Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 105 of 230
Found at i:30029856 original size:27 final size:27
Alignment explanation
Indices: 30029824--30030001 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 27
30029814 ACACTCTAGA
*
30029824 AAAAGGAAGCCTTTGAGGCGATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* *
30029851 AAAAGGAAG-TTGTTGTGGTGATCTATG
1 AAAAGGAAGCCT-TTGTGGCGATCTATG
*
30029878 AAAAGGAAGCCTTTGTGGCGATCTATT
1 AAAAGGAAGCCTTTGTGGCGATCTATG
* *
30029905 AAAAGGAAGCTTTTGTGGCAATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
** ** * *
30029932 AAAAAATAAAGAATTTATGGCGATCTATT
1 --AAAAGGAAGCCTTTGTGGCGATCTATG
** * * *
30029961 AAAAATAAACCTTTATGGCGGTCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
*
30029988 AAAATGAAGCCTTT
1 AAAAGGAAGCCTTT
30030002 ATGGAAAACC
Statistics
Matches: 121, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 99 0.82
28 1 0.01
29 20 0.17
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:30032902 original size:26 final size:26
Alignment explanation
Indices: 30032844--30032902 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
30032834 TTTACCAAGT
*
30032844 GTAAAATCATCAAAAATTTACTGTGG
1 GTAAAATCATCAAAAAATTACTGTGG
* *
30032870 GTTAAATCATCAAAAAATTATTG-GAG
1 GTAAAATCATCAAAAAATTACTGTG-G
30032896 GTAAAAT
1 GTAAAAT
30032903 AGGGATGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (26 bp):
GTAAAATCATCAAAAAATTACTGTGG
Found at i:30041413 original size:22 final size:23
Alignment explanation
Indices: 30041385--30041429 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
30041375 CTTTCGAGCT
*
30041385 ATAAAAATAATAA-AATATTTTA
1 ATAAAAATAATAATAAAATTTTA
*
30041407 ATAAAAATACTAATAAAATTTTA
1 ATAAAAATAATAATAAAATTTTA
30041430 GTTTTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAAATAATAATAAAATTTTA
Found at i:30041528 original size:29 final size:28
Alignment explanation
Indices: 30041487--30041541 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
30041477 AAGGCCGGTT
30041487 TTTTTTAAAATTTACCGAAATGGGCCGG
1 TTTTTTAAAATTTACCGAAATGGGCCGG
* * *
30041515 TTTTTTAATTATTTACCGGACTGGGCC
1 TTTTTTAA-AATTTACCGAAATGGGCC
30041542 ATTTCTCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (28 bp):
TTTTTTAAAATTTACCGAAATGGGCCGG
Found at i:30043053 original size:44 final size:44
Alignment explanation
Indices: 30042990--30043077 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
30042980 TTCAAACTGG
*
30042990 AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
1 AGATAAGTGACATTGTAAGAACATTTACATTGCGAAAAAGACAA
30043034 AGATAAGTGACATTGTAAGAACATTTACATTGCGAAAAAGACAA
1 AGATAAGTGACATTGTAAGAACATTTACATTGCGAAAAAGACAA
30043078 CTTACTTCAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (44 bp):
AGATAAGTGACATTGTAAGAACATTTACATTGCGAAAAAGACAA
Found at i:30044658 original size:68 final size:69
Alignment explanation
Indices: 30044577--30044711 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
30044567 TTTTAATAGT
* * *
30044577 TTAATATTAAATTTAATTTAATACTTATATTAAT-AATATTTTATTAATTTAAAATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
30044641 TATC
66 TATC
* * * **
30044645 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTATTATTAAAGCGAT
1 TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
30044710 TA
66 TA
30044712 AGTTTAATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 30 0.52
69 28 0.48
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
TATC
Found at i:30045258 original size:24 final size:24
Alignment explanation
Indices: 30045209--30045263 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
30045199 TAAAGTAGGT
* *
30045209 TATA-TATTATTTTTATAATATTA
1 TATATTATAATTTTTATAATATCA
30045232 TATATTATAATTTTTATTAAT-TCA
1 TATATTATAATTTTTA-TAATATCA
*
30045256 TATTTTAT
1 TATATTAT
30045264 TAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTATAATTTTTATAATATCA
Found at i:30045309 original size:15 final size:15
Alignment explanation
Indices: 30045284--30045337 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30045274 ATTAAGAATG
* *
30045284 TTATTAAATTATATA
1 TTATTTAATTAAATA
* *
30045299 TTATTTTATTAAATT
1 TTATTTAATTAAATA
30045314 TTATTTAATTAAA-A
1 TTATTTAATTAAATA
30045328 TTTATTTAAT
1 -TTATTTAAT
30045338 AATAATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTTAATTAAATA
Found at i:30045351 original size:15 final size:16
Alignment explanation
Indices: 30045299--30045349 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
30045289 AAATTATATA
*
30045299 TTATTTTATT-AAATT
1 TTATTTAATTAAAATT
30045314 TTATTTAATTAAAA-T
1 TTATTTAATTAAAATT
30045329 TTATTTAA-TAATAATT
1 TTATTTAATTAA-AATT
30045345 TTATT
1 TTATT
30045350 AAAATTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 3 0.09
15 20 0.62
16 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTAATTAAAATT
Found at i:30050784 original size:33 final size:35
Alignment explanation
Indices: 30050747--30050843 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
30050737 ATGGTTATAT
30050747 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
30050780 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
30050815 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
30050844 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:30053747 original size:16 final size:16
Alignment explanation
Indices: 30053726--30053756 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30053716 TTCACTATTA
*
30053726 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
30053742 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
30053757 ACATACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:30055506 original size:204 final size:203
Alignment explanation
Indices: 30055156--30055569 Score: 720
Period size: 204 Copynumber: 2.0 Consensus size: 203
30055146 TACTAGGGAA
* *
30055156 TTTGATTTCAGATTAACCATTACAGAAATAATATTATTTTAATCTTTTAATATTAAATTTAATGT
1 TTTGATTTCAGATTAACCATTACAAAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
* **
30055221 AATACTTATTTTAATAGTATTTTATTAATTTAATATTAAAGTTTTTATCTTAATATTAAATTTAA
66 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAGTGATTATCTTAATATTAAATTTAA
30055286 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
131 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
30055351 ATTATTTAT
196 ATTATTT-T
* * *
30055360 TTTGATTTTAGATTAACTATTACAAAAATAATCTTATTTTAATATTTTAATATTAAATTTAATGT
1 TTTGATTTCAGATTAACCATTACAAAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
