Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 77 of 226
Found at i:24497129 original size:120 final size:120
Alignment explanation
Indices: 24496986--24497283 Score: 476
Period size: 120 Copynumber: 2.5 Consensus size: 120
24496976 ATTTAATTAT
*
24496986 ATTTAAGCATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAA-CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
24497051 ATTAATATTCTTATATGAATTTACTTAAATCATAATATATGATACTGTAAAAT-ATAA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
24497108 A-TTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
24497172 TTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
24497227 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
24497284 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
119 7 0.04
120 152 0.92
121 6 0.04
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:24497156 original size:14 final size:15
Alignment explanation
Indices: 24497107--24497158 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24497097 GTAAAATATA
24497107 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24497122 TATTAAATATATTAT
1 AATTAAATATATTAT
24497137 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24497150 AATTTAATA
1 AATTAAATA
24497159 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24497376 original size:92 final size:92
Alignment explanation
Indices: 24497280--24497507 Score: 225
Period size: 92 Copynumber: 2.5 Consensus size: 92
24497270 GATTTAATAA
* * *
24497280 AATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAA
1 AATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA
*
24497342 TTATTACATATAATTTAATAATTAATATTG
64 -TATTAAATATAATTTAATAATTAATATTG
* * * * *
24497372 AATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
* *
24497437 TTAAATATAATTTAAT-AGTGATATAT-
66 TTAAATATAATTTAATAATTAATAT-TG
* ** *
24497463 AATTTCATAAAATTGTTAATAATAAAATGT-TCTTATATGAATTTA
1 AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
24497508 CTAAAATCAA
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
91 27 0.23
92 81 0.69
93 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATA
TTAAATATAATTTAATAATTAATATTG
Found at i:24539896 original size:90 final size:89
Alignment explanation
Indices: 24539802--24540030 Score: 361
Period size: 90 Copynumber: 2.6 Consensus size: 89
24539792 TACAGATTAA
* ** *
24539802 ATTAAATTTACAGATACAAAAAGGTACAAACATTCTAAGAAATTAATATACGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
* *
24539867 GAAACCTTAAATCCTAGACAACTAT
66 GAAA-CTTAAATCCTAAACAACTAC
* *
24539892 ATTAAATTTATAGATATAAAAAAATACAAATATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
24539957 GAAACTTAAATCCTAAACAACTAC
66 GAAACTTAAATCCTAAACAACTAC
24539981 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCT-AAGAAATTAATACA
24540031 ATTATTTTGA
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
89 59 0.46
90 69 0.54
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (89 bp):
ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACTTAAATCCTAAACAACTAC
Found at i:24540751 original size:102 final size:102
Alignment explanation
Indices: 24540620--24540813 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
24540610 TGGCCATCCA
* * *
24540620 AAATTTTTTTTGAATACACTGGTGTCGACCATCAGTGTTCCAAAAAAA-AAGCATTGGGAGCTAA
1 AAATTTTTTTTGAAAACACTGGTGCCGACCATCAGTGTTCCAAAAAAATAA-CATTGGGAGCCAA
24540684 AATTGTACTTGGTGCT-GTCTATTACATGACTAACAGTT
65 AATTGTACTTGGTGCTGGTC-ATTACATGACTAACAGTT
* * *
24540722 AAATTTTTTTTTAAAACACTGGTGCCGACCATCAGTGTTCCAAAAAAATTACATTGGGAGCCGAA
1 AAATTTTTTTTGAAAACACTGGTGCCGACCATCAGTGTTCCAAAAAAATAACATTGGGAGCCAAA
*
24540787 ATTGTACTTGGTGTTGGTCATTACATG
66 ATTGTACTTGGTGCTGGTCATTACATG
24540814 CCCGACACCC
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
102 79 0.95
103 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (102 bp):
AAATTTTTTTTGAAAACACTGGTGCCGACCATCAGTGTTCCAAAAAAATAACATTGGGAGCCAAA
ATTGTACTTGGTGCTGGTCATTACATGACTAACAGTT
Found at i:24546972 original size:3 final size:3
Alignment explanation
Indices: 24546964--24547004 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
24546954 AGGTGATCTT
24546964 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24547005 TATTTGTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24547787 original size:14 final size:14
Alignment explanation
Indices: 24547770--24547812 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24547760 ATTATTAAAA
*
24547770 TAAAATTATAGTAT
1 TAAAATTATATTAT
* *
24547784 T-AAATTTTTTTAT
1 TAAAATTATATTAT
24547797 TAAAATTATATTAT
1 TAAAATTATATTAT
24547811 TA
1 TA
24547813 GAGATTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TAAAATTATATTAT
Found at i:24549565 original size:20 final size:19
Alignment explanation
Indices: 24549540--24549586 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
24549530 ATTAATTATT
24549540 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
24549560 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
24549579 TA-AAAATT
1 TATAAAATT
24549587 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:24550756 original size:14 final size:17
Alignment explanation
Indices: 24550725--24550761 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
24550715 ATTATAAAGG
24550725 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
24550742 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
24550756 ATATTA
1 ATATTA
24550762 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:24550937 original size:14 final size:14
Alignment explanation
Indices: 24550911--24550961 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
24550901 GAAAACAAAA
24550911 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
24550925 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
24550939 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
24550954 G-AATAAAA
1 GAAATAAAA
24550962 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:24550972 original size:17 final size:16
Alignment explanation
Indices: 24550950--24550983 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24550940 AAGTTAAAAT
24550950 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
24550967 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
24550983 A
1 A
24550984 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:24551691 original size:3 final size:3
Alignment explanation
Indices: 24551677--24551711 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
24551667 GTGAGGTAAG
*
24551677 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24551712 AAATGAGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:24551852 original size:17 final size:18
Alignment explanation
Indices: 24551820--24551853 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24551810 AATTGAATGG
*
24551820 AAATGTATTGAGTTGTGA
1 AAATGTATTGAATTGTGA
24551838 AAATGTA-TGAATTGTG
1 AAATGTATTGAATTGTG
24551854 GATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (18 bp):
AAATGTATTGAATTGTGA
Found at i:24552124 original size:37 final size:39
Alignment explanation
Indices: 24552065--24552160 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
24552055 CGGATAGATT
* * * *
24552065 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
24552102 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
24552141 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
24552161 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:24559948 original size:20 final size:21
Alignment explanation
Indices: 24559923--24559999 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 21
24559913 ACTATCATAT
*
24559923 AATAATAGTATGATAAATAA-
1 AATAATAATATGATAAATAAC
*
24559943 AATAATAATATTATAAATAAC
1 AATAATAATATGATAAATAAC
* * *
24559964 AATAATATTATGA-ATAATGAT
1 AATAATAATATGATA-AATAAC
24559985 AATAATAA-ATGATAA
1 AATAATAATATGATAA
24560000 TACATTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 24 0.51
21 23 0.49
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (21 bp):
AATAATAATATGATAAATAAC
Found at i:24559988 original size:21 final size:18
Alignment explanation
Indices: 24559921--24560001 Score: 76
Period size: 18 Copynumber: 4.5 Consensus size: 18
24559911 AAACTATCAT
* *
24559921 ATAATAATAGTATGATAA
1 ATAATAATAATATTATAA
24559939 ATAAAATAATAATATTATAA
1 AT--AATAATAATATTATAA
* *
24559959 ATAACAATAATATTATGA
1 ATAATAATAATATTATAA
*
24559977 ATAATGATAATA--ATAA
1 ATAATAATAATATTATAA
*
24559993 ATGATAATA
1 ATAATAATA
24560002 CATTGAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.19
18 26 0.50
20 16 0.31
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAATAATAATATTATAA
Found at i:24564016 original size:20 final size:18
Alignment explanation
Indices: 24563978--24564016 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
24563968 ATTCAAACAT
*
24563978 ATCATATAACATTCTTAA
1 ATCATATAACATGCTTAA
24563996 ATCATATTAATCATGCTTAA
1 ATCATA-TAA-CATGCTTAA
24564016 A
1 A
24564017 CACACAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (18 bp):
ATCATATAACATGCTTAA
Found at i:24568145 original size:21 final size:21
Alignment explanation
Indices: 24568121--24568171 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
24568111 AGTTTCCCTC
24568121 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
24568142 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
24568163 TCTTGTAAT
1 TCTTGTAAT
24568172 ATAAAATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.53
Consensus pattern (21 bp):
TCTTGTAATTATCTAGTCATT
Found at i:24568473 original size:24 final size:24
Alignment explanation
Indices: 24568427--24568513 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 24
24568417 AAATTAAATC
* *
24568427 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTGCATATATCATATCT
*
24568450 TCTAAGATTGTATATATCATA---
1 TCTAAGATTGCATATATCATATCT
*
24568471 TCTAAGATTGCATATGTCATA---
1 TCTAAGATTGCATATATCATATCT
24568492 TCTAAGATTGC--ATATCATATCT
1 TCTAAGATTGCATATATCATATCT
24568514 AAGATTGTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.13
21 30 0.56
23 10 0.19
24 7 0.13
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (24 bp):
TCTAAGATTGCATATATCATATCT
