAG
10926907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10926949 TA TA GTA TA
1 TA TA -TA TA
10926958 CTTATTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10929465 original size:15 final size:15
Alignment explanation
Indices: 10929434--10929470 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
10929424 TTAATATGAA
10929434 TATTATA-ATAATAT
1 TATTATATATAATAT
*
10929448 TATTATATATATTAT
1 TATTATATATAATAT
10929463 TATTATAT
1 TATTATAT
10929471 TACAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATATATAATAT
Found at i:10937097 original size:74 final size:74
Alignment explanation
Indices: 10937008--10937155 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
10936998 ACTATAGTGC
10937008 GGAGACAACCAACCCATGCCCAGTATGATCTTAAACTCATTAAATGAGAATTCTATTAGATTCAC
1 GGAGACAACCAACCCATGCCCAGTATGATCTTAAACTCATTAAATGAGAATTCTATTAGATTCAC
10937073 CGGGAACAT
66 CGGGAACAT
10937082 GGAGACAACCAACCCATGCCCAGTATGATCTTAAACTCATTAAATGAGAATTCTATTAGATTCAC
1 GGAGACAACCAACCCATGCCCAGTATGATCTTAAACTCATTAAATGAGAATTCTATTAGATTCAC
10937147 CGGGAACAT
66 CGGGAACAT
10937156 AGCCGCTTGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.24
Consensus pattern (74 bp):
GGAGACAACCAACCCATGCCCAGTATGATCTTAAACTCATTAAATGAGAATTCTATTAGATTCAC
CGGGAACAT
Found at i:10941197 original size:21 final size:20
Alignment explanation
Indices: 10941158--10941197 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10941148 GAATGGTCGG
*
10941158 ATTTGTCCATTTAATTACCC
1 ATTTGTCCATTTAACTACCC
*
10941178 ATTTAGTCCATTTAGCTACC
1 ATTT-GTCCATTTAACTACC
10941198 TTGTTATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTTGTCCATTTAACTACCC
Found at i:10943708 original size:20 final size:20
Alignment explanation
Indices: 10943678--10943722 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
10943668 TTTCAGAATC
10943678 AATTT-AAAATAAAAACTAT
1 AATTTAAAAATAAAAACTAT
* * *
10943697 AATTTAAAAATATATATTAT
1 AATTTAAAAATAAAAACTAT
10943717 AATTTA
1 AATTTA
10943723 TGAATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTTAAAAATAAAAACTAT
Found at i:10945084 original size:81 final size:81
Alignment explanation
Indices: 10944901--10945556 Score: 911
Period size: 81 Copynumber: 8.1 Consensus size: 81
10944891 AAGCATGGAG
* * * * * * *
10944901 TCTTTAACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATCATTAACACCTTT-TTTCCAAAAT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT-C-AAAT
* * *
10944965 GCACAGCTAAGCATTTAA
64 GCACAACTAGGCAATTAA
* * *
10944983 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
10945048 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* *
10945064 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGATACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
**
10945129 ACAACTAGATAATTAA
66 ACAACTAGGCAATTAA
* *
10945145 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGAGACCTTTCTGTCAAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AAATG
* * *
10945210 CATAGCTAGGCATTTAA
65 CACAACTAGGCAATTAA
* * *
10945227 TCTTTAACTCGAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10945292 ACACCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
10945308 TATTTTATTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATCGACACCTTTCTCTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10945373 ACATCTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * *
10945389 TCTTTTACTCAAAGGCATTTAACCTTTCATCTTACTGGCATAATTGACACCTTTCTATGAAATGA
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
10945454 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * *
10945470 TTTTTTACTCAAAGGCATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10945535 ACACCTAGGC-ATTAA
66 ACAACTAGGCAATTAA
*
10945550 TATTTTA
1 TCTTTTA
10945557 TTTAAAACAA
Statistics
Matches: 517, Mismatches: 55, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
80 11 0.02
81 383 0.74
82 121 0.23
83 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:10945308 original size:244 final size:243
Alignment explanation
Indices: 10944901--10945556 Score: 976
Period size: 244 Copynumber: 2.7 Consensus size: 243
10944891 AAGCATGGAG
* * * * * *
10944901 TCTTTAACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATCATTAACACCTTT-TTTCCAAAAT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC-TGCATAATTGACACCTTTCTAT-CAAAAT
*
10944965 GCACAGCTAAGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGA
64 GCACAGCTAGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGA
* *
10945030 CACCTTTCTGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATC
129 CACCTTTCTGTCAAATGCACACCTAGGCAATTAATATTTTACTCAAAGGCATTTAACCTTTCATC
* * * *
10945095 TAACTAGCATAATTGATACCTTTCTGTCAAATGCACAACTAGATAATTAA
194 TAACTAGCATAATCGACACCTTTCTCTCAAATGCACAACTAGACAATTAA
* *
10945145 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGACATAATTGAGACCTTTCTGTCAAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTG-CATAATTGACACCTTTCTATCAAAATG
* * *
10945210 CATAGCTAGGCATTTAATCTTTAACTCGAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGAC
65 CACAGCTAGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGAC
*
10945275 ACCTTTCTGTCAAATGCACACCTAGGCAATTAATATTTTATTCAAAGGCATTTAACCTTTCATCT
130 ACCTTTCTGTCAAATGCACACCTAGGCAATTAATATTTTACTCAAAGGCATTTAACCTTTCATCT
* * *
10945340 AACTGGCATAATCGACACCTTTCTCTCAAATGCACATCTAGGCAATTAA
195 AACTAGCATAATCGACACCTTTCTCTCAAATGCACAACTAGACAATTAA
* *
10945389 TCTTTTACTCAAAGGCATTTAACCTTTCATCTTACTGGCATAATTGACACCTTTCTAT-GAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACT-GCATAATTGACACCTTTCTATCAAAATG
* * * * * *
10945453 AACAACTAGGCAATTAATTTTTTACTCAAAGGCATTTAACCTTTCATCTAATTGGCATAATTGAC
65 CACAGCTAGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGAC
*
10945518 ACCTTTCTATCAAATGCACACCTAGGC-ATTAATATTTTA
130 ACCTTTCTGTCAAATGCACACCTAGGCAATTAATATTTTA
10945557 TTTAAAACAA
Statistics
Matches: 374, Mismatches: 35, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
242 12 0.03
243 89 0.24
244 270 0.72
245 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (243 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTATCAAAATGC
ACAGCTAGGCATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAATTGGCATAATTGACA
CCTTTCTGTCAAATGCACACCTAGGCAATTAATATTTTACTCAAAGGCATTTAACCTTTCATCTA
ACTAGCATAATCGACACCTTTCTCTCAAATGCACAACTAGACAATTAA
Found at i:10946974 original size:19 final size:21
Alignment explanation
Indices: 10946946--10946985 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