30055425 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAGTGATTATCTTAATATTAAATTTAA
66 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAGTGATTATCTTAATATTAAATTTAA
* *
30055490 TTTAATGTTTATCTTGTAGATAAATATTATATTATTTTAATAAGATTTAATATTAAATTTAATCT
131 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
30055555 ATTATTTT
196 ATTATTTT
30055563 TCTTGAT
1 T-TTGAT
30055570 AAATATTATA
Statistics
Matches: 199, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
203 2 0.01
204 197 0.99
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (203 bp):
TTTGATTTCAGATTAACCATTACAAAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAGTGATTATCTTAATATTAAATTTAA
TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
ATTATTTT
Found at i:30055589 original size:59 final size:62
Alignment explanation
Indices: 30055474--30055590 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
30055464 AGTGATTATC
* * *
30055474 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
* *
30055536 TTAATATTAAATTTAATCTATTATTTTTC-T-T-GATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
30055591 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
60 1 0.02
61 1 0.02
62 25 0.50
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:30057301 original size:18 final size:18
Alignment explanation
Indices: 30057278--30057319 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
30057268 TTGTTTTCTT
30057278 AAAAACAGTTAATTTTAG
1 AAAAACAGTTAATTTTAG
** *
30057296 AAAAACAGTTGTTTTTAT
1 AAAAACAGTTAATTTTAG
30057314 AAAAAC
1 AAAAAC
30057320 CGTTTTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (18 bp):
AAAAACAGTTAATTTTAG
Found at i:30060336 original size:49 final size:50
Alignment explanation
Indices: 30060251--30060349 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 50
30060241 CGTCCATCCA
* * * *
30060251 AAACACCATTTGTGGCCAAGCCACCACTGATATGCAGATATACTGCCACTG
1 AAACACCA-TTGTGGACAACCCACCACTAATATGCAGATAAACTGCCACTG
* *
30060302 AAACACC-TTGTGGACAACCCACTACTAATTTGCAGATAAACTGCCACT
1 AAACACCATTGTGGACAACCCACCACTAATATGCAGATAAACTGCCACT
30060350 TACTTCCACC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 35 0.83
51 7 0.17
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (50 bp):
AAACACCATTGTGGACAACCCACCACTAATATGCAGATAAACTGCCACTG
Found at i:30064081 original size:13 final size:13
Alignment explanation
Indices: 30064063--30064087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30064053 GGATGAGCAT
30064063 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
30064076 TTTTTTTTCTTT
1 TTTTTTTTCTTT
30064088 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:30070392 original size:6 final size:6
Alignment explanation
Indices: 30070383--30070409 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30070373 AAAAAGAAAA
30070383 AGGGTT AGGGTT AGGGTT AGGGTT AGG
1 AGGGTT AGGGTT AGGGTT AGGGTT AGG
30070410 TGTAAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.52, T:0.30
Consensus pattern (6 bp):
AGGGTT
Found at i:30071966 original size:22 final size:22
Alignment explanation
Indices: 30071925--30071966 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
30071915 CAGATAAAAC
*
30071925 AATTAAAATAAATAACTAAGAT
1 AATTAAAATAAACAACTAAGAT
30071947 AATTAAAATAGAACAA-TAAG
1 AATTAAAATA-AACAACTAAG
30071967 GAAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
AATTAAAATAAACAACTAAGAT
Found at i:30087693 original size:41 final size:43
Alignment explanation
Indices: 30087593--30087741 Score: 124
Period size: 44 Copynumber: 3.5 Consensus size: 43
30087583 CCACTAATCC
*
30087593 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAGTAACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATT-AAGCAACAGATCT
* * * * *
30087637 TATCTCACTGAAGTTGCAGTAGAGTGGA-T-CGCATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAGCAACAGATCT
* ** * * * * *
30087678 TATCTCCCTGTAGTTGCAGCGGAGCAGACTAAGTAAGCAGGTAT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAGCAA-CAGATCT
30087722 TATC-CCTCTGAAGTTGCAGT
1 TATCTCC-CTGAAGTTGCAGT
30087742 GGGACAGATC
Statistics
Matches: 83, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 30 0.36
42 1 0.01
43 5 0.06
44 47 0.57
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAGCAACAGATCT
Found at i:30091952 original size:40 final size:41
Alignment explanation
Indices: 30091894--30092044 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 41
30091884 ATGTGAATGA
* * *
30091894 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
30091934 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
30091975 -ATCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
30092015 G-CCCGGGTTAAGACCCGAAGGCAATTGTGC
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGC
30092045 TTGTGGTAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
40 93 0.95
41 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (41 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:30092057 original size:80 final size:79
Alignment explanation
Indices: 30091895--30092064 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 79
30091885 TGTGAATGAG
* * * * * *
30091895 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTGATCCGGGCTAAGACCCGAAGGCATT
1 ATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTGATATGACCCGGGCTAAGACCCGAAGGCAAT
*
30091960 TGTGCGAGTTGATAT
65 TGTGCGAGTGGATAT
* *
30091975 ATCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATG-CCCGGGTTAAGACCCGAAGGCAA
1 ATCCG-GCTAAGACCCGAAGGCATTCGTGCGAG-TGATATGACCCGGGCTAAGACCCGAAGGCAA
**
30092039 TTGTGCTTGTGG-TAAT
64 TTGTGCGAGTGGAT-AT
30092055 ATCCGGCTAA
1 ATCCGGCTAA
30092065 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
79 7 0.09
80 64 0.84
81 5 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
ATCCGGCTAAGACCCGAAGGCATTCGTGCGAGTGATATGACCCGGGCTAAGACCCGAAGGCAATT
GTGCGAGTGGATAT
Found at i:30097439 original size:12 final size:12
Alignment explanation
Indices: 30097422--30097451 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30097412 TCAGTGAGTT
30097422 ACACGGCCTAAC
1 ACACGGCCTAAC
*
30097434 ACACGGCCTAGC
1 ACACGGCCTAAC
30097446 ACACGG
1 ACACGG
30097452 GCATGTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:30101417 original size:174 final size:174
Alignment explanation
Indices: 30101127--30101482 Score: 631
Period size: 174 Copynumber: 2.0 Consensus size: 174
30101117 CTCAATCTAA
* *
30101127 AAAAGAATAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTATGCAGAACCCCTT
1 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
*
30101192 CAATTGAACAATGAACAATGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
66 CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
* * *
30101257 AAAAGAAAACCAAAAGTGAAAAAAAAACAGTAACTAGAACCTAG
131 AAAAGAAAACCAAAAGCGAAAAAAAAACAGTAACCAAAACCTAG
30101301 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
1 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
*
30101366 CAATTGAATAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
66 CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
* *
30101431 GAAAGAAAACCAAAAGCGAAAAAAAAATAGTAACCAAAACCTAG
131 AAAAGAAAACCAAAAGCGAAAAAAAAACAGTAACCAAAACCTAG
30101475 AAAAGAAC
1 AAAAGAAC
30101483 GTAGAAGAAA
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (174 bp):
AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
AAAAGAAAACCAAAAGCGAAAAAAAAACAGTAACCAAAACCTAG
Found at i:30107738 original size:63 final size:62
Alignment explanation
Indices: 30107666--30107792 Score: 166
Period size: 63 Copynumber: 2.0 Consensus size: 62
30107656 ATGTCTCACG
* * *
30107666 CAGCCTGGACACATGCTCGTATA-TATGGCCCGTTTAACTCTAATTCACAAACAGTGAGTTACA
1 CAGCCTGGACACATGC-C-TATACTATGGCCCATGTAACCCTAATTCACAAACAGTGAGTTACA
* * *
30107729 CAGCCTGGACACGTGCCTATATCTCTGGCCCATGTAACCCTAATTCACAAATAGTGAGTTACA
1 CAGCCTGGACACATGCCTATA-CTATGGCCCATGTAACCCTAATTCACAAACAGTGAGTTACA
30107792 C
1 C
30107793 GGTCACACAG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 4 0.07
62 1 0.02
63 51 0.91
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (62 bp):
CAGCCTGGACACATGCCTATACTATGGCCCATGTAACCCTAATTCACAAACAGTGAGTTACA
Found at i:30109428 original size:27 final size:26
Alignment explanation
Indices: 30109352--30109416 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
30109342 AAACTTTTCT
*
30109352 AAAAG-AAACTCAAGAGAAATTCTTG
1 AAAAGAAAACTCAAGAGAAATTATTG
*
30109377 AAAAAAAAACTCAAGAGAAATTATTG
1 AAAAGAAAACTCAAGAGAAATTATTG
30109403 AAAAGAAAACTCAA
1 AAAAGAAAACTCAA
30109417 AAAGAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 4 0.11
26 32 0.89
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.17
Consensus pattern (26 bp):
AAAAGAAAACTCAAGAGAAATTATTG
Found at i:30118693 original size:16 final size:16
Alignment explanation
Indices: 30118672--30118704 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30118662 AATGTAAATC
30118672 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
30118688 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
30118704 A
1 A
30118705 CACTTAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGAGTTGCAAAATTA
Found at i:30119305 original size:16 final size:16
Alignment explanation
Indices: 30119263--30119304 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
30119253 ATATTGTGGA
* *
30119263 ATTTATATTTTGTTTT
1 ATTTTTATTTTATTTT
*
30119279 GTTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
30119295 A-TTTTATTTT
1 ATTTTTATTTT
30119305 TTCTCTTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:30126557 original size:79 final size:81
Alignment explanation
Indices: 30126455--30126639 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
30126445 GCTCCTCGTT
* * * *
30126455 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGCAACTCGCACAAATACCTTC-GGATCTTAACCC
* * *
30126518 GGATTTAGTAAC-TCGCA
64 AGATATAGTAACTTAGCA
* **
30126535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGCATCTCGCACAAATACCTTCGGATCTTAGTCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATACCTTCGGATCTTAACCCAG
* *
30126599 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
30126615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30126640 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGCAACTCGCACAAATACCTTCGGATCTTAACCCAG
ATATAGTAACTTAGCA
Found at i:30126572 original size:39 final size:40
Alignment explanation
Indices: 30126455--30126639 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
30126445 GCTCCTCGTT
*
30126455 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
30126495 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
30126535 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGCATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
30126574 CAAATACCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30126615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30126640 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30134568 original size:79 final size:81
Alignment explanation
Indices: 30134466--30134650 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30134456 GCTCCTCGTT
* * *
30134466 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAACCC
* *
30134529 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
30134546 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
* *
30134610 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
30134626 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30134651 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30134650 original size:40 final size:40
Alignment explanation
Indices: 30134466--30134650 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
30134456 GCTCCTCGTT
* *
30134466 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
30134506 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
30134546 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
30134585 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
30134626 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30134651 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:30138347 original size:7 final size:7
Alignment explanation
Indices: 30138337--30138382 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
30138327 TGATATATTT
30138337 TTATGTA
1 TTATGTA
30138344 TTATGTAA
1 TTATGT-A
30138352 GTTATGTAA
1 -TTATGT-A
30138361 GTTATGTA
1 -TTATGTA
30138369 TTATGTA
1 TTATGTA
30138376 TTATGTA
1 TTATGTA
30138383 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:30138358 original size:9 final size:9
Alignment explanation
Indices: 30138344--30138854 Score: 511
Period size: 9 Copynumber: 59.3 Consensus size: 9
30138334 TTTTTATGTA
30138344 TTATGTAAG
1 TTATGTAAG
30138353 TTATGTAAG
1 TTATGTAAG
30138362 TTATGT-A-
1 TTATGTAAG
30138369 TTATGT-A-
1 TTATGTAAG
30138376 TTATGTAAG
1 TTATGTAAG
30138385 -TACTGTAAG
1 TTA-TGTAAG
*
30138394 TAATGTAAG
1 TTATGTAAG
30138403 TTATGTAAG
1 TTATGTAAG
*
30138412 TAATGT-A-
1 TTATGTAAG
30138419 TTATGTAAG
1 TTATGTAAG
*
30138428 TTGTGTATA-
1 TTATGTA-AG
*
30138437 ATAT-TAA-
1 TTATGTAAG
30138444 TTATGTAAG
1 TTATGTAAG
*