Found at i:24568476 original size:21 final size:21
Alignment explanation
Indices: 24568450--24568525 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
24568440 AATCATATCT
24568450 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
* *
24568471 TCTAAGATTGCATATGTCATA
1 TCTAAGATTGTATATATCATA
*
24568492 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
24568511 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
24568526 CCTCGAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.35
21 31 0.65
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:24568485 original size:19 final size:19
Alignment explanation
Indices: 24568463--24568526 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
24568453 AAGATTGTAT
24568463 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
24568482 ATATGTCATATCTAAGATTGC
1 ATA--TCATATCTAAGATTGC
*
24568503 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
24568522 ATATC
1 ATATC
24568527 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:24568929 original size:44 final size:44
Alignment explanation
Indices: 24568838--24568950 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 44
24568828 TAATCCACTC
* * * *
24568838 CACTACAACTT-AGGGAGACAGGA-TTAGTTTATTTAGCCTGTCT
1 CACTGCAACTTCAGGGAGATAAGACTT-GTTTACTTAGCCTGTCT
*
24568881 CACTGCAACTTCA-GGAGGATAAGACTTGTTTACTTAGTCTG-CT
1 CACTGCAACTTCAGGGA-GATAAGACTTGTTTACTTAGCCTGTCT
24568924 CCACTGCAACTTCAGGGAGATAAGACT
1 -CACTGCAACTTCAGGGAGATAAGACT
24568951 AGACGCGATC
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
43 15 0.25
44 40 0.67
45 5 0.08
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACTTGTTTACTTAGCCTGTCT
Found at i:24569053 original size:44 final size:43
Alignment explanation
Indices: 24568918--24569295 Score: 186
Period size: 44 Copynumber: 8.8 Consensus size: 43
24568908 GTTTACTTAG
* * * *
24568918 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GACGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTCTAA
* * * ** * * * * *
24568959 TCAGCT-CTCTGTAACTTCAAAGAGATAAGATCCAAGGTTTTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTAA
* *
24569002 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTAA
* * *
24569046 TCTGCTCCACTACAACTTCAGGGAGATAAGATT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-TC-T-AA
* * * *
24569091 TCTAC-CTCACTGTAACTTCA-GGAGGATAAGACT-T-GCTTGCTGAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T-CT-AA
* * * *
24569135 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTA--GATGC-GA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCT-CTAA
** * * * * *
24569176 TCTGCT-CTTTGCAACTTCAGAGAGATAAGATCCAAGGCTTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTCTAA
* * * * * *
24569219 TCCGCTCCACTACAACTTCAAGGAGATAGGATTATCGACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTCTAA
*
24569263 TCTGCTCCACAGCAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
24569296 TGCCATCTTC
Statistics
Matches: 252, Mismatches: 65, Indels: 37
0.71 0.18 0.10
Matches are distributed among these distances:
40 42 0.17
41 13 0.05
42 3 0.01
43 23 0.09
44 141 0.56
45 30 0.12
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTCTAA
Found at i:24569202 original size:217 final size:217
Alignment explanation
Indices: 24568879--24569306 Score: 678
Period size: 217 Copynumber: 2.0 Consensus size: 217
24568869 TTTAGCCTGT
* *
24568879 CTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
* * *
24568944 TAAGACTAGACGCGATCAGCTCTCTGTAACTTCAAAGAGATAAGATCCAAGGTTTTGATCCGCTC
66 TAAGACTAGACGCGATCAGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGCTTTCATCCGCTC
* * *
24569009 CACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAATCTGCTCCACTA-CAACTTCAGGGAGAT
131 CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCAC-AGCAACTTCAGGGAGAT
24569073 AAGATTTGCCATCTTCAGTCTAC
195 AAGATTTGCCATCTTCAGTCTAC
* * * *
24569096 CTCACTGTAACTTCAGGAGGATAAGACTTGCTTGCTGAGTCTGCTCCATTGCAACTTTAGGGAGA
1 CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * *
24569161 TAAGATTAGATGCGATCTGCTCTTTGCAACTTCAGAGAGATAAGATCCAAGGCTTTCATCCGCTC
66 TAAGACTAGACGCGATCAGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGCTTTCATCCGCTC
*
24569226 CACTACAACTTCAAGGAGATAGGATTATCGACTTTAATCTGCTCCACAGCAACTTCAGGGAGATA
131 CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCACAGCAACTTCAGGGAGATA
24569291 AGATTTGCCATCTTCA
196 AGATTTGCCATCTTCA
24569307 ACCTACTCCA
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
216 1 0.01
217 191 0.99
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (217 bp):
CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTAGACGCGATCAGCTCTCTGCAACTTCAAAGAGATAAGATCCAAGGCTTTCATCCGCTC
CACTACAACTTCAAGGAGATAGGATTATCGACTCTAATCTGCTCCACAGCAACTTCAGGGAGATA
AGATTTGCCATCTTCAGTCTAC
Found at i:24569441 original size:132 final size:132
Alignment explanation
Indices: 24569282--24569865 Score: 905
Period size: 132 Copynumber: 4.5 Consensus size: 132
24569272 CAGCAACTTC
* * * * *
24569282 AGGGAGATAAGATTTGCCATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* * *
24569347 TTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCCCTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
24569412 TT
131 TT
*
24569414 AAGGG-GATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
1 -AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGG
*
24569478 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTG
65 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
24569543 CTT
130 CTT
* *
24569546 AGGGAGATAGGATCTACAA-C-T-----TACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* * *
24569604 TTAAATCTGCTTCTCACTATCTTGGAAAGATAAGATTTGCCTTCTTTGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
24569669 TT
131 TT
*
24569671 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
* * * *
24569736 TTAAATATTCTTCCCACTATCTTGAAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
24569801 TT
131 TT
* *
24569803 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTG
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
24569866 TTTCACTGAT
Statistics
Matches: 413, Mismatches: 30, Indels: 17
0.90 0.07 0.04
Matches are distributed among these distances:
125 116 0.28
126 1 0.00
127 1 0.00
130 1 0.00
131 5 0.01
132 285 0.69
133 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGC
TT
Found at i:24569668 original size:257 final size:257
Alignment explanation
Indices: 24569300--24569865 Score: 909
Period size: 257 Copynumber: 2.2 Consensus size: 257
24569290 AAGATTTGCC
* * * *
24569300 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
1 ATCTACAACTTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
*
24569365 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCCCTACTGCTTAAGGG-GATAAGATCT
66 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCT
* * *
24569429 ACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCC
130 ACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCC
* *
24569494 ACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAGG
195 ACTATCTTGAAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
*
24569557 ATCTACAACTTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGCTTAAATCTGCTTCTCACT
1 ATCTACAACTTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
*
24569622 ATCTTGGAAAGATAAGATTTGCCTTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
*
24569687 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATTCTTCCCA
131 CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
* *
24569752 CTATCTTGAAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
196 CTATCTTGAAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
*
24569814 ATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTG
1 ATCTACAA-CTT--A----CTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
24569866 TTTCACTGAT
Statistics
Matches: 284, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
256 4 0.01
257 245 0.86
258 3 0.01
260 1 0.00
264 31 0.11
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (257 bp):
ATCTACAACTTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCTCACT
ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAACGCTTGGTGGCTTAAATATGCTTCCCA
CTATCTTGAAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
Found at i:24571103 original size:6 final size:6
Alignment explanation
Indices: 24571090--24571160 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
24571080 CTCATTTTGC
*
24571090 TTTTCT TTTCCT TTTTC- -TTTCT TTTTC- TTTTCTT TCTTTCT TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T T-TTTCT TTTTCT
*
24571136 TTTTC- -TTTCT TTCTCT TTTT-T TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
24571161 TGAAAAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
4 8 0.15
5 15 0.28
6 24 0.44
7 3 0.06
8 4 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:24571122 original size:15 final size:15
Alignment explanation
Indices: 24571084--24571154 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
24571074 TGGCCTCTCA
*
24571084 TTTTGCTTTTCTTTTCC
1 TTTTTCTTTTC-TTT-C
*
24571101 TTTTTC-TTTCTTTT
1 TTTTTCTTTTCTTTC
24571115 TCTTTTC-TTTCTTTC
1 T-TTTTCTTTTCTTTC
24571130 TTTTTCTTTTCTTTC
1 TTTTTCTTTTCTTTC
*
24571145 TTTCTCTTTT
1 TTTTTCTTTT
24571155 TTTTTTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.12
15 33 0.69
16 4 0.08
17 5 0.10
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTTCTTTC
Found at i:24571127 original size:19 final size:19
Alignment explanation
Indices: 24571103--24571158 Score: 96
Period size: 19 Copynumber: 2.9 Consensus size: 19
24571093 TCTTTTCCTT
24571103 TTTCTTTCTTTTTCTTTTC
1 TTTCTTTCTTTTTCTTTTC
24571122 TTTCTTTCTTTTTCTTTTC
1 TTTCTTTCTTTTTCTTTTC
24571141 TTTCTTTCTCTTTT-TTTT
1 TTTCTTTCT-TTTTCTTTT
24571159 TTTGAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.89
20 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTCTTTCTTTTTCTTTTC
Found at i:24576440 original size:21 final size:22
Alignment explanation
Indices: 24576405--24576449 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
24576395 AGTTTCCCTC
24576405 TCTTGTAATTTATCTAGTCATT
1 TCTTGTAATTTATCTAGTCATT
24576427 TCTTGTAA-TTATCTAGTCATT
1 TCTTGTAATTTATCTAGTCATT