10946936 ATGGAAACTG
*
10946946 CTTTCTCATGT-T-TTCTTCT
1 CTTTCCCATGTATCTTCTTCT
10946965 CTTTCCCATGTATCTTCTTCT
1 CTTTCCCATGTATCTTCTTCT
10946986 ACCTTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.07, C:0.30, G:0.05, T:0.57
Consensus pattern (21 bp):
CTTTCCCATGTATCTTCTTCT
Found at i:10951850 original size:16 final size:15
Alignment explanation
Indices: 10951816--10951853 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
10951806 CCCCACATGT
*
10951816 TAAAAAATGAATTGA
1 TAAAAAATGAAATGA
10951831 -AAAAAATGAAAATGA
1 TAAAAAATG-AAATGA
10951846 TAAAAAAT
1 TAAAAAAT
10951854 TATGAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (15 bp):
TAAAAAATGAAATGA
Found at i:10956542 original size:45 final size:45
Alignment explanation
Indices: 10956493--10956896 Score: 440
Period size: 45 Copynumber: 9.0 Consensus size: 45
10956483 CTTAATACTT
* * *
10956493 ATAATGCA-CCATTATGCATTTTCATTTATGGCAT-TTTTAATGCCA
1 ATAATGCACCCA-TATGCA-TTTCATTTATGGCATCCTTTCATGCCG
* *
10956538 ATAATGCACCTATATGCATTTC-TATTATGGCATCCTTTCATGACG
1 ATAATGCACCCATATGCATTTCAT-TTATGGCATCCTTTCATGCCG
* *
10956583 ATAATGCACCCATATGTATTTCAATTATGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
*
10956628 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
10956673 ATAATGCACCCATATGCATTTCAATTATAGCATCTTTTCATGCCG
1 ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
* * *
10956718 ATAATGCACCCATATGGATTTCATTTCTAGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * *
10956763 ATAATACGCCCATATGAATTTCATTTATGGCATCCTTTCATGCCT
1 ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * * * * * *
10956808 TTTATACA-CTATTATACATTTCATGTATGGCATTCTTTCATGCCT
1 ATAATGCACCCA-TATGCATTTCATTTATGGCATCCTTTCATGCCG
* * * * * *
10956853 TTTATACA-CTATTATACATTTCATTTATGGTATCCTTTCATGCC
1 ATAATGCACCCA-TATGCATTTCATTTATGGCATCCTTTCATGCC
10956897 TTTTTTATAC
Statistics
Matches: 321, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
43 1 0.00
44 15 0.05
45 303 0.94
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCATTTATGGCATCCTTTCATGCCG
Found at i:10956874 original size:135 final size:134
Alignment explanation
Indices: 10956512--10956952 Score: 363
Period size: 135 Copynumber: 3.3 Consensus size: 134
10956502 CATTATGCAT
* * ** * * * * * * *
10956512 TTTCATTTATGGCAT-TTTTAATGCCAATAATGCACCTATATGCATTTCTATTATGGCATCCTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATACACCCATATACATTTCAATTATAGCATCTTTT
* * ** * * *
10956576 CATGACGATAATGCACCCATATGTATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCAT
66 CATGCCGATAATACACCCATATACATTTCATTTATAGCATCCTTTCATGCCGATAATAC-CCCAT
*
10956641 ATGCA
130 ATGAA
* ** * * *
10956646 TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATAGCATCTTTT
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATACACCCATATACATTTCAATTATAGCATCTTTT
* ** *
10956711 CATGCCGATAATGCACCCATATGGATTTCATTTCTAGCATCCTTTCATGCCGATAATACGCCCAT
66 CATGCCGATAATACACCCATATACATTTCATTTATAGCATCCTTTCATGCCGATAATAC-CCCAT
10956776 ATGAA
130 ATGAA
* *
10956781 TTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATACATTTC-ATGTATGGCAT-TC
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATACACCCA-TATACATTTCAAT-TATAGCATCT-
** * * * * ** *
10956843 TTTCATGCCTTTTATACA-CTATTATACATTTCATTTATGGTATCCTTTCATGCCTTTTTTATAC
63 TTTCATGCCGATAATACACCCA-TATACATTTCATTTATAGCATCCTTTCATGCC--GATAATAC
* *
10956907 ACTATTAT-ACA
125 CCCA-TATGA-A
*
10956918 TTTCATTTATGGCATACTTTCATGCCTTTTATACA
1 TTTCATTTATGGCATCCTTTCATGCCTTTTATACA
10956953 ATGTTATGCA
Statistics
Matches: 258, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
134 21 0.08
135 191 0.74
136 3 0.01
137 43 0.17
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (134 bp):
TTTCATTTATGGCATCCTTTCATGCCTTTTATACACCCATATACATTTCAATTATAGCATCTTTT
CATGCCGATAATACACCCATATACATTTCATTTATAGCATCCTTTCATGCCGATAATACCCCATA
TGAA
Found at i:10956921 original size:47 final size:45
Alignment explanation
Indices: 10956600--10956952 Score: 293
Period size: 45 Copynumber: 7.8 Consensus size: 45
10956590 ACCCATATGT
* ** * * * *
10956600 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCA-TATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATAC
* ** * * * *
10956645 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCA-TATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATAC
* * * ** * * * **
10956690 ATTTCAATTATAGCATCTTTTCATGCCGATAATGCACCCA-TATGG
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACA-CTATTATAC
* * ** * * *
10956735 ATTTCATTTCTAGCATCCTTTCATGCCGATAATACGCCCA-TATGA-
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATAC-ACTATTAT-AC
10956780 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
* *
10956825 ATTTCATGTATGGCATTCTTTCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
*
10956870 ATTTCATTTATGGTATCCTTTCATGCCTTTTTTATACACTATTATAC
1 ATTTCATTTATGGCATCCTTTCATGCC--TTTTATACACTATTATAC
*
10956917 ATTTCATTTATGGCATACTTTCATGCCTTTTATACA
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACA
10956953 ATGTTATGCA
Statistics
Matches: 279, Mismatches: 23, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
44 3 0.01
45 233 0.84
47 43 0.15
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (45 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
Found at i:10956940 original size:92 final size:90
Alignment explanation
Indices: 10956780--10956952 Score: 301
Period size: 92 Copynumber: 1.9 Consensus size: 90
10956770 GCCCATATGA
*
10956780 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTCATGTATGGCATTCTT
1 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTCATGTATGGCATACTT
10956845 TCATGCCTTTTATACACTATTATAC
66 TCATGCCTTTTATACACTATTATAC
* *
10956870 ATTTCATTTATGGTATCCTTTCATGCCTTTTTTATACACTATTATACATTTCATTTATGGCATAC
1 ATTTCATTTATGGCATCCTTTCATGCC--TTTTATACACTATTATACATTTCATGTATGGCATAC
10956935 TTTCATGCCTTTTATACA
64 TTTCATGCCTTTTATACA
10956953 ATGTTATGCA
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
90 26 0.33
92 52 0.67
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (90 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATACATTTCATGTATGGCATACTT
TCATGCCTTTTATACACTATTATAC
Found at i:10957113 original size:68 final size:68
Alignment explanation
Indices: 10956985--10957189 Score: 261
Period size: 68 Copynumber: 3.0 Consensus size: 68
10956975 TAGTCTTTTA
* * * * *