30138453 TTGTGT-A-
1 TTATGTAAG
*
30138460 TAATGTAAG
1 TTATGTAAG
*
30138469 TTAAG-AAGG
1 TTATGTAA-G
30138478 TTATGT-A-
1 TTATGTAAG
30138485 TTATGTAAG
1 TTATGTAAG
* *
30138494 TTATTTAAT
1 TTATGTAAG
30138503 TTATGTAAG
1 TTATGTAAG
30138512 TTATGTAAG
1 TTATGTAAG
30138521 TTATGTAAG
1 TTATGTAAG
*
30138530 TTATTTAAG
1 TTATGTAAG
30138539 TTATGTAAG
1 TTATGTAAG
* *
30138548 TCATGGAAG
1 TTATGTAAG
* *
30138557 TTATTTAAT
1 TTATGTAAG
30138566 TTATGTAAG
1 TTATGTAAG
30138575 TTATGTAAG
1 TTATGTAAG
*
30138584 TTAAT-TAAT
1 TT-ATGTAAG
30138593 TTATGTAAG
1 TTATGTAAG
30138602 TTATGTAAG
1 TTATGTAAG
30138611 TTATGTAAG
1 TTATGTAAG
* *
30138620 TTATTTAAT
1 TTATGTAAG
30138629 TTATGTAAG
1 TTATGTAAG
30138638 TTATGTAAG
1 TTATGTAAG
30138647 TTATGTAAG
1 TTATGTAAG
* *
30138656 TTATTTAAT
1 TTATGTAAG
30138665 TTATGTAAG
1 TTATGTAAG
30138674 TTA--T-A-
1 TTATGTAAG
30138679 -TATGTAAG
1 TTATGTAAG
*
30138687 TTATGTAGG
1 TTATGTAAG
*
30138696 TAATGT-A-
1 TTATGTAAG
*
30138703 TTATGTAAA
1 TTATGTAAG
*
30138712 TAATGTAAG
1 TTATGTAAG
*
30138721 TTA-GAAAGG
1 TTATGTAA-G
30138730 TTATGT-A-
1 TTATGTAAG
30138737 TTATGTAAG
1 TTATGTAAG
*
30138746 TTATTTAAG
1 TTATGTAAG
30138755 TTATGTAAG
1 TTATGTAAG
30138764 TTATGTAAG
1 TTATGTAAG
30138773 TTATGTAAG
1 TTATGTAAG
30138782 TTATGTAAG
1 TTATGTAAG
30138791 TTATGTAAG
1 TTATGTAAG
* *
30138800 TTATTTAAT
1 TTATGTAAG
30138809 TTATGTAAG
1 TTATGTAAG
30138818 TTATGTAAG
1 TTATGTAAG
*
30138827 TTATGTAGG
1 TTATGTAAG
*
30138836 CTATGT-A-
1 TTATGTAAG
*
30138843 TTATGTTAG
1 TTATGTAAG
30138852 TTA
1 TTA
30138855 CTATGTTATT
Statistics
Matches: 415, Mismatches: 57, Indels: 60
0.78 0.11 0.11
Matches are distributed among these distances:
4 2 0.00
6 2 0.00
7 50 0.12
8 24 0.06
9 332 0.80
10 5 0.01
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30138684 original size:13 final size:13
Alignment explanation
Indices: 30138666--30138690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30138656 TTATTTAATT
30138666 TATGTAAGTTATA
1 TATGTAAGTTATA
30138679 TATGTAAGTTAT
1 TATGTAAGTTAT
30138691 GTAGGTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:30138873 original size:20 final size:19
Alignment explanation
Indices: 30138836--30138874 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30138826 GTTATGTAGG
* *
30138836 CTATGTATTATGTTAGTTA
1 CTATGTATTATATAAGTTA
30138855 CTATGTTATTATATAAGTTA
1 CTATG-TATTATATAAGTTA
30138875 TGCAAGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (19 bp):
CTATGTATTATATAAGTTA
Found at i:30139091 original size:22 final size:22
Alignment explanation
Indices: 30139030--30139103 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
30139020 GTTATTATAA
*
30139030 GTAATGTATTTCGGTAAGTAAT
1 GTAATATATTTCGGTAAGTAAT
* * *** *
30139052 G-AATTTATATATTTAAGTTAT
1 GTAATATATTTCGGTAAGTAAT
30139073 GTAATATATTTCGGTAAGTAAT
1 GTAATATATTTCGGTAAGTAAT
30139095 GTAATATAT
1 GTAATATAT
30139104 AGCGAAAAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
21 15 0.38
22 24 0.62
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (22 bp):
GTAATATATTTCGGTAAGTAAT
Found at i:30142169 original size:228 final size:229
Alignment explanation
Indices: 30141764--30142231 Score: 624
Period size: 228 Copynumber: 2.0 Consensus size: 229
30141754 AGATAAAATG
* ** * *
30141764 ATTTTTACGGCGCATTGTCAAAAACGCTGCTAAAAACCCGAACAATAGCGGCGCTTACCCATAAA
1 ATTTTTGCGGCGCATTCCCAAAAACGCCGCTAAAAACCCGAACAATAGCGGCGCTTACCCAAAAA
*
30141829 CGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGCTGCCT
66 CGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTATTTTTGCGCTGCCT
* *
30141894 TCTCAAAATCGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAAAAACACTACTAAATCCCC
131 TCTCAAAATCGCCGCTAAAGCCCTGGGCATTAGCGACGTTTACTTAAAAACACCACTAAATCCCC
*
30141959 GAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
196 AAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
* * * *
30141993 ATTTTTGCGGCGCATTCCCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTGA-CTAAA
1 ATTTTTGCGGCGCATTCCCAAAAACGCCGCTAAAAACCC-GAACAATAGCGGCGCTT-ACCCAAA
* * * *
30142056 AACGTCGCTAAATCCCC-GAAAGCTCAGAAAATGGTATCGTTGGGCTTAGGTATTTTTGCG--GC
64 AACGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTATTTTTGCGCTGC
* * **
30142118 GCTGTCTCAAAAAT-GCCGCTAAAGCCCTGGGCGTTAGCGATGTTTACTTAAAAATGCCACTAAA
129 -CT-TCTC-AAAATCGCCGCTAAAGCCCTGGGCATTAGCGACGTTTACTTAAAAACACCACTAAA
** * *
30142182 TCCTTAAAAGCTCAGCAAATGGCGTCGTTAGGCTTAGGT
191 TCCCCAAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
30142221 ATTTTTGCGGC
1 ATTTTTGCGGC
30142232 ACTTACTTAA
Statistics
Matches: 209, Mismatches: 25, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
226 2 0.01
227 2 0.01
228 139 0.67
229 65 0.31
230 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (229 bp):
ATTTTTGCGGCGCATTCCCAAAAACGCCGCTAAAAACCCGAACAATAGCGGCGCTTACCCAAAAA
CGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTATTTTTGCGCTGCCT
TCTCAAAATCGCCGCTAAAGCCCTGGGCATTAGCGACGTTTACTTAAAAACACCACTAAATCCCC
AAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGT
Found at i:30142230 original size:114 final size:113
Alignment explanation
Indices: 30141826--30142254 Score: 531
Period size: 114 Copynumber: 3.8 Consensus size: 113
30141816 GCTTACCCAT
*
30141826 AAACGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGC-GCT
1 AAACGCCACTAAATCCCC-GAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGC-
30141890 GCCTTCTC-AAAATCGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
64 G-CTTCTCAAAAAT-GCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
* *
30141941 AAACACTACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
* * * *
30142006 ATTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGAC-TAA
66 -TTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCG-TTTACTTAA
* * * ** *
30142055 AAACGTCGCTAAATCCCCGAAAGCTCAGAAAATGGTATCGTTGGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
* **
30142120 TGTCTCAAAAATGCCGCTAAAGCCCTGGGCGTTAGCGATGTTTACTTAA
66 T-TCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
* *** * * *
30142169 AAATGCCACTAAATCCTTAAAAGCTCAGCAAATGGCGTCGTTAGGCTTAGGTATTTTTGCGGCAC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
* * *
30142234 TTACTTAAAAACGCCGTTAAA
66 TT-CTCAAAAATGCCGCTAAA
30142255 TCGCCAAAAG
Statistics
Matches: 271, Mismatches: 36, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
113 7 0.03
114 238 0.88
115 26 0.10
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (113 bp):
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
TTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
Found at i:30142255 original size:73 final size:73
Alignment explanation
Indices: 30142161--30142304 Score: 209
Period size: 73 Copynumber: 2.0 Consensus size: 73
30142151 TTAGCGATGT
* * **
30142161 TTACTTAAAAATGCCACTAAATC-CTTAAAAGCTCAGCAAATGGCGTCGTTAGGCTTAGGTATTT
1 TTACTTAAAAACGCCACTAAATCGC-CAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAGGTATTT
*
30142225 TTGCGGCAC
65 TCGCGGCAC
**
30142234 TTACTTAAAAACGCCGTTAAATCGCCAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAGGTATTTT
1 TTACTTAAAAACGCCACTAAATCGCCAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAGGTATTTT
30142299 CGCGGC
66 CGCGGC
30142305 GCATTCACAA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 62 0.98
74 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (73 bp):
TTACTTAAAAACGCCACTAAATCGCCAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAGGTATTTT
CGCGGCAC
Found at i:30142448 original size:116 final size:113
Alignment explanation
Indices: 30142227--30142662 Score: 457
Period size: 114 Copynumber: 3.8 Consensus size: 113
30142217 AGGTATTTTT
* ** * * * *
30142227 GCGGCACTTACTTAAAAACGCCGTTAAATCGCCAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAG
* *
30142292 GTATTTTCGCGGCGCATT-CACAAAAAC-GCTGCTAAAGCCCTGAGCATTA
66 GT-TTTTTGCGGCGCTTTAC-CAAAAACGGC-GCTAAAGCCCTGAGCATTA
* * * * *
30142341 GCGGCGCTTGAC-TAAAAACACCACCAAATCCCCGAAAAGCTTAGAAAACGGCGTCGCTGGGCTT
1 GCGGCGCTT-ACTTAAAAACGCCACTAAATCCCCG-AAAGCTCAAAAAACGGCGTCGTTGGGCTT
* *
30142405 AGGTTCTTTTTGCGGCGCTTTACCATAAACGGCGCTAAAGCCCTGAGCGTTA
64 AGG-T-TTTTTGCGGCGCTTTACCAAAAACGGCGCTAAAGCCCTGAGCATTA
* * * * * *
30142457 ACGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAGCT-TAGAAACGACGTCGTTGGGCTTAC
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAG
** ** * *
30142521 GTTTTTCTGTTGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCTTTA
66 GTTTTT-TGCGGCGCTTTACCAAAAACGGCGCTAAAGCCCTGAGCATTA
* * *
30142570 GCAGCGCTTTCTTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGATTA
1 GCGGCGCTTACTT-AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTA
* **
30142635 GGTATTTTGCGGCGCTTTATGAAAAACG
65 GGTTTTTTGCGGCGCTTTACCAAAAACG
30142663 CCACTAATGG
Statistics
Matches: 265, Mismatches: 48, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
112 4 0.02
113 46 0.17
114 86 0.32
115 61 0.23
116 65 0.25
117 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTACCAAAAACGGCGCTAAAGCCCTGAGCATTA
Found at i:30142896 original size:26 final size:27
Alignment explanation
Indices: 30142841--30142911 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
30142831 TATATCTATG
* *
30142841 TATACATACATACATTTTGATAATACA
1 TATATATACATATATTTTGATAATACA
* **
30142868 TATATGTACATATATTTT-ATAATTTA
1 TATATATACATATATTTTGATAATACA
*
30142894 TATATATACATATGTTTT
1 TATATATACATATATTTT
30142912 TGTTATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATATACATATATTTTGATAATACA
Found at i:30143506 original size:10 final size:10
Alignment explanation
Indices: 30143491--30143516 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30143481 AAAGATATAC
30143491 ATATATGTAT
1 ATATATGTAT
30143501 ATATATGTAT
1 ATATATGTAT
30143511 ATATAT
1 ATATAT
30143517 TTACATTTCT
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
ATATATGTAT
Found at i:30145406 original size:41 final size:41
Alignment explanation
Indices: 30145361--30145479 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
30145351 CCAAAAATGA
** * * **
30145361 TACACCGGCACCAAGCCTACTAGGCATAAAGCCTGATAGGG
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
* * *
30145402 TACACCGGCATGAAGCCTGCTAGGCATAAAGCTTGATACAT
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
*
30145443 TTCACCGGCATAAAGCCTGCTAGGCATAAAGCATGAT
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGAT
30145480 GCATTAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (41 bp):
TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
Found at i:30150017 original size:24 final size:24
Alignment explanation
Indices: 30149983--30150044 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
30149973 CGTTGTAATT
*
30149983 GTATCACGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
30150007 GTATCATGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
30150031 -TCATCATGAA-ACAA
1 GT-ATCATGAATACAA
30150045 AAGGTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
GTATCATGAATACAATGGTGAAGC
Found at i:30153986 original size:14 final size:16
Alignment explanation
Indices: 30153956--30153988 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
30153946 AACAATGTAT
30153956 AAATCATATATCAAGA
1 AAATCATATATCAAGA
30153972 AAATCATA-A-CAAGA
1 AAATCATATATCAAGA
30153986 AAA
1 AAA
30153989 GAGATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATCATATATCAAGA
Found at i:30154362 original size:65 final size:65
Alignment explanation
Indices: 30154237--30154362 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 65
30154227 TTTATTCTCT
* * * **
30154237 TAAAATATTAAAGTAACGGTTATTTGTAGGTAAAATTTTGACGCATATTTAAATGGCAAAAGTAA
1 TAAAATATTAAAGTAACAGTTATTTGTAAGTAAAATTTTGACGCATATTCAAATAACAAAAGTAA
* * *
30154302 TAAAATATTAAAGTAACAGTTATTTGTAAGTGAAATTTTGACTCGTATTCAAATAACAAAA
1 TAAAATATTAAAGTAACAGTTATTTGTAAGTAAAATTTTGACGCATATTCAAATAACAAAA
30154363 TTATTTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (65 bp):
TAAAATATTAAAGTAACAGTTATTTGTAAGTAAAATTTTGACGCATATTCAAATAACAAAAGTAA
Found at i:30166131 original size:28 final size:28
Alignment explanation
Indices: 30166074--30166253 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
30166064 TAAATTGTGC
*
30166074 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30166101 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30166129 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30166157 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
30166184 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
30166212 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
30166239 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30166254 GACTTATTAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 67 0.46
28 80 0.54
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30166138 original size:55 final size:55
Alignment explanation
Indices: 30166074--30166253 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 55
30166064 TAAATTGTGC
*
30166074 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