24576448 TC
1 TC
24576450 AAACCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (22 bp):
TCTTGTAATTTATCTAGTCATT
Found at i:24576986 original size:34 final size:34
Alignment explanation
Indices: 24576941--24577009 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
24576931 TAAAGGGCAG
*
24576941 AAGAAGTAGTTTTACAACATTTTTCTCTTTATCT
1 AAGAAGCAGTTTTACAACATTTTTCTCTTTATCT
*
24576975 AAGAAGCAGTTTTACAACATTTTTTTCTTTATCT
1 AAGAAGCAGTTTTACAACATTTTTCTCTTTATCT
24577009 A
1 A
24577010 TTGTTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.46
Consensus pattern (34 bp):
AAGAAGCAGTTTTACAACATTTTTCTCTTTATCT
Found at i:24581463 original size:19 final size:18
Alignment explanation
Indices: 24581436--24581482 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
24581426 ACGTATGCTC
*
24581436 TTCTCTTCTTCTTCTTTTT
1 TTCTTTTCTTCTTC-TTTT
*
24581455 TTCTTTTCTTTTTCTTTT
1 TTCTTTTCTTCTTCTTTT
24581473 TTCTTTTCTT
1 TTCTTTTCTT
24581483 GTTTTTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTTTTCTTCTTCTTTT
Found at i:24581465 original size:13 final size:14
Alignment explanation
Indices: 24581439--24581479 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
24581429 TATGCTCTTC
24581439 TCTTCTTCTTCTTTT
1 TCTTCTT-TTCTTTT
24581454 T-TTCTTTTCTTTT
1 TCTTCTTTTCTTTT
24581467 TCTT-TTTTCTTTT
1 TCTTCTTTTCTTTT
24581480 CTTGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 17 0.68
14 7 0.28
15 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TCTTCTTTTCTTTT
Found at i:24583729 original size:25 final size:25
Alignment explanation
Indices: 24583676--24583730 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24583666 TAATTAGTAT
* * *
24583676 AAAATATTAATAATTCAATAAATTG
1 AAAATATTAATAATTAAATAAAATC
24583701 AAAA-ATTAAATAATTAAATAAAATC
1 AAAATATT-AATAATTAAATAAAATC
24583726 AAAAT
1 AAAAT
24583731 GTAGGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATATTAATAATTAAATAAAATC
Found at i:24584489 original size:15 final size:15
Alignment explanation
Indices: 24584469--24584501 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24584459 AAAGTTGATA
24584469 ATAAT-AATATATATT
1 ATAATAAATATA-ATT
24584484 ATAATAAATATAATT
1 ATAATAAATATAATT
24584499 ATA
1 ATA
24584502 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:24590206 original size:71 final size:71
Alignment explanation
Indices: 24590056--24590256 Score: 219
Period size: 71 Copynumber: 2.8 Consensus size: 71
24590046 TGAACTTTAT
** * * *
24590056 TCGATGTTGCTCACTCAAGCTATTGAGAATCCACAAAATGTGTTGGATCTCAGCTATCGATAAGG
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAA-G
24590121 TATAATGC
65 -ATAATGC
* * * * *
24590129 -AG-TGTTGTTCACTCAAGCTATCAAGAATCCGCAACACATGTTGGATCTCAGCCATCGTTAA-A
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAAGA
24590191 TAATGAC
66 TAATG-C
* * * * *
24590198 TCGATGTTGCTCACTCAAGTTGTCAAGAATCCACAACTTAAGTTGTATCTCAGCCATCG
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCG
24590257 CAGGTCGCTA
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
68 6 0.06
69 1 0.01
70 1 0.01
71 97 0.92
72 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (71 bp):
TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACATATGTTGGATCTCAGCCATCGATAAGA
TAATGC
Found at i:24594445 original size:28 final size:28
Alignment explanation
Indices: 24594414--24594467 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
24594404 TTCTTTTGGT
* *
24594414 ATTTTTGCCTAAAATAATTTTTTTAACA
1 ATTTTTCCCTAAAATAATTCTTTTAACA
*
24594442 ATTTTTCCCTAAAATCATTCTTTTAA
1 ATTTTTCCCTAAAATAATTCTTTTAA
24594468 AAAATTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTTTTCCCTAAAATAATTCTTTTAACA
Found at i:24604131 original size:38 final size:39
Alignment explanation
Indices: 24604080--24604155 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
24604070 TTAACATCTT
*
24604080 TTTTTTCTTTATCTATTATTATAAA-TTCATTAAAACTA
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
*
24604118 TTTTTTCTTTATCTATTGTTATAAACATCATTAAAACT
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACT
24604156 TAAGGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 24 0.69
39 11 0.31
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
Found at i:24608220 original size:19 final size:19
Alignment explanation
Indices: 24608196--24608232 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24608186 ATTAAGAGAT
*
24608196 AAATAATAAAAATTTATGA
1 AAATAATAAAAAATTATGA
24608215 AAATAATAAAAAATTATG
1 AAATAATAAAAAATTATG
24608233 TAACGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATAATAAAAAATTATGA
Found at i:24612564 original size:21 final size:21
Alignment explanation
Indices: 24612540--24612581 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24612530 CCTTTTTGTT
24612540 AGGTCAACATGCCTTTCACAA
1 AGGTCAACATGCCTTTCACAA
24612561 AGGTCAACATGCCTTTCACAA
1 AGGTCAACATGCCTTTCACAA
24612582 CCCCCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (21 bp):
AGGTCAACATGCCTTTCACAA
Found at i:24618120 original size:7 final size:7
Alignment explanation
Indices: 24618108--24618146 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
24618098 TACATTGGAC
24618108 TTGGAAT
1 TTGGAAT
24618115 TTGGAAT
1 TTGGAAT
*
24618122 TTGGACT
1 TTGGAAT
*
24618129 TTGGATT
1 TTGGAAT
24618136 TTGG-AT
1 TTGGAAT
24618142 TTGGA
1 TTGGA
24618147 TTCTTTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.46
Consensus pattern (7 bp):
TTGGAAT
Found at i:24618127 original size:20 final size:20
Alignment explanation
Indices: 24618102--24618146 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
24618092 TTTTATTACA
24618102 TTGGAC-TTGGAATTTGGAAT
1 TTGGACTTTGGAATTTGG-AT
*
24618122 TTGGACTTTGGATTTTGGAT
1 TTGGACTTTGGAATTTGGAT
24618142 TTGGA
1 TTGGA
24618147 TTCTTTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGACTTTGGAATTTGGAT
Found at i:24621324 original size:19 final size:19
Alignment explanation
Indices: 24621300--24621338 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24621290 TAGGAAGAAA
24621300 TATGTTAGTCAGTGGTATC
1 TATGTTAGTCAGTGGTATC
*
24621319 TATGTTAGTTAGTGGTATC
1 TATGTTAGTCAGTGGTATC
24621338 T
1 T
24621339 CGAAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (19 bp):
TATGTTAGTCAGTGGTATC
Found at i:24631081 original size:25 final size:26
Alignment explanation
Indices: 24631046--24631099 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
24631036 AATAAAAGTG
24631046 CCTTCTCTTTTGCATCAACATATGAC
1 CCTTCTCTTTTGCATCAACATATGAC
24631072 CCTT-TCTTTTGCATCAACATATGAC
1 CCTTCTCTTTTGCATCAACATATGAC
24631097 CCT
1 CCT
24631100 GACTTTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.22, C:0.31, G:0.07, T:0.39
Consensus pattern (26 bp):
CCTTCTCTTTTGCATCAACATATGAC
Found at i:24631105 original size:25 final size:25
Alignment explanation
Indices: 24631052--24631105 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24631042 AGTGCCTTCT
**
24631052 CTTTTGCATCAACATATGACCCTTT
1 CTTTTGCATCAACATATGACCCTGA
24631077 CTTTTGCATCAACATATGACCCTGA
1 CTTTTGCATCAACATATGACCCTGA
24631102 CTTT
1 CTTT
24631106 GATAGCTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.09, T:0.39
Consensus pattern (25 bp):
CTTTTGCATCAACATATGACCCTGA
Found at i:24632335 original size:19 final size:19
Alignment explanation
Indices: 24632311--24632350 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24632301 ACCAAAATAA
* *
24632311 AACAAAAATGATAAGGCTT
1 AACAAAAATAATAAGACTT
24632330 AACAAAAATAATAAGACTT
1 AACAAAAATAATAAGACTT
24632349 AA
1 AA
24632351 AACTCTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (19 bp):
AACAAAAATAATAAGACTT
Found at i:24638179 original size:14 final size:13
Alignment explanation
Indices: 24638140--24638188 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
24638130 ACTAAAATTA
*
24638140 TTTAATTATTTTT
1 TTTAATTATTTAT
24638153 TATTAATT-TTTAT
1 T-TTAATTATTTAT
24638166 TTTAATTATCTTAT
1 TTTAATTAT-TTAT
*
24638180 TTTATTTAT
1 TTTAATTAT
24638189 AAATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 6 0.19
13 7 0.23
14 18 0.58
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTATTTAT
Found at i:24638557 original size:10 final size:10
Alignment explanation
Indices: 24638542--24638567 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24638532 CACATCTAAT
24638542 TGTGTAACTA
1 TGTGTAACTA
24638552 TGTGTAACTA
1 TGTGTAACTA
24638562 TGTGTA
1 TGTGTA
24638568 TACATTGACC
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:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (10 bp):
TGTGTAACTA
Found at i:24642641 original size:32 final size:32
Alignment explanation
Indices: 24642600--24642663 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
24642590 ACGCAATTAT
*
24642600 ATGCTAGTTTTCTCAACTTTAAAGATCTCCCA
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
*
24642632 ATGCTAGTTTTATCAATTTTAAAGATCTCCCA
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
24642664 TGTACATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (32 bp):
ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
Found at i:24646814 original size:34 final size:32
Alignment explanation
Indices: 24646766--24646848 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
24646756 AGAAACTATG
* * *
24646766 ATTTCTAACACATATTCTAAGTCTATATTG-ACCA
1 ATTTCTAACTCATATTCT-A-TATAT-TTGAACAA
*
24646800 ATTTCTAACTCATATTTCTATATGTTTGAACAA
1 ATTTCTAACTCATA-TTCTATATATTTGAACAA
24646833 ATTTCTAACTCATATT
1 ATTTCTAACTCATATT
24646849 TCGATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.12
33 20 0.47
34 14 0.33
35 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (32 bp):
ATTTCTAACTCATATTCTATATATTTGAACAA
Found at i:24647469 original size:18 final size:18
Alignment explanation
Indices: 24647438--24647485 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
24647428 TGTTGTTCGT
**
24647438 TTTCAAAATATTATTC-A
1 TTTCAAAACGTTATTCAA
*
24647455 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
24647474 TTTCAAAACGTT
1 TTTCAAAACGTT
24647486 TTCTTATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.44
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:24658206 original size:22 final size:22