10956985 CTCAAAGACATTTAACCTTTCATCTAACTGACATAATAAACACCTTTTTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTTTGTCAAATGCACAGCTA
10957050 GGC
66 GGC
* * * *
10957053 CTCAGAGGCACTTAGCCTTTTATCTAA-TCGGCATAATTAACACCTTTCTT-TCAAACGCACAAC
1 CTCAAAGGCACTTAGCCTTTCATCTAACT-GGCATAATTAACACCTTT-TTGTCAAATGCACAGC
10957116 TAGGC
64 TAGGC
* * * *
10957121 CTCAAAGGGACTTAGCCTTTCATCTAACTGTCATAATTAATACCTTTTTGTCAAATGCACAGATA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTTTGTCAAATGCACAGCTA
10957186 GGC
66 GGC
10957189 C
1 C
10957190 ACCAATCTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
67 3 0.03
68 110 0.95
69 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTAACACCTTTTTGTCAAATGCACAGCTA
GGC
Found at i:10957494 original size:57 final size:57
Alignment explanation
Indices: 10957395--10957606 Score: 311
Period size: 57 Copynumber: 3.7 Consensus size: 57
10957385 TAAAGTTCTT
* * * * *
10957395 ATACGTAAATTCATAAACAAA-TATGAATTCCTTTACTTTTTGCACCCGAAGTGCCC
1 ATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* *
10957451 ATACGAAAATTCATAAATAAATTATGAATTTCTTAACTTTTTGCACACAAAGTACCC
1 ATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
10957508 ATAC-AGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
1 ATACGA-AAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* * *
10957565 AAATGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTT
1 ATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTT
10957607 TTACACTTAG
Statistics
Matches: 141, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
56 20 0.14
57 121 0.86
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (57 bp):
ATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
Found at i:10959559 original size:82 final size:81
Alignment explanation
Indices: 10959473--10960130 Score: 831
Period size: 81 Copynumber: 8.1 Consensus size: 81
10959463 AAGCATTTAG
* * * * *
10959473 TCTTTAACACAAAGGCATTTAGCCTTTCATCTAACTTGCATCATTGACACCTTTCTACCAAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTATC-AAATG
* * *
10959538 CACAGCTGGGCATTTAA
65 CACAACTAGGCAATTAA
* * * * * *
10959555 TCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACATCATTTTTTTCAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGCATAATTGACA-CCTTTCTATCAAATG
* *
10959620 CACAGCTAAGCAATTAA
65 CACAACTAGGCAATTAA
* * *
10959637 TCTTTTACTCAAAGGCATTTTAA-CTTTTATCTAACTGGCATAATTGACACCTTTCTTTCAAATG
1 TCTTTTACTCAAAGGCA-TTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTATCAAATG
10959701 CACAACTAGGCAATTAA
65 CACAACTAGGCAATTAA
*
10959718 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC-TGACATAATTGACACCTTTCTGTCAAAAT
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTG-CATAATTGACACCTTTCTATC-AAAT
* *
10959782 GCACACCTAGGCATTTAA
64 GCACAACTAGGCAATTAA
* * * *
10959800 T-TTTTAACTCAAAGGCATTTAGCCTTTCATGTAAC-TGACATAATTAACACCTTTCTGTCAAAT
1 TCTTTT-ACTCAAAGGCATTTAACCTTTCATCTAACTTG-CATAATTGACACCTTTCTATCAAAT
*
10959863 GCACATCTAGGCAATTAA
64 GCACAACTAGGCAATTAA
* * ** *
10959881 TATTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATCAACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTATCAAATGC
10959946 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * * *
10959962 TCTTTTACTCAAAGGCATTTAACCTTTCATTTAACTAGGATAATTGATACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTATCAAATGC
10960027 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
* *
10960043 TCTTTTACTCAAAGGCATTTAACTTTTCATCTAA-TTGGCATAATTGACACTTTTCTATCAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTT-GCATAATTGACACCTTTCTATCAAATG
** *
10960107 CACATGTATGCAATTAA
65 CACAACTAGGCAATTAA
10960124 TCTTTTA
1 TCTTTTA
10960131 TTTAAAATAG
Statistics
Matches: 517, Mismatches: 50, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
80 7 0.01
81 318 0.62
82 182 0.35
83 10 0.02
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGCATAATTGACACCTTTCTATCAAATGC
ACAACTAGGCAATTAA
Found at i:10959747 original size:163 final size:162
Alignment explanation
Indices: 10959446--10960130 Score: 867
Period size: 163 Copynumber: 4.2 Consensus size: 162
10959436 ATATCGTTTA
* * * * * * * *
10959446 TGTCAAAATGCACTGTTAAGCATTTAGTCTTTAACACAAAGGCATTTAGCCTTTCATCTAACTTG
1 TGTC-AAATGCACAGCTAAGCAATTAATCTTTTACTCAAAGGCATTTAGACTTTCATCTAACTGG
* * * * * *
10959511 CATCATTGACACCTTTCTACCAAAATGCACAGCTGGGCATTTAATCTTTAACTCAAAGGCATTTA
65 CATAATTGACACCTTTCTATC-AAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA
* * *
10959576 GCCTTTCATCTAACTGGCATAATTGACATCATTTT
129 ACCTTTCATCTAACTGGCATAATTGACA-CCTTTC
* *
10959611 TTTCAAATGCACAGCTAAGCAATTAATCTTTTACTCAAAGGCATTTTA-ACTTTTATCTAACTGG
1 TGTCAAATGCACAGCTAAGCAATTAATCTTTTACTCAAAGGCA-TTTAGACTTTCATCTAACTGG
*
10959675 CATAATTGACACCTTTCTTTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAA
65 CATAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAA
*
10959740 CCTTTCATCTAACTGACATAATTGACACCTTTC
130 CCTTTCATCTAACTGGCATAATTGACACCTTTC
* * * * *
10959773 TGTCAAAATGCACACCTAGGCATTTAAT-TTTTAACTCAAAGGCATTTAGCCTTTCATGTAACTG
1 TGTC-AAATGCACAGCTAAGCAATTAATCTTTT-ACTCAAAGGCATTTAGACTTTCATCTAACTG
* * * * *
10959837 ACATAATTAACACCTTTCTGTCAAATGCACATCTAGGCAATTAATATTTTACTCAAAGGCATTTA
64 GCATAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA
**
10959902 ACCTTTCATCTAACTGGCATAATCAACACCTTTC
129 ACCTTTCATCTAACTGGCATAATTGACACCTTTC
* * *
10959936 TGTCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA-ACCTTTCATTTAACTAG
1 TGTCAAATGCACAGCTAAGCAATTAATCTTTTACTCAAAGGCATTTAGA-CTTTCATCTAACT-G
* *
10960000 G-ATAATTGATACATTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA
64 GCATAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTA
* * *
10960064 ACTTTTCATCTAATTGGCATAATTGACACTTTTC
129 ACCTTTCATCTAACTGGCATAATTGACACCTTTC
* *
10960098 TATCAAATGCACATG-TATGCAATTAATCTTTTA
1 TGTCAAATGCACA-GCTAAGCAATTAATCTTTTA
10960131 TTTAAAATAG
Statistics
Matches: 457, Mismatches: 55, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
162 178 0.39
163 208 0.46
164 64 0.14
165 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (162 bp):
TGTCAAATGCACAGCTAAGCAATTAATCTTTTACTCAAAGGCATTTAGACTTTCATCTAACTGGC
ATAATTGACACCTTTCTATCAAATGCACAACTAGGCAATTAATCTTTTACTCAAAGGCATTTAAC
CTTTCATCTAACTGGCATAATTGACACCTTTC
Found at i:10968560 original size:18 final size:18
Alignment explanation
Indices: 10968537--10968572 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10968527 AAGGTTGTAG
10968537 GAGCTACGAGAGTAGTCA
1 GAGCTACGAGAGTAGTCA
10968555 GAGCTACGAGAGTAGTCA