30166129 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
30166184 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
30166239 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30166254 GACTTATTAT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 91 0.77
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:30166215 original size:83 final size:82
Alignment explanation
Indices: 30166074--30166253 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
30166064 TAAATTGTGC
*
30166074 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
*
30166139 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
30166157 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
*
30166222 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
30166239 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30166254 GACTTATTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:30174078 original size:56 final size:56
Alignment explanation
Indices: 30174041--30174276 Score: 406
Period size: 55 Copynumber: 4.3 Consensus size: 56
30174031 TAAATTGTGC
*
30174041 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
30174096 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
30174152 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
30174207 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
30174262 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30174277 GACTTAATAT
Statistics
Matches: 175, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
55 92 0.53
56 83 0.47
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30174098 original size:28 final size:28
Alignment explanation
Indices: 30174041--30174276 Score: 406
Period size: 28 Copynumber: 8.5 Consensus size: 28
30174031 TAAATTGTGC
*
30174041 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30174068 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30174096 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30174124 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30174152 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
30174180 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
30174207 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
30174235 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
30174262 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30174277 GACTTAATAT
Statistics
Matches: 203, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
27 66 0.33
28 137 0.67
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30181423 original size:29 final size:29
Alignment explanation
Indices: 30181381--30181443 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
30181371 GGCCTAGATT
* * *
30181381 GTGTGTCATACATGACCTGTCACACTGCC
1 GTGTGTCACACATGACCTGGCACACGGCC
* *
30181410 GTGTGTCGCACATGGCCTGGCACACGGCC
1 GTGTGTCACACATGACCTGGCACACGGCC
30181439 GTGTG
1 GTGTG
30181444 GCATCGATAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (29 bp):
GTGTGTCACACATGACCTGGCACACGGCC
Found at i:30181550 original size:70 final size:70
Alignment explanation
Indices: 30181431--30181565 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
30181421 ATGGCCTGGC
* *
30181431 ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTTGTCATTCGTTGTTTTTCGAGTTTC
1 ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTCGTCATTCGTTGTTTTTCAAGTTTC
30181496 TTGTT
66 TTGTT
* * * *
30181501 ACACGGTCGTGTGGCGTCGATAGGCCCTAATTTTGGCTTTCGTCGTTCGTTGTTTTTCAAGTTTC
1 ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTCGTCATTCGTTGTTTTTCAAGTTTC
30181566 CTATTATACA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.41
Consensus pattern (70 bp):
ACACGGCCGTGTGGCATCGATAGGCCCCAATTTTGGCTTTCGTCATTCGTTGTTTTTCAAGTTTC
TTGTT
Found at i:30182208 original size:3 final size:3
Alignment explanation
Indices: 30182202--30182258 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
30182192 ACTACTTGAT
* * * *
30182202 TTA TTA TAA GTA T-A TTA TTA TTA TTC TTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30182249 TTA TTA TTA T
1 TTA TTA TTA T
30182259 CAAAAAACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:30194110 original size:25 final size:25
Alignment explanation
Indices: 30194082--30194180 Score: 96
Period size: 25 Copynumber: 4.0 Consensus size: 25
30194072 TTGAGCTATG
*
30194082 AATCGGTATGCTC-TCACGAGCTGTA
1 AATCGGTAAGCTCAT-ACGAGCTGTA
*
30194107 AATCGGTAAGCTCATACGAGTTG-A
1 AATCGGTAAGCTCATACGAGCTGTA
* * *
30194131 GAATTGGTAAGCTC-TCATGAGCTGCA
1 -AATCGGTAAGCTCAT-ACGAGCTGTA
*
30194157 AATCGGTAATCTCATACGAGCTGT
1 AATCGGTAAGCTCATACGAGCTGT
30194181 GGTGTGTCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.03
25 55 0.92
26 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGTA
Found at i:30194153 original size:50 final size:50
Alignment explanation
Indices: 30194081--30194176 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
30194071 ATTGAGCTAT
* *
30194081 GAATCGGTATGCTCTCACGAGCTGTAAATCGGTAAGCTCATACGAGTTGA
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGTTGA
* * *
30194131 GAATTGGTAAGCTCTCATGAGCTGCAAATCGGTAATCTCATACGAG
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAG
30194177 CTGTGGTGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGTTGA
Found at i:30200958 original size:37 final size:37
Alignment explanation
Indices: 30200911--30200986 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
30200901 AGTAATAGAT
* *
30200911 TTTCCATGTATTTCATGTATATATATACCTATAATAG
1 TTTCCATGTATTTCATGCATATATATACCTACAATAG
*
30200948 TTTCCATGTATTTCATGCATATATATACCTGCAATAG
1 TTTCCATGTATTTCATGCATATATATACCTACAATAG
30200985 TT
1 TT
30200987 CCTATCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (37 bp):
TTTCCATGTATTTCATGCATATATATACCTACAATAG
Found at i:30201166 original size:25 final size:26
Alignment explanation
Indices: 30201138--30201192 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
30201128 GAAAAGGTAT
30201138 GCTCTA-ACAAGCTATA-AATCAGTAA
1 GCTCTATACAAGCTA-AGAATCAGTAA
* *
30201163 GCTC-ATACGAGCTAAGAATCGGTAA
1 GCTCTATACAAGCTAAGAATCAGTAA
30201188 GCTCT
1 GCTCT
30201193 CATGAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (26 bp):
GCTCTATACAAGCTAAGAATCAGTAA
Found at i:30201192 original size:50 final size:50
Alignment explanation
Indices: 30201113--30201226 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
30201103 GTGCACGTAT
* * *
30201113 GCTCATACGAGCTATGAAAAGGTATGCTCT-AACAAGCTATAAATCAGTAA
1 GCTCATACGAGCTAAGAAAAGGTAAGCTCTCAACAA-CTACAAATCAGTAA