Alignment explanation
Indices: 24658163--24658206 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24658153 CTATTTAGGG
*
24658163 TATCGAGATACTGTGGGATCGA
1 TATCGAGATACTGAGGGATCGA
*
24658185 TATCGCGATACTAGAGGG-TCGA
1 TATCGAGATACT-GAGGGATCGA
24658207 ATTGTGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (22 bp):
TATCGAGATACTGAGGGATCGA
Found at i:24664390 original size:19 final size:19
Alignment explanation
Indices: 24664366--24664404 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
24664356 AAAACCAAAT
24664366 TAACATAAATAATCTAAAA
1 TAACATAAATAATCTAAAA
*
24664385 TAACATAAATTATCTAAAA
1 TAACATAAATAATCTAAAA
24664404 T
1 T
24664405 TAAGACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
TAACATAAATAATCTAAAA
Found at i:24673265 original size:20 final size:20
Alignment explanation
Indices: 24673242--24673311 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
24673232 TCAAAAAGGG
24673242 AAATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
24673262 AAATAAATGAAATAA-ATAAGACATT
1 AAAT-AAT-AAA-AAGA-AA-AC-TT
*
24673287 -GATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
24673306 AAATAA
1 AAATAA
24673312 ATGAAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 2 0.05
20 10 0.25
21 7 0.17
22 8 0.20
23 7 0.17
24 4 0.10
25 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.21
Consensus pattern (20 bp):
AAATAATAAAAAGAAAACTT
Found at i:24673294 original size:44 final size:44
Alignment explanation
Indices: 24673244--24673332 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
24673234 AAAAAGGGAA
24673244 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
24673288 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
24673332 A
1 A
24673333 CATGATGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.22
Consensus pattern (44 bp):
ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
Found at i:24674530 original size:146 final size:146
Alignment explanation
Indices: 24674065--24674661 Score: 801
Period size: 146 Copynumber: 4.1 Consensus size: 146
24674055 CAAAGTTTTC
* * *
24674065 TTTAGAAAAATCACTACTTTTCTTAAAAATCAAAAATTTATTTCGAAATAGTTGAAAAAGATCAA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
* * * *
24674130 AATTTTGTTTTAAAATTTTAAACTTTTCATTTAAAATGACTAAAAATATATTTTTATTTTTAAAA
66 AATTTTGTTTTAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAAA
24674195 ATCTAAACTTTCTC-T
131 ATCTAAACTTTCTCTT
* * * *
24674210 TTTAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACATCAA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
**** *
24674275 AA-AAAATTTT--AAATTTAATA-TTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTTAAA
66 AATTTTGTTTTAAAAATTTAA-ACTTTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAA
24674336 AATCTAAACTTTCTCTT
130 AATCTAAACTTTCTCTT
* * *
24674353 TTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTGAAAAAGAT
1 TT--TAAAAA-AATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
*
24674418 CAAAATTTTGTTTTAAAAATTTAAACATTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTA
63 CAAAATTTTGTTTTAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTA
* *
24674483 AAAATATAAAATTTCTCTT
128 AAAATCTAAACTTTCTCTT
* * *
24674502 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGGAAAAGATTAA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
* * * * *
24674567 AACTTTGTTTTAAAAATGTAAGCCTTTCCTTTAAAATGATTAAAGAA-ATAGATTTTTATTTTTA
66 AATTTTGTTTTAAAAATTTAAACTTTTCCTTTAAAATGACTAAA-AACA-A-ATTTTTATTTTTA
24674631 AAAATCTAAACTTTCTCTTT
128 AAAATCTAAACTTTCTC-TT
24674651 TTTGAAAAAAA
1 TTT-AAAAAAA
24674662 AATCAAAACT
Statistics
Matches: 397, Mismatches: 41, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
142 61 0.15
143 4 0.01
144 4 0.01
145 66 0.17
146 145 0.37
147 12 0.03
148 29 0.07
149 69 0.17
150 7 0.02
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (146 bp):
TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
AATTTTGTTTTAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAAA
ATCTAAACTTTCTCTT
Found at i:24674624 original size:291 final size:289
Alignment explanation
Indices: 24674073--24674651 Score: 791
Period size: 291 Copynumber: 2.0 Consensus size: 289
24674063 TCTTTAGAAA
24674073 AATCACTACTTTTCTTAAAAATCAAAAATTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGT
1 AATCACTACTTTTCTTAAAAATCAAAAATTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGT
* * * * * *
24674138 TTTAAAATTTTAAACTTTTCATTTAAAATGACTAAAAATATATTTTTATTTTTAAAAATCTAAAC
66 TTTAAAAATTTAAACATTTCATTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATATAAAA
* * *
24674203 TTTCTCTTTTAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAA
131 TTTCTCTTTTAAAAAAATCACTATTTTTATTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAA
* * * *
24674268 ACATCAAAAAAAATTTTAAATTTAATATTTTCCTTTAAAATGACTAAAAACATATTTTTATTTTT
196 ACATCAAAAAAAATTTTAAATGTAAGACTTTCCTTTAAAATGACTAAAAACATA--TGTATTTTT
24674333 AAAAATCTAAACTTTCTCTTTTAAAAAAAAT
259 AAAAATCTAAACTTTCTCTTTTAAAAAAAAT
* ** *
24674364 AATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTGAAAAAGATCAAAATTTTGT
1 AATCACTACTTTTCTTAAAAATCAAAAATTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGT
*
24674429 TTTAAAAATTTAAACATTTCCTTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATATAAAA
66 TTTAAAAATTTAAACATTTCATTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATATAAAA
* *
24674494 TTTCTCTTTTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGGAA
131 TTTCTC-TTTTAAAAAAATCACTATTTTTATTAAAAATCAAAACTTTATTTCAAAATAGTTGAAA
* * **** * * *
24674559 AAGATTAAAACTTTGTTTTAAAAATGTAAGCCTTTCCTTTAAAATGATTAAAGAA-ATAGATTTT
195 AACATCAAAA-AAAATTTT--AAATGTAAGACTTTCCTTTAAAATGACTAAA-AACAT--A--TG
24674623 TATTTTTAAAAATCTAAACTTTCTCTTTT
252 TATTTTTAAAAATCTAAACTTTCTCTTTT
24674652 TTGAAAAAAA
Statistics
Matches: 254, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
291 125 0.49
292 61 0.24
293 4 0.02
295 28 0.11
296 2 0.01
297 34 0.13
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (289 bp):
AATCACTACTTTTCTTAAAAATCAAAAATTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGT
TTTAAAAATTTAAACATTTCATTTAAAATGACTAAAAACAAATTTTTATTTTTAAAAATATAAAA
TTTCTCTTTTAAAAAAATCACTATTTTTATTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAA
ACATCAAAAAAAATTTTAAATGTAAGACTTTCCTTTAAAATGACTAAAAACATATGTATTTTTAA
AAATCTAAACTTTCTCTTTTAAAAAAAAT
Found at i:24674985 original size:3 final size:3
Alignment explanation
Indices: 24674979--24675057 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
24674969 TAAAGAAAAA
* * * * *
24674979 AAT AAT AAT GAT ATTT AAT AAT AAT AAT AAT AAT AAT AGT AGT AGT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
24675025 AGT AGT AGT AGT AGT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24675058 TTGGGCCTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
3 65 0.97
4 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:24675589 original size:42 final size:42
Alignment explanation
Indices: 24675516--24675683 Score: 228
Period size: 42 Copynumber: 4.0 Consensus size: 42
24675506 ATATACACTA
* * *
24675516 CAATTAAAAGTAAATGGACCTCCACATCTGGGCTTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * *
24675558 CACTGAAAGGTAAGTGGACCTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
24675600 CAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* **
24675642 CAATGAAAAGTAAGTGGACCTCCACATTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
24675684 TAATCAATGC
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:24676092 original size:2 final size:2
Alignment explanation
Indices: 24676085--24676158 Score: 130
Period size: 2 Copynumber: 37.0 Consensus size: 2
24676075 CTTTCTCCTG
24676085 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
24676127 CT CT CT CT CT CT CT CT CT TT CT GT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24676159 TTCTTTGTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.00, C:0.47, G:0.01, T:0.51
Consensus pattern (2 bp):
CT
Found at i:24676187 original size:10 final size:10
Alignment explanation
Indices: 24676172--24676201 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24676162 TTTGTTGTTG
24676172 TTTTTTATTT
1 TTTTTTATTT
*
24676182 TTTTTTGTTT
1 TTTTTTATTT
24676192 TTTTTTATTT
1 TTTTTTATTT
24676202 AGGAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:24677523 original size:18 final size:18
Alignment explanation
Indices: 24677500--24677538 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
24677490 ACCAGAGAAA
24677500 GGTTTCTTCACCACATAC
1 GGTTTCTTCACCACATAC
24677518 GGTTTCTTCACCACATAC
1 GGTTTCTTCACCACATAC
24677536 GGT
1 GGT
24677539 CCCTCTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (18 bp):
GGTTTCTTCACCACATAC
Found at i:24687124 original size:16 final size:15
Alignment explanation
Indices: 24687105--24687142 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
24687095 CGTTCTCCTC
24687105 TTTCTTTTTCTTTTGT
1 TTTCTTTTTCTTTT-T
*
24687121 TTTCTTTTTGTTTTT
1 TTTCTTTTTCTTTTT
24687136 TTTCTTT
1 TTTCTTT
24687143 CCTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTCTTTTTCTTTTT
Found at i:24691773 original size:149 final size:150
Alignment explanation
Indices: 24691613--24691917 Score: 461
Period size: 149 Copynumber: 2.0 Consensus size: 150
24691603 AAAATCAAAA
* * * * * *
24691613 TTTTCTTTAAAAAATCACTACTTTTGTTAAAATTCAGAGCTTTATTTCGAAATAGTTGAAAATGA
1 TTTTTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAGGA
* *
24691678 TCAAAACTTTGTTTT-AGAATTTTAAAC-TTTTCCATTAAAATGACTAAAAATCATATTTTTATT
66 TCAAAACTTTGTTTTGA-AAATTTAAACTTTTTCCATTAAAATGACTAAAAAACATATTTTTATT
* *
24691741 TTTAAAAATCTAAACTTTCTT
130 TTCAAAAATCTAAACTTTCTC
*
24691762 TTTTTTTTAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAGGA
1 TTTTTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAGGA
* **
24691827 TCAATACTTTGTTTTGAAAATTTAAACTTTTTCTTTTAAAATGACTAAAAAACATATTTTTATTT
66 TCAAAACTTTGTTTTGAAAATTTAAACTTTTTCCATTAAAATGACTAAAAAACATATTTTTATTT
24691892 TCAAAAATCTAAACTTTCTC
131 TCAAAAATCTAAACTTTCTC
24691912 TTTTTT
1 TTTTTT
24691918 GAATAAAATG
Statistics
Matches: 140, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
149 81 0.58
150 59 0.42