1 GAGCTACGAGAGTAGTCA
10968573 TTCCTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (18 bp):
GAGCTACGAGAGTAGTCA
Found at i:10971507 original size:45 final size:45
Alignment explanation
Indices: 10971307--10971511 Score: 232
Period size: 45 Copynumber: 4.6 Consensus size: 45
10971297 CATTGTGCCT
* * *
10971307 TTTCATTTATGGCAT-TTTTCATGCCAATAATGCACCCATATGCA
1 TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCA
* * *
10971351 TTTCAATTATGGCATCCTTTCATTCCTATAATGCACCCATATGTA
1 TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCA
* * * *
10971396 TTTCAATTATGGCATCATTTCGTGTCGATAATGCACCCATATGGA
1 TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCA
* * * * *
10971441 TTTTATTTCTGGCATCTTTTCATGCCGATAATGCACCCATATACA
1 TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCA
* * * *
10971486 TTTCATTTATCGTAGCCTTTCATGCC
1 TTTCAATTATGGCATCCTTTCATGCC
10971512 TTTTATACAC
Statistics
Matches: 135, Mismatches: 25, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
44 14 0.10
45 121 0.90
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (45 bp):
TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCA
Found at i:10971625 original size:47 final size:47
Alignment explanation
Indices: 10971480--10971653 Score: 212
Period size: 47 Copynumber: 3.8 Consensus size: 47
10971470 AATGCACCCA
* * * *
10971480 TATACATTTCATTTATCGTAGCCTTTCATGCC--TTTTATACACAAT
1 TATACATTTCATTTATGGCATCCTTTCATGCCTTTTTTATACACTAT
* * * * *
10971525 TATACATTTCATGTATGTCATTCTTTCAT-ACATTTTTATACA-TAAT
1 TATACATTTCATTTATGGCATCCTTTCATGCCTTTTTTATACACT-AT
* *
10971571 TATACATTTTATTTATGGCATCATTTCATGCCTTTTTTATACACTAT
1 TATACATTTCATTTATGGCATCCTTTCATGCCTTTTTTATACACTAT
10971618 TATACATTTCATTTATGGCATCCTTTCATGCCTTTT
1 TATACATTTCATTTATGGCATCCTTTCATGCCTTTT
10971654 ATACAATGTT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
44 1 0.01
45 23 0.21
46 35 0.33
47 47 0.44
48 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (47 bp):
TATACATTTCATTTATGGCATCCTTTCATGCCTTTTTTATACACTAT
Found at i:10971812 original size:67 final size:67
Alignment explanation
Indices: 10971707--10971898 Score: 269
Period size: 67 Copynumber: 2.9 Consensus size: 67
10971697 GGCATTTAAC
* * ** *
10971707 CTTTCATCAAATTGACATAATAAACACCTTTCTGTCAAATGCACAGCTAGGCCTTAAAGGCACTT
1 CTTTCATCAAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCTCAAA-GCACTT
10971772 AGG
65 AGG
* * *
10971775 CTTTCATC-AACTGGCATAATTGACACCTTTCTTTCAAATGCGCAACTAGGCCTCAAAGCACTTA
1 CTTTCATCAAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCTCAAAGCACTTA
*
10971839 GT
66 GG
*
10971841 CTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATCAA
1 CTTTCATCAAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCC-TCAA
10971899 TCTTTTATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
66 16 0.15
67 82 0.75
68 12 0.11
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (67 bp):
CTTTCATCAAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCTCAAAGCACTTA
GG
Found at i:10972271 original size:113 final size:114
Alignment explanation
Indices: 10972069--10972310 Score: 305
Period size: 113 Copynumber: 2.1 Consensus size: 114
10972059 TAATTCATAT
* * * *
10972069 AATTTCTTATC-TTTTGCACATAAAGTTCTTATACGCAAATTCATAAACAAATTATGAATTCCTT
1 AATTTCTTAACTTTTTGCACACAAAGTTCTCACACGCAAATTCATAAACAAATTATGAATTCCTT
* * * ***
10972133 TACTTATTGCACCTGAAGTGTCCATATGGAAATTCATAAACAAATTATG
66 AACTTATTGCACCTAAAGTGCCCATACAAAAATTCATAAACAAATTATG
* *
10972182 AATTTCTTAACTTTTTGCACACAAAGTGTC-CACACGTAAATTCATAAA-AAA-TATGAATTTCT
1 AATTTCTTAACTTTTTGCACACAAAGT-TCTCACACGCAAATTCATAAACAAATTATGAATTCCT
*
10972244 TAACTTTTTTGCACAC-AAAGTGCCCATACAAAAATTCATAAACAAATTATG
65 TAAC-TTATTGCAC-CTAAAGTGCCCATACAAAAATTCATAAACAAATTATG
10972295 AATTTCTTAACTTTTT
1 AATTTCTTAACTTTTT
10972311 CTACACTTAG
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
112 13 0.12
113 67 0.60
114 30 0.27
115 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (114 bp):
AATTTCTTAACTTTTTGCACACAAAGTTCTCACACGCAAATTCATAAACAAATTATGAATTCCTT
AACTTATTGCACCTAAAGTGCCCATACAAAAATTCATAAACAAATTATG
Found at i:10972279 original size:56 final size:57
Alignment explanation
Indices: 10972069--10972310 Score: 296
Period size: 57 Copynumber: 4.3 Consensus size: 57
10972059 TAATTCATAT
* * * *
10972069 AATTTCTTATC-TTTTGCACATAAAGT-TCTTATACGCAAATTCATAAACAAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGTC-CATACGAAAATTCATAAACAAATTATG
* * * * * *
10972125 AATTCCTTTACTTATTGCAC-CTGAAGTGTCCATATGGAAATTCATAAACAAATTATG
1 AATTTCTTAACTTTTTGCACAC-AAAGTGTCCATACGAAAATTCATAAACAAATTATG
* *
10972182 AATTTCTTAACTTTTTGCACACAAAGTGTCCACACGTAAATTCATAAA-AAA-TATG
1 AATTTCTTAACTTTTTGCACACAAAGTGTCCATACGAAAATTCATAAACAAATTATG
* *
10972237 AATTTCTTAACTTTTTTGCACACAAAGTGCCCATACAAAAATTCATAAACAAATTATG
1 AATTTCTTAAC-TTTTTGCACACAAAGTGTCCATACGAAAATTCATAAACAAATTATG
10972295 AATTTCTTAACTTTTT
1 AATTTCTTAACTTTTT
10972311 CTACACTTAG
Statistics
Matches: 159, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
55 15 0.09
56 44 0.28
57 82 0.52
58 18 0.11
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGTCCATACGAAAATTCATAAACAAATTATG
Found at i:10975243 original size:15 final size:16
Alignment explanation
Indices: 10975216--10975246 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
10975206 TTAAGTTAAA
10975216 TAAAATACTTTTATTT
1 TAAAATACTTTTATTT
10975232 TAAAAT-CTTTTATTT
1 TAAAATACTTTTATTT
10975247 CCTTCTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TAAAATACTTTTATTT
Found at i:10976730 original size:45 final size:45
Alignment explanation
Indices: 10976654--10976901 Score: 241
Period size: 45 Copynumber: 5.5 Consensus size: 45
10976644 CTTCATACTT
* * * * * *
10976654 ATAATGCA-CCATTATGTATTTTCATTTATGGCATTATTTAATGCCA
1 ATAATGCACCCA-TATGCA-TTTCAATAATGGCATCATTTCATGCCG
*
10976700 ATAATG-AGCCTATATGCATTTCAATAATGGCATGC-TTTCATGCCG
1 ATAATGCA-CCCATATGCATTTCAATAATGGCAT-CATTTCATGCCG
* *
10976745 ATAATGCACCCATATGCATTTCAATTATGGTATCATTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATAATGGCATCATTTCATGCCG
* * *
10976790 ATAATGCACCCATATGCATTTCAATCATGGCATCCTTTCATGACG
1 ATAATGCACCCATATGCATTTCAATAATGGCATCATTTCATGCCG
* * * * * **
10976835 ATAATGCACCCTTATGCATTTCATTTATCGCATCCTTTCATGATG
1 ATAATGCACCCATATGCATTTCAATAATGGCATCATTTCATGCCG
* * *
10976880 ATAATCCACCTATATGGATTTC
1 ATAATGCACCCATATGCATTTC
10976902 TTTTCTGGCA
Statistics
Matches: 174, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 159 0.91