** ** *
30201163 GCTCATACGAGCTAAGAATCGGTAAGCTCTCATGAACTACAAATCGGTAA
1 GCTCATACGAGCTAAGAAAAGGTAAGCTCTCAACAACTACAAATCAGTAA
30201213 GCTCATACGAGCTA
1 GCTCATACGAGCTA
30201227 TGGTGTGTCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 52 0.95
51 3 0.05
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (50 bp):
GCTCATACGAGCTAAGAAAAGGTAAGCTCTCAACAACTACAAATCAGTAA
Found at i:30205404 original size:121 final size:121
Alignment explanation
Indices: 30205248--30205489 Score: 387
Period size: 121 Copynumber: 2.0 Consensus size: 121
30205238 TAGGGCGAGA
* * * *
30205248 CTATTATTGTTTTCTCGATGGATACTTGTGGTATAATCAGATTATAGTAGCGCTAGAAGATCAAC
1 CTATTACTATTTTCTCAATGGATACTTGTGGTATAATCAGATTATAATAGCGCTAGAAGATCAAC
* *
30205313 AAAAAACAACATTCACATGCCCATACGATACATTTGCACTTAGACGCATGTCATTT
66 AAAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
30205369 CTATTACTATTTTCTCAATGGATACTTG-GGATATAATCAGATTATAATAGCGCTAGAAGATCAA
1 CTATTACTATTTTCTCAATGGATACTTGTGG-TATAATCAGATTATAATAGCGCTAGAAGATCAA
* * *
30205433 CACAAAACAACATTCACATGCCCATGCGATACACTTGCATTTAGACGCATGCCATTT
65 CAAAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
30205490 GGTTTATATA
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 2 0.02
121 109 0.98
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (121 bp):
CTATTACTATTTTCTCAATGGATACTTGTGGTATAATCAGATTATAATAGCGCTAGAAGATCAAC
AAAAAACAACATTCACATGCCCATACGATACACTTGCACTTAGACGCATGCCATTT
Found at i:30211759 original size:28 final size:28
Alignment explanation
Indices: 30211699--30211753 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
30211689 AATATAATAT
*
30211699 AATTA-TAAAATATTTAAATTTTACTTA
1 AATTATTAAAATATTTAAATTTTAATTA
30211726 AATTATTAAAATA-TTAAATTTTAATTA
1 AATTATTAAAATATTTAAATTTTAATTA
30211753 A
1 A
30211754 TTTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTATTAAAATATTTAAATTTTAATTA
Found at i:30214988 original size:17 final size:16
Alignment explanation
Indices: 30214956--30215005 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
30214946 TTTCAAAAAG
*
30214956 AAAAAAACAAATAAATA
1 AAAAAAATAAA-AAATA
30214973 AATAAAAATAAAAAATA
1 AA-AAAAATAAAAAATA
*
30214990 AAACCAAATAAAAAAT
1 AAA-AAAATAAAAAAT
30215006 TAAAGGTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 1 0.03
17 20 0.69
18 8 0.28
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:30215270 original size:22 final size:19
Alignment explanation
Indices: 30215214--30215262 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
30215204 CACAGACTTC
30215214 GCGCGTGCATCACCACCAG
1 GCGCGTGCATCACCACCAG
30215233 GCGCGTGCATCACCACCAG
1 GCGCGTGCATCACCACCAG
30215252 GCGCGTGCATC
1 GCGCGTGCATC
30215263 TTCTCCACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (19 bp):
GCGCGTGCATCACCACCAG
Found at i:30216685 original size:9 final size:10
Alignment explanation
Indices: 30216671--30216698 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30216661 TTTTATTTCA
30216671 TTTTTTAATT
1 TTTTTTAATT
30216681 TTTTTTAATT
1 TTTTTTAATT
30216691 TTTTTTAA
1 TTTTTTAA
30216699 ATCTTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTAATT
Found at i:30216691 original size:18 final size:17
Alignment explanation
Indices: 30216656--30216694 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
30216646 AGTTATTCAC
*
30216656 TTTTATTTTATTTCATT
1 TTTTATTTTATTTAATT
*
30216673 TTTTAATTTTTTTTAATT
1 TTTT-ATTTTATTTAATT
30216691 TTTT
1 TTTT
30216695 TTAAATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTAATT
Found at i:30227691 original size:37 final size:37
Alignment explanation
Indices: 30227641--30227719 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
30227631 TTATTACGAA
* * *
30227641 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
30227678 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
30227715 GTCTT
1 GTCTT
30227720 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:30227949 original size:47 final size:47
Alignment explanation
Indices: 30227838--30228309 Score: 763
Period size: 47 Copynumber: 10.1 Consensus size: 47
30227828 CCCTTCGGGA
* * * * * *
30227838 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACT---C
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30227882 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30227928 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30227975 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30228022 CTTATCACATATATACACTTTTACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30228069 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30228116 CTTATCACAAATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30228163 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30228212 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30228259 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30228306 CTTA
1 CTTA
30228310 CTATCATTTC
Statistics
Matches: 402, Mismatches: 20, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
43 34 0.08
44 1 0.00
46 2 0.00
47 320 0.80
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30233705 original size:88 final size:88
Alignment explanation
Indices: 30233613--30233970 Score: 434
Period size: 88 Copynumber: 4.1 Consensus size: 88
30233603 GTGGAGTAGG
* *
30233613 TCGAAGACACTAGCCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCT
1 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
* * *
30233678 TCCTATACTGACTGTGAAACAGA
66 TCCTATACTGACAGCGAAGCAGA
* * * * *
30233701 TCGAAGACACTAGACTTTCCTCCCTGGGTTGCAGCGGAGTAGGTTAAAAATAGCAGATCTTGCCT
1 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
30233766 TCCTGCAT-C-GACAGCGAAGCAGA
66 TCCT--ATACTGACAGCGAAGCAGA
* *
30233789 TCGAAGACACTAGCCTTTCCTCCCTGGGTTGCAGCAGAGCAGGTTGAAGATAGCAGATCTTGCCT
1 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
** * *
30233854 TCCTGCAATGGCAGCGAAGCAGA
66 TCCTATACTGACAGCGAAGCAGA
* * * * *
30233877 TCAAAGACACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAA-AGCACCAGATCTTGCC
1 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGA-TAGCAGATCTTGCC
* * * **
30233941 TTCTTGTACTGTCAATGAAGCAGA
65 TTCCTATACTGACAGCGAAGCAGA
30233965 TCGAAG
1 TCGAAG
30233971 CCAATAATCC
Statistics
Matches: 232, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
87 1 0.00
88 228 0.98
89 1 0.00
90 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (88 bp):
TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCCT
TCCTATACTGACAGCGAAGCAGA
Found at i:30233875 original size:45 final size:44
Alignment explanation
Indices: 30233650--30233875 Score: 111