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (150 bp):
TTTTTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAGGA
TCAAAACTTTGTTTTGAAAATTTAAACTTTTTCCATTAAAATGACTAAAAAACATATTTTTATTT
TCAAAAATCTAAACTTTCTC
Found at i:24706759 original size:13 final size:13
Alignment explanation
Indices: 24706741--24706766 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24706731 ACATTAAACT
24706741 TCTCATGTTGCAA
1 TCTCATGTTGCAA
24706754 TCTCATGTTGCAA
1 TCTCATGTTGCAA
24706767 CACAGCGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TCTCATGTTGCAA
Found at i:24709283 original size:35 final size:35
Alignment explanation
Indices: 24709228--24709298 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
24709218 ATATACAACA
24709228 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
* *
24709263 AAATTGATTATCTATTTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
24709298 A
1 A
24709299 TCTATTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (35 bp):
AAATCGATTATCTATGTTAAATTTTATAAATTAAT
Found at i:24721417 original size:10 final size:10
Alignment explanation
Indices: 24721404--24721503 Score: 75
Period size: 10 Copynumber: 10.4 Consensus size: 10
24721394 AAATTAGAAA
24721404 AAAAATATAT
1 AAAAATATAT
*
24721414 AAAAAT-CAT
1 AAAAATATAT
24721423 AAAAA-ATAT
1 AAAAATATAT
*
24721432 AAAAAT-TGT
1 AAAAATATAT
** *
24721441 AAATTTTTAT
1 AAAAATATAT
* *
24721451 AAAAAAAAAT
1 AAAAATATAT
24721461 AAAAATAT-T
1 AAAAATATAT
24721470 ATAAAATATAT
1 A-AAAATATAT
*
24721481 AGAAATATA-
1 AAAAATATAT
*
24721490 AAAAATTTAT
1 AAAAATATAT
24721500 AAAA
1 AAAA
24721504 TTTTATAAAG
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
9 29 0.43
10 37 0.54
11 2 0.03
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:24721479 original size:28 final size:28
Alignment explanation
Indices: 24721448--24721504 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
24721438 TGTAAATTTT
24721448 TATAAAAAAAAAT-AAAAATATTATAAAA
1 TATAAAAAAAAATAAAAAAT-TTATAAAA
* * *
24721476 TATATAGAAATATAAAAAATTTATAAAA
1 TATAAAAAAAAATAAAAAATTTATAAAA
24721504 T
1 T
24721505 TTTATAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
TATAAAAAAAAATAAAAAATTTATAAAA
Found at i:24722054 original size:20 final size:21
Alignment explanation
Indices: 24722029--24722070 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24722019 ATAAAATAAT
*
24722029 AAATTA-TATTAAATTCAAAA
1 AAATTATTATAAAATTCAAAA
*
24722049 AAATTATTATAAAATTTAAAA
1 AAATTATTATAAAATTCAAAA
24722070 A
1 A
24722071 TATAAAATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATTATTATAAAATTCAAAA
Found at i:24726755 original size:20 final size:20
Alignment explanation
Indices: 24726714--24726789 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
24726704 TGCCATACAA
* **
24726714 AGGCACCATAGTGCAATTAG
1 AGGCACCAAAGTGCAAACAG
* * * *
24726734 AGACACGAAAGTGTATACAG
1 AGGCACCAAAGTGCAAACAG
24726754 AGGCACCAAAGTGCAAACAG
1 AGGCACCAAAGTGCAAACAG
24726774 AGGCACCAAAGTGCAA
1 AGGCACCAAAGTGCAA
24726790 GTCCCGTACA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAG
Found at i:24726785 original size:40 final size:40
Alignment explanation
Indices: 24726708--24726786 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
24726698 ATCAAATGCC
* ** *
24726708 ATACAAAGGCACCATAGTGCAATTAGAGACACGAAAGTGT
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
* *
24726748 ATACAGAGGCACCAAAGTGCAAACAGAGGCACCAAAGTG
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTG
24726787 CAAGTCCCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (40 bp):
ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
Found at i:24727295 original size:21 final size:21
Alignment explanation
Indices: 24727271--24727322 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
24727261 AACATTTAAA
24727271 TTTACATTTTTGA-CCTAAACT
1 TTTACATTTTT-ACCCTAAACT
**
24727292 TTTACACATTTACCCTAAACT
1 TTTACATTTTTACCCTAAACT
24727313 TTTACATTTT
1 TTTACATTTT
24727323 ATCCAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTACATTTTTACCCTAAACT
Found at i:24727992 original size:8 final size:9
Alignment explanation
Indices: 24727972--24728000 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
24727962 AACAATTAAA
24727972 TTTTATGAT
1 TTTTATGAT
24727981 TTTTATGAT
1 TTTTATGAT
24727990 TTTTATGAT
1 TTTTATGAT
24727999 TT
1 TT
24728001 AGTCCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (9 bp):
TTTTATGAT
Found at i:24734224 original size:23 final size:23
Alignment explanation
Indices: 24734198--24734243 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
24734188 ACCTGGCTAT
24734198 CGTAACATTTTTCATCTATGGTC
1 CGTAACATTTTTCATCTATGGTC
* *
24734221 CGTAGCTTTTTTCATCTATGGTC
1 CGTAACATTTTTCATCTATGGTC
24734244 TTACACCGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (23 bp):
CGTAACATTTTTCATCTATGGTC
Found at i:24734467 original size:31 final size:32
Alignment explanation
Indices: 24734416--24734481 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
24734406 TGGTCTTACG
* *
24734416 CCATATACCGTCGTCATAGCAAGTACTTTATA
1 CCATATACCGTCATCATAGCAAGTAATTTATA
24734448 CCATATA-CGTCATCATAGCAAGTAATTTATA
1 CCATATACCGTCATCATAGCAAGTAATTTATA
24734479 CCA
1 CCA
24734482 GACTATCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (32 bp):
CCATATACCGTCATCATAGCAAGTAATTTATA
Found at i:24738485 original size:16 final size:16
Alignment explanation
Indices: 24738464--24738505 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
24738454 TTTTTATATG
*
24738464 TTATTTTAAATTTTTT
1 TTATTTTAAATTTGTT
*
24738480 TTATTTTTAATTTGTT
1 TTATTTTAAATTTGTT
24738496 TTATTTTAAA
1 TTATTTTAAA
24738506 ATTTCTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTAAATTTGTT
Found at i:24738516 original size:17 final size:16
Alignment explanation
Indices: 24738464--24738516 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
24738454 TTTTTATATG
*
24738464 TTATTTTAAATTTTTT
1 TTATTTTAAATTTCTT
* *
24738480 TTATTTTTAATTTGTT
1 TTATTTTAAATTTCTT
*
24738496 TTATTTTAAAATTTCTC
1 TTATTTT-AAATTTCTT
24738513 TTAT
1 TTAT
24738517 ATATATTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
16 21 0.68
17 10 0.32
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTTTAAATTTCTT
Found at i:24738573 original size:26 final size:26
Alignment explanation
Indices: 24738544--24738631 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
24738534 TTTTTTTTAA
*
24738544 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
24738570 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
24738597 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
24738623 TTATTTTAA
1 TTATTTTAA
24738632 AATTATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:24738628 original size:16 final size:15
Alignment explanation
Indices: 24738602--24738642 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
24738592 TTATTTTATT
24738602 TTAAGTTATTTTATAAA
1 TTAA-TTATTTTA-AAA
24738619 TTAATTATTTTAAAA
1 TTAATTATTTTAAAA
24738634 TTATATTAT
1 TTA-ATTAT
24738643 ACTATTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTAATTATTTTAAAA
Found at i:24739235 original size:17 final size:18
Alignment explanation
Indices: 24739197--24739240 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
24739187 ATTATTGCTC
* *
24739197 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
24739215 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
24739232 TTATTTGTA
1 TTATTTGTA
24739241 GCTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:24746795 original size:44 final size:44
Alignment explanation
Indices: 24746727--24747170 Score: 202
Period size: 44 Copynumber: 9.8 Consensus size: 44
24746717 ACCAACGCCA
* *
24746727 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* ** **
24746771 AATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATT-AAAATGAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACT
* * * * * * *
24746815 AATCCTATAC-CTCTGAAGTTGCAGTAGTTCGGATCAAATT-CACCAAAGCC
1 AATCCTAT-CTCCCTGAAGTTGC---AG-T-GGAGCAGATTGAAGC-TA-CT
* *
24746865 AATCCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * ** *
24746910 AATCCTATCTCTCTGAAATTGTAGTGGAGCGGATT-AAAATAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * * *
24746953 GAATCCTATAC-CTCTGAAGTTACAGTAGG-TCGGATTAAATCTACCAT
1 -AATCCTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA-C-T
* * * * *
24747000 AACAAGTCTTATATCCTTGAAGTTGCAGTGGAGAAGATTGAAGCCAC-
1 ---AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * * * * *
24747047 CAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGGAGATACC
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* *
24747092 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * *
24747136 AAACCTA-CTTCCCTGAGGATGCTGTGGAGTAGATT
1 AATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATT
24747171 AAAACAATGA
Statistics
Matches: 293, Mismatches: 81, Indels: 52
0.69 0.19 0.12
Matches are distributed among these distances:
43 9 0.03
44 192 0.66
45 16 0.05
46 8 0.03
47 6 0.02
48 3 0.01
49 14 0.05
50 31 0.11
51 14 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
Found at i:24746855 original size:139 final size:137
Alignment explanation
Indices: 24746593--24747077 Score: 577
Period size: 139 Copynumber: 3.5 Consensus size: 137
24746583 ATATCAAACT
* * * * * *
24746593 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCTTGAAGTTGCAAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGT
* * *
24746658 GTGAG-GATTAAAATGACAAATCCTATACCTCTAAAGTTGCAGTAGGTCGGACCAAATTCACCAA
66 G-GAGCGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
24746722 CGCCAAATC
130 -GCCAAATC
*
24746731 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGT
*
24746796 GGAGCTGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGTTCGGATCAAATTCACCAA
66 GGAGC-GATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACC-A
24746861 AGCC-AATCC
129 AGCCAAAT-C
* * * * *
24746870 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACTAATCCTATCTCTCTGAAATTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGT
* * *
24746935 GGAGCGGATTAAAAT-AATGAATCCTATACCTCTGAAGTTACAGTAGGTCGGATTAAA-TCTACC
66 GGAGC-GATTAAAATGAA-AAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTC-ACC