46 12 0.07
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATAATGGCATCATTTCATGCCG
Found at i:10976794 original size:90 final size:90
Alignment explanation
Indices: 10976654--10976876 Score: 288
Period size: 90 Copynumber: 2.5 Consensus size: 90
10976644 CTTCATACTT
* * * *
10976654 ATAATGCA-CCATTATGTATTTTCATTTATGGCATTATTTAATGCCAATAATG-AGCCTATATGC
1 ATAATGCACCCA-TATGCA-TTTCATTTATGGCATCATTTCATGCCAATAATGCA-CCCATATGC
* *
10976717 ATTTCAATAATGGCATGCTTTCATGCCG
63 ATTTCAATAATGGCATCCTTTCATGACG
* * *
10976745 ATAATGCACCCATATGCATTTCAATTATGGTATCATTTCATGCCGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCATTTATGGCATCATTTCATGCCAATAATGCACCCATATGCATT
*
10976810 TCAATCATGGCATCCTTTCATGACG
66 TCAATAATGGCATCCTTTCATGACG
* * *
10976835 ATAATGCACCCTTATGCATTTCATTTATCGCATCCTTTCATG
1 ATAATGCACCCATATGCATTTCATTTATGGCATCATTTCATG
10976877 ATGATAATCC
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
90 98 0.85
91 14 0.12
92 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (90 bp):
ATAATGCACCCATATGCATTTCATTTATGGCATCATTTCATGCCAATAATGCACCCATATGCATT
TCAATAATGGCATCCTTTCATGACG
Found at i:10977081 original size:68 final size:68
Alignment explanation
Indices: 10976965--10977174 Score: 235
Period size: 68 Copynumber: 3.1 Consensus size: 68
10976955 TAGGCTTTTA
* ** * * *
10976965 CTCAAAGGAATTTATCCTTTCATCTAACTTGAATAATTGATACCTTTCTGTTAAATGCACAGCTA
1 CTCAAAGGAACTTAGACTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGCACAGCTA
10977030 GGC
66 GGC
* * * *
10977033 CTCAAAGGCACTTAGACTTTCATCTAACTGGCATAATT-AGCACATTTCT-TTCAAATGCATAAC
1 CTCAAAGGAACTTAGACTTTCATCTAACTGGCATAATTGA-CACCTTTCTGTT-AAATGCACAGC
*
10977096 TGGGC
64 TAGGC
* * * * *
10977101 CTTAAAGGAACTTAGCCTTTCATCTAACTGTCATAATTGACACCTTTCAGTCAAATGCACAGCTA
1 CTCAAAGGAACTTAGACTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGCACAGCTA
10977166 GGC
66 GGC
10977169 CATCAA
1 C-TCAA
10977175 TCTTTTATTT
Statistics
Matches: 115, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
67 3 0.03
68 107 0.93
69 5 0.04
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (68 bp):
CTCAAAGGAACTTAGACTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGCACAGCTA
GGC
Found at i:10977407 original size:57 final size:57
Alignment explanation
Indices: 10977363--10977581 Score: 321
Period size: 57 Copynumber: 3.8 Consensus size: 57
10977353 TAAAGTTCTT
* * * *
10977363 ATACAAAAATTCATAAACAAATTATGAATTCCTTAGCTTTTTGCACCCAAAGTGCCC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGGCC
** * *
10977420 ATATGAAAATTCGTAAACAAATTATGAATTTCTTAACTTTTTGTACACAAAGTGGCC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGGCC
** *
10977477 ATACGGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTTCACACAAAGTGGCC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGGCC
* *
10977534 ATACAAAAATTCATAAACAAATTATGAATTTTTTAACTTTTTGTACAC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
10977582 TTAGTACCAT
Statistics
Matches: 144, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 144 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (57 bp):
ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGGCC
Found at i:10981361 original size:45 final size:45
Alignment explanation
Indices: 10981269--10981583 Score: 359
Period size: 45 Copynumber: 7.0 Consensus size: 45
10981259 CTTCATACTT
* ** * *
10981269 ATAATGCA-CCATTATGCATTTTCATTTATAACAT-TATTTCGTGCCA
1 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCT-TTTCATGCCG
*
10981315 ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCCG
* *
10981360 ATAATGCACCCATATACATTT-ATATTATGACATCTTTTCATGCCG
1 ATAATGCACCCATATGCATTTCA-ATTATGGCATCTTTTCATGCCG
* * *
10981405 ATAATGCACCCATGTGCATTTCAATTATGGTATCCTTTT-ATACCG
1 ATAATGCACCCATATGCATTTCAATTATGGCAT-CTTTTCATGCCG
* *
10981450 ATAATGCACCCATAGGCATTTCAATTATGGCATCTTTTGATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCCG
* * * * *
10981495 ATAATGTACCCATATGGATTTCATTTCTGGCATCCTTTCATGCCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCCG
* * * *
10981540 ATAATGCACCCATATGCATTTTATTTATGGCATCCTTCCATGCC
1 ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCC
10981584 TTTTATACAC
Statistics
Matches: 235, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
44 6 0.03
45 205 0.87
46 21 0.09
47 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCTTTTCATGCCG
Found at i:10981605 original size:45 final size:45
Alignment explanation
Indices: 10981512--10981726 Score: 247
Period size: 45 Copynumber: 4.8 Consensus size: 45
10981502 ACCCATATGG
* * ** * * * *
10981512 ATTTCATTTCTGGCATCCTTTCATGCCGATAATGCACCCA-TATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACA-CTATTATAC
* * *
10981557 ATTTTATTTATGGCATCCTTCCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATAC
* * *
10981602 ATTTCATTTATGGCATTCTTTCATTCCTTTTATACACTATTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATAC
10981647 A-TT-ATTTATGACATCCTTTCATGCCTTTTTATACACTATTATAC
1 ATTTCATTTATGACATCCTTTCATGCC-TTTTATACACTATTATAC
* *
10981691 ATTTCATTTATGAAATTCTTTCATGCCTTTTATACA
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACA
10981727 ATGTTATGTA
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
43 19 0.13
44 23 0.16
45 86 0.58
46 20 0.14
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (45 bp):
ATTTCATTTATGACATCCTTTCATGCCTTTTATACACTATTATAC
Found at i:10981605 original size:135 final size:135
Alignment explanation
Indices: 10981315--10981671 Score: 350
Period size: 135 Copynumber: 2.7 Consensus size: 135
10981305 TTTCGTGCCA
*
10981315 ATAATGCACCCATATG-CATTTCAATTATGGCATCTTTTCATGCCAATAATGCACCCATATACAT
1 ATAATACACCCATA-GACATTTCAATTATGGCATCTTTTCATGCCAATAATGCACCCATATACAT
* * * **
10981379 TTATATTATGACATCTTTTCATGCCGATAATGCACCCATGTGCATTTCAATTATGGTATCCTTTT
65 TTATATTATGACATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTCC
10981444 ATACCG
130 ATACCG
* * * * * **
10981450 ATAATGCACCCATAGGCATTTCAATTATGGCATCTTTTGATGCCGATAATGTACCCATATGGATT
1 ATAATACACCCATAGACATTTCAATTATGGCATCTTTTCATGCCAATAATGCACCCATATACATT
* * * *
10981515 TCAT-TTCTGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTTATTTATGGCATCCTTCC
66 T-ATATTATGACATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTCC
* *
10981579 ATGCCT
130 ATACCG
* * * * * * ** * * *
10981585 TTTATACA-CTATTATACATTTCATTTATGGCAT-TCTTTCATTCCTTTTATACA-CTATTATAC
1 ATAATACACCCA-TAGACATTTCAATTATGGCATCT-TTTCATGCCAATAATGCACCCA-TATAC
10981647 A-TTAT-TTATGACATCCTTTCATGCC