* *
24746998 ATA-ACAAGTC
128 A-AGCCAAATC
* * * * * * * *
24747008 TTATATCCTTGAAGTTGCAGTGGAGAAGATTGAAGCCAC-CAGCCTTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCC-TATCTCCCTGAAGTTGCAG
24747072 TGGAGC
65 TGGAGC
24747078 AGGTTGGAGA
Statistics
Matches: 304, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
137 6 0.02
138 125 0.41
139 171 0.56
140 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (137 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGT
GGAGCGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAAG
CCAAATC
Found at i:24746943 original size:95 final size:94
Alignment explanation
Indices: 24746771--24746943 Score: 217
Period size: 95 Copynumber: 1.8 Consensus size: 94
24746761 TGAAGCTACT
*
24746771 AATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAATGAAAAATCCTATACCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAATGAAAAATCCTATACCTCTGAAATTG
**
24746836 CAGTAGTTCGGATCAAATTCACCAAAGCC
66 CAGTAGAGCGGATCAAATTCACCAAAGCC
* **
24746865 AATCCTTATCTCCCTGAAGTTGCAGTGGAG-TAGATTAAAGCT-ACTAATCCTAT-CTCTCTGAA
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCT-GATTAAA-ATGAAAAATCCTATAC-CTCTGAA
* *
24746927 ATTGTAGTGGAGCGGAT
62 ATTGCAGTAGAGCGGAT
24746944 TAAAATAATG
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
94 7 0.10
95 59 0.88
96 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (94 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAATGAAAAATCCTATACCTCTGAAATTG
CAGTAGAGCGGATCAAATTCACCAAAGCC
Found at i:24747428 original size:20 final size:20
Alignment explanation
Indices: 24747403--24747440 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24747393 CAAATATAAA
*
24747403 AGTCCAAATAAAATAACACC
1 AGTCCAAATAAAAAAACACC
24747423 AGTCCAAATAAAAAAACA
1 AGTCCAAATAAAAAAACA
24747441 AATAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.21, G:0.05, T:0.13
Consensus pattern (20 bp):
AGTCCAAATAAAAAAACACC
Found at i:24747473 original size:21 final size:18
Alignment explanation
Indices: 24747449--24747495 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
24747439 CAAATAACTA
24747449 AAACCCAAGTCCAAACATAAT
1 AAACCCAA--CCAAA-ATAAT
*
24747470 AAACCTAACCAAAATAAT
1 AAACCCAACCAAAATAAT
24747488 AAACCCAA
1 AAACCCAA
24747496 ATGGCCCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.50
19 5 0.21
21 7 0.29
ACGTcount: A:0.57, C:0.28, G:0.02, T:0.13
Consensus pattern (18 bp):
AAACCCAACCAAAATAAT
Found at i:24749109 original size:16 final size:17
Alignment explanation
Indices: 24749088--24749133 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
24749078 TTTTTATATG
24749088 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
24749104 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
24749120 TTATTTTAAAATTT
1 TTATTTTAAAATTT
24749134 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:24749175 original size:21 final size:22
Alignment explanation
Indices: 24749151--24749244 Score: 50
Period size: 21 Copynumber: 4.2 Consensus size: 22
24749141 ATATATTACA
24749151 TTAAACTTT-TATATGATTATT
1 TTAAACTTTCTATATGATTATT
* * * *
24749172 TTAACTTGCTTTGTAAATTATTTATT
1 TTAA---ACTTTCTATATGA-TTATT
* * **
24749198 TTAAAATTTCTCTTAT-ATTACA
1 TTAAACTTTCT-ATATGATTATT
24749220 TTAAACTTT-TATATGATTATT
1 TTAAACTTTCTATATGATTATT
24749241 TTAA
1 TTAA
24749245 CTTGCTTTGT
Statistics
Matches: 52, Mismatches: 14, Indels: 14
0.65 0.17 0.17
Matches are distributed among these distances:
20 3 0.06
21 13 0.25
22 11 0.21
23 5 0.10
24 6 0.12
25 5 0.10
26 9 0.17
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.55
Consensus pattern (22 bp):
TTAAACTTTCTATATGATTATT
Found at i:24749231 original size:69 final size:71
Alignment explanation
Indices: 24749119--24749265 Score: 262
Period size: 69 Copynumber: 2.1 Consensus size: 71
24749109 TTTAATTTGT
24749119 TTTATTTTAAAATTTCTCTTATATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
1 TTTATTTTAAAATTTCTC-T-TATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTT
24749184 GTAAATTA
64 GTAAATTA
24749192 TTTATTTTAAAATTTCTC-T-TATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTTGT
1 TTTATTTTAAAATTTCTCTTATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTTGT
24749255 AAATTA
66 AAATTA
24749261 TTTAT
1 TTTAT
24749266 GTTGAGTTGC
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
69 55 0.74
70 1 0.01
73 18 0.24
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (71 bp):
TTTATTTTAAAATTTCTCTTATATATTACATTAAACTTTTATATGATTATTTTAACTTGCTTTGT
AAATTA
Found at i:24749265 original size:26 final size:26
Alignment explanation
Indices: 24749236--24749323 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
24749226 TTTTATATGA
*
24749236 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* * *
24749262 TTATGTTGAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
24749289 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
24749315 TTATTTTAA
1 TTATTTTAA
24749324 AATTATCCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 30 0.60
27 20 0.40
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:24749326 original size:15 final size:17
Alignment explanation
Indices: 24749294--24749328 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
24749284 TTATTTTATT
24749294 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
24749311 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
24749326 TTA
1 TTA
24749329 TCCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:24749495 original size:13 final size:13
Alignment explanation
Indices: 24749479--24749512 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
24749469 AAAATTTTTA
24749479 TATATATTATTAT
1 TATATATTATTAT
24749492 TATATATTATTAT
1 TATATATTATTAT
24749505 T-TATATTA
1 TATATATTA
24749513 AAATTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:24749929 original size:18 final size:17
Alignment explanation
Indices: 24749902--24749946 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
24749892 GATTATTAGT
* *
24749902 CTTATGTGTATTGTATTG
1 CTTATTTGTATT-TATTA
24749920 CTTATTTGTATTTATTA
1 CTTATTTGTATTTATTA
*
24749937 ATTATTTGTA
1 CTTATTTGTA
24749947 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (17 bp):
CTTATTTGTATTTATTA
Found at i:24752726 original size:27 final size:27
Alignment explanation
Indices: 24752662--24752726 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
24752652 AATTTAAATT
*
24752662 TATTATTATATTTTTTGAAAATATTTA
1 TATTATTATATATTTTGAAAATATTTA
24752689 TATATACTTATATATTTT-AAATATATATTA
1 TAT-TA-TTATATATTTTGAAA-ATAT-TTA
24752719 T-TTATTAT
1 TATTATTAT
24752727 CAACAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 7 0.21
28 7 0.21
29 15 0.45
30 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTATTATATATTTTGAAAATATTTA
Found at i:24756104 original size:12 final size:11
Alignment explanation
Indices: 24756087--24756141 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 11
24756077 AATTAAAAAG
24756087 ATAATAATGATA
1 ATAATAAT-ATA
*
24756099 ATAATACTACTA
1 ATAATAATA-TA
24756111 ATAATAATATGA
1 ATAATAATAT-A
24756123 ATAATAA-ATA
1 ATAATAATATA
24756133 ATAAATAAT
1 AT-AATAAT
24756142 CTAGAGTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 9 0.24
12 25 0.68
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (11 bp):
ATAATAATATA
Found at i:24756174 original size:18 final size:18
Alignment explanation
Indices: 24756153--24756187 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24756143 TAGAGTTTGA
*
24756153 AAATATATAAAAAGATAC
1 AAATAAATAAAAAGATAC
*
24756171 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
24756188 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAC
Found at i:24757828 original size:44 final size:42
Alignment explanation
Indices: 24757752--24757894 Score: 124
Period size: 44 Copynumber: 3.3 Consensus size: 42
24757742 ACTTGTAGCT
** * * *
24757752 TTAATCTATTCCACTACAACTTTTGGGAGATAATATTAATATC
1 TTAATCTGCTCCACTACATCTTTAGGGAGATAA-ATTAATAAC
*
24757795 TTCAATCTGCTCCACTACATCTTTAGGGGGATAAGATTAATAAC
1 TT-AATCTGCTCCACTACATCTTTAGGGAGATAA-ATTAATAAC
* ** * * *
24757839 TTTATCCTGCTCCACTGTATCTTCAGGGAGATAAAGTTTATAGC
1 TTAAT-CTGCTCCACTACATCTTTAGGGAGATAAA-TTAATAAC
24757883 TTTAATCTGCTC
1 -TTAATCTGCTC
24757895 TACTGCAGCT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
43 5 0.06
44 72 0.89
45 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (42 bp):
TTAATCTGCTCCACTACATCTTTAGGGAGATAAATTAATAAC
Found at i:24757907 original size:44 final size:44
Alignment explanation
Indices: 24757776--24757961 Score: 135
Period size: 44 Copynumber: 4.2 Consensus size: 44
24757766 TACAACTTTT
* * * *
24757776 GGGAGATAATA-TTAATATCTTCAATCTGCTCCACTACATCTTTA
1 GGGAGATAA-AGTTAATAACTTTAATCTGCTCCACTGCATCTTCA
* *
24757820 GGGGGAT-AAGATTAATAACTTT-ATCCTGCTCCACTGTATCTTCA
1 GGGAGATAAAG-TTAATAACTTTAAT-CTGCTCCACTGCATCTTCA
* * * *
24757864 GGGAGATAAAGTTTATAGCTTTAATCTGCTCTACTGCAGCTTCA
1 GGGAGATAAAGTTAATAACTTTAATCTGCTCCACTGCATCTTCA
* * ** ** * * * *
24757908 GAGAGATAAGATTTGCTCTCTTCAGTCTGCTCCACTGCAACTTTA
1 GGGAGATAA-AGTTAATAACTTTAATCTGCTCCACTGCATCTTCA
24757953 GGGAGATAA
1 GGGAGATAA
24757962 GATTTGTTAT
Statistics
Matches: 112, Mismatches: 24, Indels: 11
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 70 0.62
45 38 0.34
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
GGGAGATAAAGTTAATAACTTTAATCTGCTCCACTGCATCTTCA
Found at i:24758871 original size:50 final size:50
Alignment explanation
Indices: 24758749--24758989 Score: 257
Period size: 50 Copynumber: 4.7 Consensus size: 50
24758739 AAAGAGATCT
* *
24758749 CATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--AAGA-C--GAGAGGTCC
* * *
24758805 TATGTAAGACCATGTCTGGGACACGGCGTTGGCACCAAGACGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACGAGAGGTCC
* * *
24758855 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACGAGAGGTCC
* * * * * * **
24758905 CCTATAAGACCATGCCTGGGACATGGCATGGGCACCAACATGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACGAG-AGGTCC
* *
24758956 CATGTAAGACCATGTCTAGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
24758990 TGTTATTATC
Statistics
Matches: 160, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