63 ATTTATATTATGACATCCTTTCATGCC
10981672 TTTTTATACA
Statistics
Matches: 182, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
133 20 0.11
134 8 0.04
135 152 0.84
136 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (135 bp):
ATAATACACCCATAGACATTTCAATTATGGCATCTTTTCATGCCAATAATGCACCCATATACATT
TATATTATGACATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTTCCA
TACCG
Found at i:10981606 original size:90 final size:89
Alignment explanation
Indices: 10981324--10981717 Score: 296
Period size: 90 Copynumber: 4.4 Consensus size: 89
10981314 AATAATGCAC
* * * *
10981324 CCATATGCATTTCAATTATGGCATCTTTTCATGCCAATAATGCACCCATATACATTTATATTATG
1 CCATATACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTAT-TTATG
* *
10981389 ACATCTTTTCATGCCGATA--ATGCA
65 ACATCCTTTCATGCC-ATATTATACA
* * * * * * ** *
10981413 CCCATGTGCATTTCAATTATGGTATCCTTTTATACCGATAATGCACCCATAGGCATTTCAATTAT
1 -CCATATACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTT-ATTTAT
* * * * *
10981478 GGCATCTTTTGATGCCGATAATGTAC-
64 GACATCCTTTCATGCC-ATATTATACA
** * *
10981504 CCATATGGATTTCATTTCTGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTTATTTATG
1 CCATATACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCCATATACA-TTTATTTATG
* * *
10981569 GCATCCTTCCATGCC-TTTTATACA
65 ACATCCTTTCATGCCATATTATACA
* * * ** * * *
10981593 CTATTATACATTTCATTTATGGCATTCTTTCATTCCTTTTATACA-CTATTATACA-TTATTTAT
1 CCA-TATACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCCA-TATACATTTATTTAT
* *
10981656 GACATCCTTTCATGCCTTTTTATACA
64 GACATCCTTTCATGCCATATTATACA
* ** *
10981682 CTATTATACATTTCATTTATGAAATTCTTTCATGCC
1 CCA-TATACATTTCATTTATGGCATCCTTTCATGCC
10981718 TTTTATACAA
Statistics
Matches: 251, Mismatches: 45, Indels: 17
0.80 0.14 0.05
Matches are distributed among these distances:
88 27 0.11
89 46 0.18
90 172 0.69
91 4 0.02
92 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (89 bp):
CCATATACATTTCATTTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTATTTATGA
CATCCTTTCATGCCATATTATACA
Found at i:10981698 original size:89 final size:88
Alignment explanation
Indices: 10981560--10981726 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 88
10981550 CATATGCATT
* **
10981560 TTATTTATGGCATCCTTCCATGCCTTTTATACACTATTATACATTTCATTTATGGCATTCTTTCA
1 TTATTTATGACATCCTTCCATGCCTTTTATACACTATTATACATTTCATTTATGAAATTCTTTCA
*
10981625 TTCCTTTTATACACTATTATACA
66 TGCCTTTTATACACTATTATACA
*
10981648 TTATTTATGACATCCTTTCATGCCTTTTTATACACTATTATACATTTCATTTATGAAATTCTTTC
1 TTATTTATGACATCCTTCCATGCC-TTTTATACACTATTATACATTTCATTTATGAAATTCTTTC
10981713 ATGCCTTTTATACA
65 ATGCCTTTTATACA
10981727 ATGTTATGTA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
88 22 0.30
89 51 0.70
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (88 bp):
TTATTTATGACATCCTTCCATGCCTTTTATACACTATTATACATTTCATTTATGAAATTCTTTCA
TGCCTTTTATACACTATTATACA
Found at i:10981872 original size:68 final size:68
Alignment explanation
Indices: 10981759--10981963 Score: 268
Period size: 68 Copynumber: 3.0 Consensus size: 68
10981749 CTGTCTTTTA
* * * * *
10981759 CTCAAAGGCATTTTACCATTCATCTAACTG-CTATAATTGAAACCTTTCTGTCAAATGCACAGCT
1 CTCAAAGGCACTTAACCTTTCATCGAACTGAC-ATAATTGACACCTTTCTGTCAAATGCACAGCT
*
10981823 AGTC
65 AGGC
* * * *
10981827 CTCAAAGGCACTTAGCCTTTGATCGAACTGGCATAATTGGCACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAACCTTTCATCGAACTGACATAATTGACACCTTTCTGTCAAATGCACAGCTA
10981892 GGC
66 GGC
* * * *
10981895 CTCAAAGGCACTTAACCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAATACACAACTA
1 CTCAAAGGCACTTAACCTTTCATCGAACTGACATAATTGACACCTTTCTGTCAAATGCACAGCTA
10981960 GGC
66 GGC
10981963 C
1 C
10981964 ATGAATCTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
68 118 0.99
69 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (68 bp):
CTCAAAGGCACTTAACCTTTCATCGAACTGACATAATTGACACCTTTCTGTCAAATGCACAGCTA
GGC
Found at i:10982320 original size:57 final size:56
Alignment explanation
Indices: 10982147--10982323 Score: 239
Period size: 57 Copynumber: 3.1 Consensus size: 56
10982137 TATTTCTTAG
* *
10982147 TTTTTGCACATAAAGT-TCTTATACGGAAATTCATAAACAAATTATGAATTCCTTAAC
1 TTTTTGCACACAAAGTGTC-CATACGGAAATTCATAAACAAATTATGAATT-CTTAAC
* * * * * *
10982204 TTCTTACACCCGAAGTGCCCATACTGAAATTCATAAACAAATTATGAATTTCTTAAC
1 TTTTTGCACACAAAGTGTCCATACGGAAATTCATAAACAAATTATGAA-TTCTTAAC
10982261 TTTTTGCACACAAAGTGTCCATACGGAAATTCATAAACAAATTATGAACTTCTTAAC
1 TTTTTGCACACAAAGTGTCCATACGGAAATTCATAAACAAATTATGAA-TTCTTAAC
10982318 TTTTTG
1 TTTTTG
10982324 TAAACTCAGT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
57 100 0.97
58 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (56 bp):
TTTTTGCACACAAAGTGTCCATACGGAAATTCATAAACAAATTATGAATTCTTAAC
Found at i:10985361 original size:17 final size:18
Alignment explanation
Indices: 10985328--10985361 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10985318 ACATGTTAAA
*
10985328 AAAATGAATACAAAAATG
1 AAAATGAATAAAAAAATG
10985346 AAAATG-ATAAAAAAAT
1 AAAATGAATAAAAAAAT
10985362 TTACGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.18
Consensus pattern (18 bp):
AAAATGAATAAAAAAATG
Found at i:10988307 original size:54 final size:54
Alignment explanation
Indices: 10988219--10988326 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
10988209 CTTTTATATA
*
10988219 CAACTCCACATACTTATACATTGAGTAATGTACTCAAACTGGAATAAAATGAGC
1 CAACTCCACATACTTATACATTGAGTAATCTACTCAAACTGGAATAAAATGAGC
* *
10988273 CAACTCCGCATACTTATACATTGAGTAGTCTACTCAAACTGGAATAAAATGAGC
1 CAACTCCACATACTTATACATTGAGTAATCTACTCAAACTGGAATAAAATGAGC
10988327 TGTCTTGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (54 bp):
CAACTCCACATACTTATACATTGAGTAATCTACTCAAACTGGAATAAAATGAGC
Found at i:10992976 original size:81 final size:81
Alignment explanation
Indices: 10992891--10993384 Score: 650
Period size: 81 Copynumber: 6.1 Consensus size: 81
10992881 ATACATCTAG
* * * * *
10992891 TCTTTTACTCAAAGGCATTTAACATTTCATCTAATTGGCATAAATGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10992956 ACAACTAGGTAATTAA
66 ACAACTAGGCAATTAA
* *
10992972 TCTTTTACTCAAAGGCATTTAACCTTTCATCTATA-TGACATAATTGACACCTTTCTGTCAAAAT
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTA-ACTGGCATAATTGACACCTTTCTGTC-AAAT
* * *
10993036 ACACAGCTAGGCATTTAA
64 GCACAACTAGGCAATTAA
* * * *
10993054 TCTTTAACACAAAGACATTTATCCTTTCATCTAACTGGCATAATTGTCACCTTTCTGTCAAATG-
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10993118 AGCAGCTAGGCAATTAA