50 92 0.57
51 32 0.20
52 1 0.01
53 3 0.02
55 2 0.01
56 30 0.19
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACGAGAGGTCC
Found at i:24758939 original size:100 final size:104
Alignment explanation
Indices: 24758749--24758990 Score: 294
Period size: 100 Copynumber: 2.3 Consensus size: 104
24758739 AAAGAGATCT
* * *
24758749 CATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTGAGATCATGAGAGGTCCTATGTAAGA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCATATAAGA
* * * * **
24758814 CCATGTCTGGGACACGGCGTTGGCACCAAGACGAG-AGGTCC
63 CCATGCCTGGGACACGGCATGGGCACCAACACGAGAACATCC
* *
24758855 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTATAAGACCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATATAAGACCA
* *
24758917 TGCCTGGGACATGGCATGGGCACCAACATGAGAACATCC
66 TGCCTGGGACACGGCATGGGCACCAACACGAGAACATCC
* *
24758956 CATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCAT
24758991 GTTATTATCA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
100 46 0.39
101 36 0.30
103 3 0.03
105 2 0.02
106 32 0.27
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATATAAGACCA
TGCCTGGGACACGGCATGGGCACCAACACGAGAACATCC
Found at i:24760427 original size:44 final size:44
Alignment explanation
Indices: 24760330--24761032 Score: 455
Period size: 44 Copynumber: 15.6 Consensus size: 44
24760320 TTTAATATGT
* * *
24760330 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGC
* *
24760375 TCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* * *
24760419 TCCACTGCAACTTTAGGGAGATAA-AGTT-T-ACTAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACT-TCAATCTGC
* * * * * *
24760460 TCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTGCAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTA-A-CTTCAATCTGC
* * * * * *
24760511 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCTATCTTTAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGC
* *
24760556 TCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* * *
24760600 TCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* *
24760644 TCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* * * *
24760688 -CCACTGCAACTTTAGGGAGATAAGATTTACAACTTGTAGCTTCAATTTGT
1 TCCACTGCAACTTCAGGGAGATAAG-------ACTTGTAACTTCAATCTGC
** * * * * *
24760738 TCCGTTGCAACTTCAGGGAAATAAAATTCACTGT--CTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA--C-TTGTAACTTCAATCTGC
* * *
24760783 TCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* * *
24760827 TACACTGCAACTTTAGGGAGATAAG-GTT-T-A-TT-ATGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCA--ATCTGC
* * * * * *
24760868 TCTACTGCAACTTTAGAGAGATAAGATCTATTATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA-C---T-TGTA-A-CTTCAATCTGC
* * * * **
24760919 TCCATTGCAACTTCAAGGAAATAAGA-TTCGCTATCTTCAGGCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAATCTGC
* * *
24760964 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
* *
24761008 TTCACTGCAACATCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
24761033 GTTTGATATG
Statistics
Matches: 513, Mismatches: 99, Indels: 93
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 57 0.11
42 7 0.01
43 28 0.05
44 189 0.37
45 117 0.23
46 8 0.02
47 10 0.02
48 2 0.00
50 17 0.03
51 72 0.14
52 2 0.00
53 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGC
Found at i:24760603 original size:181 final size:181
Alignment explanation
Indices: 24760299--24760624 Score: 580
Period size: 181 Copynumber: 1.8 Consensus size: 181
24760289 GGGGTGTTAC
**
24760299 ATAAGATCTATAATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 ATAAGATCTATAATTTATAGCTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
*
24760364 CTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAA
66 CTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAA
*
24760429 CTTTAGGGAGATAAAGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAG
131 CTTCAGGGAGATAAAGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAG
*
24760480 ATAAGATCTATAATTTATAGCTGCAATATGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTAT
1 ATAAGATCTATAATTTATAGCTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * *
24760545 CTTTAGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAA
66 CTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAA
24760610 CTTCAGGGAGATAAA
131 CTTCAGGGAGATAAA
24760625 ACTTGTAACT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
181 137 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
ATAAGATCTATAATTTATAGCTGCAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
CTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAAGTTTACTATGATCTGCTCTACTGCAACTTCAGAGAG
Found at i:24760804 original size:227 final size:225
Alignment explanation
Indices: 24760330--24760850 Score: 670
Period size: 227 Copynumber: 2.3 Consensus size: 225
24760320 TTTAATATGT
* * ** *
24760330 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAA
1 TCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGA
* * * * * *
24760394 GATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTG
64 GATAAAACTTGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAACTTTACTATAACCTG
* * *
24760459 CTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTGCAATATGTTCCACTGCAACTT
129 CTCCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGCAATATGTTCCACTGCAACTT
* * * *
24760524 TAGGGAAATAAGATTCGCTATCTTTAGTCTAC
194 CAGGGAAATAAAATTCACTATCTTCAGTCTAC
*
24760556 TCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
*
24760621 TAAAACTTGTAACTTCAACCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACT-TCAACC
66 TAAAACTTGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAA-ACTT-T-ACTAT-AACC
* * * * * * **
24760685 TGC-CCACTGCAACTTTAGGGAGATAAGATTTACAACTTGTAGCTTCAATTTGTTCCGTTGCAAC
127 TGCTCCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGCAATATGTTCCACTGCAAC
*
24760749 TTCAGGGAAATAAAATTCACTGTCTTCAGTCTAC
192 TTCAGGGAAATAAAATTCACTATCTTCAGTCTAC
* * * *
24760783 TCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
24760848 TAA
66 TAA
24760851 GGTTTATTAT
Statistics
Matches: 256, Mismatches: 34, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
225 74 0.29
226 28 0.11
227 146 0.57
228 8 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (225 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
TAAAACTTGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAACTTTACTATAACCTGCT
CCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGCAATATGTTCCACTGCAACTTCA
GGGAAATAAAATTCACTATCTTCAGTCTAC
Found at i:24760958 original size:181 final size:182
Alignment explanation
Indices: 24760599--24761112 Score: 651
Period size: 181 Copynumber: 2.8 Consensus size: 182
24760589 CTTCAACCTG
* * *
24760599 CTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTACTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTACACTGCAACTTCAGGGAG
* * * * * * *
24760664 ATAAGACTTGTAACTTCA--ACCTGC-CCACTGCAACTTTAGGGAGATAAGATTTACAACTTGTA
66 ATAAG-GTT-TAA-TT-ATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATA
* * * *
24760726 GCTTCAATTTGTTCCGTTGCAACTTCAGGGAAATAAAATTCACTGTCTTCAGTCTA
127 GCTTCAATTTGTTCCATTGCAACTTCAAGGAAATAAAATTCACTATCTTCAGGCTA
* * * *
24760782 CTCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGCTACACTGCAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTACACTGCAACTTCAGGGAG
**
24760847 ATAAGGTTT-ATTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATTATTTATAGCTT
66 ATAAGGTTTAATTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGCTT
* * * * *
24760911 TAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGGCTG
131 CAATTTGTTCCATTGCAACTTCAAGGAAATAAAATTCACTATCTTCAGGCTA
* * *
24760963 CTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTTCACTGCAACATCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTACACTGCAACTTCAGGGAG
* * * *
24761028 ATAAGGTTTGA-TATGATCTACTCTATTGCAACTTTAGAGAGATAAGATCTAGAATTTATAGCTT
66 ATAAGGTTTAATTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGCTT
* *
24761092 CAATTTGTTCCACTACAACTT
131 CAATTTGTTCCATTGCAACTT
24761113 TAGGGAGATA
Statistics
Matches: 287, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
178 1 0.00
179 2 0.01
180 6 0.02
181 212 0.74
182 3 0.01
183 63 0.22
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (182 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTACACTGCAACTTCAGGGAG
ATAAGGTTTAATTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGCTT
CAATTTGTTCCATTGCAACTTCAAGGAAATAAAATTCACTATCTTCAGGCTA
Found at i:24764771 original size:3 final size:3
Alignment explanation
Indices: 24764756--24764805 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
24764746 AATTAAAAAG
* *
24764756 ATA ATA ATG ATA ATA ATA ATA TTA ATA ATA AT- ATGA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA
24764802 ATA A
1 ATA A
24764806 ACAATCTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:24764773 original size:12 final size:11
Alignment explanation
Indices: 24764756--24764805 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
24764746 AATTAAAAAG
24764756 ATAATAATGATA
1 ATAATAAT-ATA
24764768 ATAATAATATTA
1 ATAATAATA-TA
24764780 ATAATAATATGA
1 ATAATAATAT-A
24764792 ATAATAA-ATA
1 ATAATAATATA
24764802 ATAA
1 ATAA
24764806 ACAATCTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 27 0.75
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (11 bp):
ATAATAATATA
Found at i:24764849 original size:18 final size:18
Alignment explanation
Indices: 24764822--24764856 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24764812 TAGAGTTTGA
*
24764822 AAATATATAAAAAGATAC
1 AAATAAATAAAAAGATAC
*
24764840 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
24764857 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAC
Found at i:24768201 original size:53 final size:52
Alignment explanation
Indices: 24768143--24768283 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
24768133 TTTTGTATAT
*
24768143 TGGTGCCGGCCATTGACAGGCCAGCACCTGAAAAAAAAAATTT-CC-CGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCA-C--AAAAAAAAAATTTCCCTCGTAAAGG
* *
24768196 TGGTGCCGGCCATTGACAGGCCACCACAAAATAAAAATTTCCCTCGTACAGG