66 A-CAACTAGGCAATTAA
* * * * * *
10993135 TATTTTACTCAAAGACATTTAACATTTCATCTAACTGGCTTAATCGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
**
10993200 ACAGTTAGGCAATTAA
66 ACAACTAGGCAATTAA
* * * * *
10993216 TCTTTTACTCAAAGGCATTTAACCCTTCATTTAACTTGCATAATTGTCACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
10993281 ACAACTTGGCAATTAA
66 ACAACTAGGCAATTAA
* * *
10993297 TCTTTTTCTCAAAGACATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
10993362 ACAACTAGGCAATTAA
66 ACAACTAGGCAATTAA
10993378 TCTTTTA
1 TCTTTTA
10993385 TTTAAAACAA
Statistics
Matches: 358, Mismatches: 50, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.00
81 286 0.80
82 71 0.20
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGACATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCAATTAA
Found at i:10995116 original size:19 final size:20
Alignment explanation
Indices: 10995092--10995150 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
10995082 TCAAAAAATG
10995092 GTATCGATACCATAGTAG-A
1 GTATCGATACCATAGTAGTA
*
10995111 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAG--TAGTA
*
10995133 GTATCGATACCATGGTAG
1 GTATCGATACCATAGTAG
10995151 GGGTATCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 14 0.41
20 3 0.09
21 3 0.09
22 14 0.41
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (20 bp):
GTATCGATACCATAGTAGTA
Found at i:10995629 original size:45 final size:43
Alignment explanation
Indices: 10995578--10995833 Score: 199
Period size: 45 Copynumber: 6.2 Consensus size: 43
10995568 ATAAAAGAAT
*
10995578 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA-AT-A
* *
10995623 AATGCATATGGGTACATTATCGGCAT-AAA--A----A-AAT-
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATA
* *
10995657 TATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA-AT-A
* *
10995702 AATGCATATGGGTACATTATCGGCAT-AAA--A---C--AAT-
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATA
10995736 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAAATAA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAT-AAT-A
* * *
10995781 AATGCATGAAAGGATGCATTA-AGGCATGAAAGGATGCCATAAATAA
1 AATGCAT--ATGGGTGCATTATTGGCATGAAAGGATGCCAT-AAT-A
10995827 AATGCAT
1 AATGCAT
10995834 GAAAGGATGC
Statistics
Matches: 171, Mismatches: 16, Indels: 47
0.73 0.07 0.20
Matches are distributed among these distances:
34 47 0.27
35 6 0.04
36 2 0.01
37 4 0.02
38 1 0.01
39 1 0.01
40 1 0.01
41 1 0.01
42 3 0.02
43 4 0.02
44 6 0.04
45 54 0.32
46 31 0.18
47 10 0.06
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (43 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATA
Found at i:10995662 original size:34 final size:34
Alignment explanation
Indices: 10995623--10995761 Score: 116
Period size: 34 Copynumber: 3.8 Consensus size: 34
10995613 CCATAGCTGA
10995623 AATGCATATGGGTACATTATCGGCATAAAAAAAT
1 AATGCATATGGGTACATTATCGGCATAAAAAAAT
* * * *
10995657 TATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
1 AATGCATATGGGTACATTATCGGCAT-AAA--A----A-A-AT
*
10995700 GAAATGCATATGGGTACATTATCGGCATAAAACAAT
1 --AATGCATATGGGTACATTATCGGCATAAAAAAAT
* *
10995736 AATGCATATGGGTGCATTATTGGCAT
1 AATGCATATGGGTACATTATCGGCAT
10995762 GAAAGGATGC
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
34 47 0.57
35 3 0.04
36 1 0.01
37 2 0.02
41 1 0.01
42 2 0.02
43 1 0.01
44 3 0.04
45 23 0.28
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTACATTATCGGCATAAAAAAAT
Found at i:10995787 original size:79 final size:79
Alignment explanation
Indices: 10995568--10995775 Score: 389
Period size: 79 Copynumber: 2.6 Consensus size: 79
10995558 GAATGAATGA
*
10995568 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
10995633 GGTACATTATCGGC
66 GGTACATTATCGGC
*
10995647 ATAAAAAAATTATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
1 ATAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
10995712 GGTACATTATCGGC
66 GGTACATTATCGGC
*
10995726 ATAAAACAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
1 ATAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA
10995776 AATAAAATGC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 125 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (79 bp):
ATAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATG
GGTACATTATCGGC
Found at i:10995815 original size:46 final size:47
Alignment explanation
Indices: 10995748--10995843 Score: 176
Period size: 46 Copynumber: 2.1 Consensus size: 47
10995738 TGCATATGGG
*
10995748 TGCATTATTGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGA
1 TGCATTATAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGA
10995795 TGCATTA-AGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGA
1 TGCATTATAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGA
10995841 TGC
1 TGC
10995844 CATAAATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 41 0.85
47 7 0.15
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (47 bp):
TGCATTATAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGA
Found at i:10995875 original size:72 final size:72
Alignment explanation
Indices: 10995758--10996053 Score: 371
Period size: 72 Copynumber: 4.2 Consensus size: 72
10995748 TGCATTATTG
10995758 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10995823 ATAAAAT
66 ATAAAAT
10995830 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10995895 ATAAAAT
66 ATAAAAT
* * * *
10995902 GCATGAAAAGATG-CAT---T--AAGGCATGAAAGGATGCCA-TAA---ATAAAATGCATGAACT
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATG-CATTAAGGCATGAAA-GGATG--C-
* * * *
10995957 GATACAT-TAAG
61 CATAAATAAAAT
* * *
10995968 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGTATTAAGGAATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
10996033 ATAAAAT
66 ATAAAAT
10996040 GCATGAAAGGATGC
1 GCATGAAAGGATGC
10996054 ATTAAGGCAT
Statistics
Matches: 190, Mismatches: 18, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
63 5 0.03
64 4 0.02
66 33 0.17
67 10 0.05
68 1 0.01
70 1 0.01
71 9 0.05
72 118 0.62
74 4 0.02
75 5 0.03
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
ATAAAAT
Found at i:10995880 original size:46 final size:46
Alignment explanation
Indices: 10995830--10996067 Score: 413
Period size: 46 Copynumber: 5.2 Consensus size: 46
10995820 TAAATAAAAT
10995830 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
*
10995876 GCATGAAAGGATGCCATAAATAAAATGCATGAAAAGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
** *
10995922 GCATGAAAGGATGCCATAAATAAAATGCATGAACTGATACATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
*
10995968 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGTATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
* *
10996014 GAATGAAAGGATGTCATAAATAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
10996060 GCATGAAA
1 GCATGAAA
10996068 TGATTCCACT
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 180 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.21
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCATTAAG
Found at i:10995889 original size:92 final size:90
Alignment explanation
Indices: 10995784--10996067 Score: 353
Period size: 92 Copynumber: 3.1 Consensus size: 90
10995774 TAAATAAAAT
* *
10995784 GCATGAAAGGATG-CAT-T-AAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGCCA
1 GCATGAAAGGATGCCATATAAATGCATGAAAGGATG-CAT--AT--AAGGCATGAAAGGATGCCA
10995846 TAAATAAAATGCATGAAAGGATGCATTAAG
61 TAAATAAAATGCATGAAAGGATGCATTAAG
*
10995876 GCATGAAAGGATGCCATAAATAAAATGCATGAAAAGATGCAT-TAAGGCATGAAAGGATGCCATA
1 GCATGAAAGGATGCCAT--AT-AAATGCATGAAAGGATGCATATAAGGCATGAAAGGATGCCATA
** *
10995940 AATAAAATGCATGAACTGATACATTAAG
63 AATAAAATGCATGAAAGGATGCATTAAG
* * *
10995968 GCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGTAT-TAAGGAATGAAAGGATGTCATA
1 GCATGAAAGGATGCCAT--AT-AAATGCATGAAAGGATGCATATAAGGCATGAAAGGATGCCATA
10996032 AATAAAATGCATGAAAGGATGCATTAAG
63 AATAAAATGCATGAAAGGATGCATTAAG
10996060 GCATGAAA
1 GCATGAAA
10996068 TGATTCCACT
Statistics
Matches: 173, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
92 151 0.87
93 3 0.02
94 1 0.01
96 1 0.01
97 3 0.02
98 14 0.08
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.20
Consensus pattern (90 bp):
GCATGAAAGGATGCCATATAAATGCATGAAAGGATGCATATAAGGCATGAAAGGATGCCATAAAT
AAAATGCATGAAAGGATGCATTAAG
Found at i:11006729 original size:76 final size:80
Alignment explanation
Indices: 11006588--11006733 Score: 192
Period size: 76 Copynumber: 1.9 Consensus size: 80
11006578 ATATGATAAG
* *
11006588 TAAACATTAAAAGAATGTCATTTAGATTACAACTCTTTTAATTGATATATATAATTCGAAATAAT
1 TAAACATTAAAAGAATGTAATTTAGATTACAACTCATTTAATTGATATATATAATTCGAAATAAT
11006653 TAAATCAGTTTTAAA
66 TAAATCAGTTTTAAA
* * * * * *
11006668 TAAACATT-AAAGATTGTAATTTAGATTATAAGT-ATTTAA-TG-TATATTTAATTTGAATTAAT
1 TAAACATTAAAAGAATGTAATTTAGATTACAACTCATTTAATTGATATATATAATTCGAAATAAT
11006729 TAAAT
66 TAAAT
11006734 AATATTTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
76 22 0.38
77 2 0.03
78 5 0.09
79 21 0.36
80 8 0.14
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (80 bp):
TAAACATTAAAAGAATGTAATTTAGATTACAACTCATTTAATTGATATATATAATTCGAAATAAT
TAAATCAGTTTTAAA
Found at i:11007748 original size:18 final size:18
Alignment explanation
Indices: 11007700--11007750 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 18
11007690 AGTTTGCTCT
*
11007700 TTCATTCAATAAAACTAG
1 TTCATTCAATTAAACTAG
*
11007718 TTCATT-AACTAAACTAG
1 TTCATTCAATTAAACTAG
*
11007735 TTCATTCATTTAAACT
1 TTCATTCAATTAAACT
11007751 GACATGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (18 bp):
TTCATTCAATTAAACTAG
Found at i:11011260 original size:18 final size:18
Alignment explanation
Indices: 11011237--11011276 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11011227 TTTTTCTGGA
*
11011237 CATCAATGTGTCTACATT
1 CATCAAAGTGTCTACATT
11011255 CATCAAAGTGTCTACATT
1 CATCAAAGTGTCTACATT
11011273 CATC
1 CATC
11011277 CTTTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (18 bp):
CATCAAAGTGTCTACATT
Found at i:11011365 original size:22 final size:22
Alignment explanation
Indices: 11011339--11011381 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11011329 TTAGACGAAT
* *
11011339 TTAAGTCCATATTCAGCCTAAA
1 TTAAGTCCAAATTCACCCTAAA
11011361 TTAAGTCCAAATTCACCCTAA
1 TTAAGTCCAAATTCACCCTAA
11011382 GGCTCTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (22 bp):
TTAAGTCCAAATTCACCCTAAA
Found at i:11011554 original size:2 final size:2
Alignment explanation
Indices: 11011547--11011630 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
11011537 AGAAAATTTG
11011547 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
11011589 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
11011631 CTTTGTGAGT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11019895 original size:13 final size:14
Alignment explanation
Indices: 11019871--11019916 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
11019861 TTTTTTTCAA
11019871 AAAACCAAAAAAGGC
1 AAAA-CAAAAAAGGC
*
11019886 AAAA-AAAAAATGC
1 AAAACAAAAAAGGC
*
11019899 AAAACAAAAAAGCC
1 AAAACAAAAAAGGC
11019913 AAAA
1 AAAA
11019917 TATAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.44
14 11 0.41
15 4 0.15
ACGTcount: A:0.74, C:0.15, G:0.09, T:0.02
Consensus pattern (14 bp):
AAAACAAAAAAGGC
Found at i:11020475 original size:24 final size:24
Alignment explanation
Indices: 11020448--11020505 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
11020438 AGTGCTTTAG
11020448 GTTCTTTTGCTTTTCCTTCTTATT
1 GTTCTTTTGCTTTTCCTTCTTATT
* *
11020472 GTTCTTTTGGTTTTCGTTCTTATT
1 GTTCTTTTGCTTTTCCTTCTTATT
*
11020496 ATTCTTTTGC
1 GTTCTTTTGC
11020506 ATTATCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.17, G:0.12, T:0.66
Consensus pattern (24 bp):
GTTCTTTTGCTTTTCCTTCTTATT
Found at i:11032164 original size:2 final size:2
Alignment explanation
Indices: 11032157--11032185 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11032147 AACAAAATAG
11032157 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11032186 CGGGGTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11045733 original size:88 final size:88
Alignment explanation
Indices: 11045584--11045758 Score: 305
Period size: 88 Copynumber: 2.0 Consensus size: 88
11045574 TCTATTAAAG
* * *
11045584 GCTTAGCCATGAGTATACCTCAAAAGGGTCTCTAAACCTACTGATTGTATCTATTGTGCATTGTC
1 GCTTAGCCATGAGTACACCTCAAAAAGGTCTCTAAACCTACTGACTGTATCTATTGTGCATTGTC
*
11045649 TAAATGGCGTATTGACGCTCTTC
66 TAAATGGCGTATTGAAGCTCTTC
*
11045672 GCTTAGCCATGAGTACACGTCAAAAAGGTCTCTAAACCTACTGACTGTATCTATTGTGCATTGTC
1 GCTTAGCCATGAGTACACCTCAAAAAGGTCTCTAAACCTACTGACTGTATCTATTGTGCATTGTC
11045737 TAAATGGCGTATTGAAGCTCTT
66 TAAATGGCGTATTGAAGCTCTT
11045759 ATGCATTATC
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (88 bp):
GCTTAGCCATGAGTACACCTCAAAAAGGTCTCTAAACCTACTGACTGTATCTATTGTGCATTGTC
TAAATGGCGTATTGAAGCTCTTC
Done.