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAAATTTCCCTCGTAAAGG
* *
24768248 TGGTACCGGCTATTGACAGGCCACCACAAAAAAAAA
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAA
24768284 TTTAATTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
50 12 0.15
51 2 0.03
52 41 0.51
53 25 0.31
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAAATTTCCCTCGTAAAGG
Found at i:24768635 original size:112 final size:111
Alignment explanation
Indices: 24768315--24768840 Score: 563
Period size: 113 Copynumber: 4.7 Consensus size: 111
24768305 TGTCGACCTG
* * * *
24768315 TTTTTTTCTCGTAAAGGTGGTGTCAGCCATTCACAGGCCACCACCAAAAAATAAAAATATTTTTT
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCA-C-AAAAA-AAAATTA-TTTTT
* *
24768380 TAATTTTTTCGTATACTGGTGCCGACCATTGACAGGCCAGCACCCAAAAT
62 TAATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAT
* * * *
24768430 TTTTTTTTCCGTAAAGGTGGTGTCAGTCATAGACAGGCCACCACAAAAAAAAATTATTTTTTAAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTT--A
* * *
24768495 ATTTTTTCGTATATTGGTGCCAGCCATTGACAGGCTAGCACCCGAAAT
64 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAT
* * *
24768543 TTTTTTTCCCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATTAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTT-TTAA
* *
24768608 TTTTTTCGTATACTGGTGCCGGCCATTGACAGACCAGCACCCGAAAAA
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCG-AAAT
**** * * *
24768656 AAAATTTCCCTGTAAAGGTGGTGCCGACCATTGACAGGCCACCAC------TAATT-TTTTTTAA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTAA
* * *
24768714 TTTTTTCGTATACTAGTGCCTGCCATTGACAGGCCAGCACCTGAAATTT
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAA--T
* * * * *
24768763 TTTTTTTCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGC-----CAAATTTTTTTTTAAT
1 TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTAAT
*
24768823 TTTTTCTTATACTGGTGC
66 TTTTTCGTATACTGGTGC
24768841 GTGCTGGCCA
Statistics
Matches: 356, Mismatches: 46, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
105 3 0.01
106 73 0.21
107 13 0.04
108 29 0.08
111 6 0.02
112 47 0.13
113 111 0.31
114 36 0.10
115 38 0.11
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (111 bp):
TTTTTTTCCCGTAAAGGTGGTGTCGGCCATTGACAGGCCACCACAAAAAAAAATTATTTTTTAAT
TTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCGAAAT
Found at i:24769016 original size:53 final size:52
Alignment explanation
Indices: 24768899--24769045 Score: 208
Period size: 53 Copynumber: 2.8 Consensus size: 52
24768889 TTTCGTATAT
* * * *
24768899 TGGTGCCGGCCATTAACAGGCTAGCACCCGAAAATTTTTTTTCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAATTTTTTTTTCTCGTAAAGG
**
24768951 TGGTGCTAGCCATTGACAGGCCAGCACCCGAAATTTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAATTTTT-TTTTCTCGTAAAGG
*
24769004 TGGTGCCGGCCATTGACTGGCCAGCA-CC-AAATTTTTTTTTCT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAATTTTTTTTTCT
24769046 TTTTTTTTGG
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 6 0.07
51 8 0.09
52 35 0.41
53 36 0.42
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCGAAATTTTTTTTTCTCGTAAAGG
Found at i:24772210 original size:30 final size:31
Alignment explanation
Indices: 24772165--24772224 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
24772155 AGAGGTGAGA
* *
24772165 TGGGAAGGGAATAAAAGTTTTAGGTGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
24772196 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
24772225 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:24773949 original size:91 final size:91
Alignment explanation
Indices: 24773759--24773965 Score: 245
Period size: 91 Copynumber: 2.3 Consensus size: 91
24773749 GACACTATAG
* * ** * * * *
24773759 TTTGTGGATGAACCACTAGTGTTTGTTGGTTAATATATTGCCAGTAGGTTGTGAATGCACATCGT
1 TTTGTGGATGAACCACCAATGTTTGTAAGTTAATACACTGCCAGTAGGTTGTGAATGCACAACAT
* *
24773824 ATTTGCATATAAAAGCTGTCTATAAG
66 ATTTGCAGATAAAAGCTGTCTATAAA
* ** *
24773850 TTTATGGATGAACTGCCAATGTTTGTAAGTTAATACACTGCTAGTAGGTTGTGAATGCACAACAT
1 TTTGTGGATGAACCACCAATGTTTGTAAGTTAATACACTGCCAGTAGGTTGTGAATGCACAACAT
*
24773915 ATTTGCAGATAAAAGTTGT-TACTAAA
66 ATTTGCAGATAAAAGCTGTCTA-TAAA
* *
24773941 TTTGTGGATAAACCACCAGTGTTTG
1 TTTGTGGATGAACCACCAATGTTTG
24773966 CAGTTCATTA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
90 2 0.02
91 93 0.98
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.36
Consensus pattern (91 bp):
TTTGTGGATGAACCACCAATGTTTGTAAGTTAATACACTGCCAGTAGGTTGTGAATGCACAACAT
ATTTGCAGATAAAAGCTGTCTATAAA
Found at i:24774104 original size:38 final size:39
Alignment explanation
Indices: 24774057--24774161 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 39
24774047 GTATATAAAT
* * *
24774057 AGTAAACATGCTTAACATGTATTCGGTT-TAACAGTAAC
1 AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
* *
24774095 AGTAGACATGCTTATCATGTATTC-ATTCCAACAATAAC
1 AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
* * * *
24774133 AATAGGCATGTTTAATATGTATTCGGTTC
1 AGTAGACATGCTTAACATGTATTCGGTTC
24774162 AATAGTTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
37 2 0.04
38 49 0.91
39 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (39 bp):
AGTAGACATGCTTAACATGTATTCGGTTCCAACAATAAC
Found at i:24779329 original size:57 final size:57
Alignment explanation
Indices: 24779175--24779340 Score: 154
Period size: 57 Copynumber: 2.9 Consensus size: 57
24779165 ATTTGACAAT
* * * *
24779175 TTTAGGTACCAAATTGGACAGAAAAAGCTTAGGTCCCAAATTATA-AAAAAGTGTCAAG
1 TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAA--ATAGAAAAAGTGTAAAA
* * * * * * * * *
24779233 TTCAAGTGCCACATTGAACCCCAAAAAAGCTTAGCTACCAAAATAGGAAAATTGTAAAA
1 TTTAGGTACCAAATTGGA--CAAAAAAAGCTTAGGTACCAAAATAGAAAAAGTGTAAAA
* *
24779292 TTTAGGTACCATATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAA
1 TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAAATAGAAAAA
24779341 AATGTCAAGA
Statistics
Matches: 83, Mismatches: 22, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
57 27 0.33
58 16 0.19
59 22 0.27
60 18 0.22
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (57 bp):
TTTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAAATAGAAAAAGTGTAAAA
Found at i:24782249 original size:11 final size:11
Alignment explanation
Indices: 24782235--24782277 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
24782225 AATATAATAG
*
24782235 CAAAATAACAA
1 CAAAACAACAA
* *
24782246 CAAAACAATAT
1 CAAAACAACAA
*
24782257 CAAAATAACAA
1 CAAAACAACAA
24782268 CAAAACAACA
1 CAAAACAACA
24782278 GTGAAAATTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (11 bp):
CAAAACAACAA
Found at i:24782255 original size:22 final size:22
Alignment explanation
Indices: 24782230--24782275 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
24782220 GTAGTAATAT
24782230 AATAGCAAAATAACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
*
24782252 AATATCAAAATAACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
24782274 AA
1 AA
24782276 CAGTGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.70, C:0.17, G:0.02, T:0.11
Consensus pattern (22 bp):
AATAGCAAAATAACAACAAAAC
Found at i:24783327 original size:28 final size:28
Alignment explanation
Indices: 24783278--24783388 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 28
24783268 TTTGACAAAT
* *
24783278 TTAGGTACC-AAATTGAACAAAAAAAAGC
1 TTAGGTACCAAAATAGGA-AAAAAAAAGC
* *
24783306 TTAGCTACCAAAATAGGAAAAATTGTAAAA-T
1 TTAGGTACCAAAATAGGAAAAA----AAAAGC
*
24783337 TTAGGTACC-AAATTGGACAAAAAAAAGC
1 TTAGGTACCAAAATAGGA-AAAAAAAAGC
*
24783365 TTAGGTACCAAATTA-GAAAAAAAA
1 TTAGGTACCAAAATAGGAAAAAAAA
24783389 TGCCAAAATT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
27 11 0.17
28 23 0.35
29 9 0.14
30 7 0.11
31 12 0.18
32 4 0.06
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (28 bp):
TTAGGTACCAAAATAGGAAAAAAAAAGC
Found at i:24783346 original size:59 final size:59
Alignment explanation
Indices: 24783274--24783386 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
24783264 GATATTTGAC
*
24783274 AAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGTA
1 AAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGAAAAAATTGTA
* * *
24783333 AAATTTAGGTACCAAATTGGACAAAAAAAAGCTTAGGTACCAAATTAGAAAAAA
1 AAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGAAAAAA
24783387 AATGCCAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (59 bp):
AAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGAAAAAATTGTA
Found at i:24784754 original size:92 final size:92
Alignment explanation
Indices: 24784572--24784764 Score: 232
Period size: 92 Copynumber: 2.1 Consensus size: 92
24784562 TGAACTTCTC
* *
24784572 TGAACTTCTTATTAGCAAGATTATTCGGCAACTGCTGGTTGCTACTATTCAATTGCTTTTTTTTC
1 TGAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTACTATTCAATTGCTTTTTTTTC
* *
24784637 GGCATTGCTCCGAACTTCTTCTTTTTT
66 AGCATTGATCCGAACTTCTTCTTTTTT
* * *
24784664 TGAACTTCTTACTAACAAGATT-TCTTGGCAACTGTTGGTTGCTGCTATTCAATTG-TTGTTTTT
1 TGAACTTCTTACTAACAAGATTAT-TCGGCAACTGCTGGTTGCTACTATTCAATTGCTT-TTTTT
* *
24784727 CTCAGTACTT-ATCTGAACTTCTT-TTTTTT
64 -TCAGCA-TTGATCCGAACTTCTTCTTTTTT
*
24784756 TTAACTTCT
1 TGAACTTCT
24784765 CTAAACTTCT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
91 3 0.03
92 67 0.77
93 15 0.17
94 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (92 bp):
TGAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTACTATTCAATTGCTTTTTTTTC
AGCATTGATCCGAACTTCTTCTTTTTT
Found at i:24786936 original size:30 final size:31
Alignment explanation
Indices: 24786897--24786956 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24786887 GGAGGTGGGA
*
24786897 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
24786928 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
24786957 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:24788343 original size:18 final size:19
Alignment explanation
Indices: 24788312--24788349 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
24788302 TCTTATATAT
*
24788312 ATAATTTATCTAAAAGTAA
1 ATAATTTATATAAAAGTAA
*
24788331 ATAA-TTATATAAAATTAA
1 ATAATTTATATAAAAGTAA
24788349 A
1 A
24788350 AAAATAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAATTTATATAAAAGTAA
Done.