Period size: 44 Copynumber: 5.1 Consensus size: 44
30233640 GTTGCAGTGG
** * * *
30233650 AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTATACTGACTGTGA
1 AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA-TGGCAGCGA
* * * * * * ** * *
30233695 AACAGATCGAAGACA-CTAGA-CTTTCCTCCCTGGGTTGCAGCGG
1 AGCAGGTTGAAGATAGC-AGATCTTGCCTTCCTGCATGGCAGCGA
* * * *
30233738 AGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGA
1 AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCAT-GGCAGCGA
* * * * * * ** *
30233783 AGCAGATCGAAGACA-CTAG-CCTTTCCTCCCTGGGTTGCAGC-A
1 AGCAGGTTGAAGATAGC-AGATCTTGCCTTCCTGCATGGCAGCGA
30233825 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCAATGGCAGCGA
1 -AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGC-ATGGCAGCGA
30233871 AGCAG
1 AGCAG
30233876 ATCAAAGACA
Statistics
Matches: 121, Mismatches: 50, Indels: 20
0.63 0.26 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.27
44 45 0.37
45 41 0.34
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (44 bp):
AGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATGGCAGCGA
Found at i:30233939 original size:44 final size:45
Alignment explanation
Indices: 30233704--30233941 Score: 150
Period size: 44 Copynumber: 5.4 Consensus size: 45
30233694 AAACAGATCG
* * *
30233704 AAGACACTAGA-CTTTCCTCCCTGGGTTGCAGCGGAGTAGGTT-A
1 AAGACACCAGATCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGA
* * * * ** * * * *
30233747 AAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCG-
1 AAGACACCAGATCTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTGA
* * * *
30233792 AAGACACTAG-CCTTTCCTCCCTGGGTTGCAGCAGAGCAGGTTG-
1 AAGACACCAGATCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGA
* * * ** * * * *
30233835 AAGATAGCAGATCTTGCCTTCCTGCAATGGCAGCGAAGCA-GATCA
1 AAGACACCAGATCTTGCCTCCCTG-GGTTGCAGCGGAGCAGGTTGA
* *
30233880 AAGACACCAG-CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGA
1 AAGACACCAGATCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGA
30233924 AAG-CACCAGATCTTGCCT
1 AAGACACCAGATCTTGCCT
30233942 TCTTGTACTG
Statistics
Matches: 135, Mismatches: 52, Indels: 15
0.67 0.26 0.07
Matches are distributed among these distances:
43 41 0.30
44 60 0.44
45 34 0.25
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (45 bp):
AAGACACCAGATCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGA
Found at i:30234108 original size:44 final size:45
Alignment explanation
Indices: 30234059--30234163 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 45
30234049 TGGATCACAT
*
30234059 CAAGTCTTATTTCCCTGAGGTTACAGCGGAGCAAACTGAGAA-AG
1 CAAGTCTTATTTCCCTGAAGTTACAGCGGAGCAAACTGAGAATAG
** * * * *
30234103 CAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAGAATAG
1 CAAGTCTTATTTCCCTGAAGTTACAGCGGAGCAAACTGAGAATAG
* *
30234148 CAAATCTTACTTCCCT
1 CAAGTCTTATTTCCCT
30234164 AACGATGTAG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
44 35 0.71
45 14 0.29
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (45 bp):
CAAGTCTTATTTCCCTGAAGTTACAGCGGAGCAAACTGAGAATAG
Found at i:30234318 original size:44 final size:44
Alignment explanation
Indices: 30234255--30234403 Score: 171
Period size: 44 Copynumber: 3.5 Consensus size: 44
30234245 TTACAAATCC
*
30234255 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
* ** *** * *
30234299 TATCTCTCT-AGAGTTGCAGTAGAGTAGA-TCGCAT-CATG-TCT
1 TATCTCTCTGA-AGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
*
30234340 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
30234384 TATCTCTCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGT
30234404 AGAGTAGATC
Statistics
Matches: 81, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 25 0.31
42 6 0.07
43 6 0.07
44 44 0.54
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCT
Found at i:30234355 original size:41 final size:41
Alignment explanation
Indices: 30234296--30234443 Score: 163
Period size: 41 Copynumber: 3.5 Consensus size: 41
30234286 AAATAAAAGA
*
30234296 TCTTATCTCTCT-AGAGTTGCAGTAGAGTAGATCGCATCATG
1 TCTTATCTCTCTGA-AGTTGCAGTAGAGTAGATCGCATCAAG
* * ** *** *
30234337 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCAT-CAAG
*
30234380 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAAG
30234422 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCTCTGAAGTTGCAG
30234444 CGGAGCAGAC
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 47 0.55
42 6 0.07
43 5 0.06
44 27 0.32
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAAG
Found at i:30234399 original size:85 final size:85
Alignment explanation
Indices: 30234255--30234449 Score: 347
Period size: 85 Copynumber: 2.3 Consensus size: 85
30234245 TTACAAATCC
30234255 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTGCAGTA
*
30234320 GAGTAGATCGCATCATGTCT
66 GAGTAGATCGCATCAGGTCT
30234340 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCT-GAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAG-AGTTGCAGT
30234404 AGAGTAGATCGCATCAGGTCT
65 AGAGTAGATCGCATCAGGTCT
* *
30234425 TATCTCTCTGAAGTTGCAGCGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
30234450 AGACCGAAGA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 1 0.01
85 105 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (85 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAGAGTTGCAGTA
GAGTAGATCGCATCAGGTCT
Found at i:30234691 original size:173 final size:172
Alignment explanation
Indices: 30234468--30234889 Score: 664
Period size: 173 Copynumber: 2.4 Consensus size: 172
30234458 GAATTACAGA
** * * *
30234468 TCTTATCTCCCTAAGCAGTAGCAGAGCAAATCAAAGATGACAGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGTTGCAGCAGAGCAGATCGAAGATGACAGATCTTATCTCCCTAAGCAGTAG
30234533 TGGAGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATAAAAG
66 TGGAGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATAAAAG
* *
30234598 ATATTATCTCTCTGGAGTTGCAGTAGAGTAGATCGCATCATG
131 ATATTATCTCTCTGGAGTTGCAGTAGAGTAGATCACATCAGG
* *
30234640 TCTTATCTCCCTAAAGTTGCAGCAGAGCGGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCT-AAGTTGCAGCAGAGCAGATCGAAGATGACAGATCTTATCTCCCTAAGCAGTA
* *
30234705 GTGGAACAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGTATTAAAATAAAA
65 GTGGAGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATAAAA
*
30234770 GATCTTATCTCTCTGGAGTTGCAGTAGAGTAGATCACATCAGG
130 GATATTATCTCTCTGGAGTTGCAGTAGAGTAGATCACATCAGG
* * * *
30234813 TCTTATCTCTCTGAAGTTGCAGCGGAGCAGATCGAAGAATTACAGATATTATCTCCCTAAGCAGT
1 TCTTATCTCCCT-AAGTTGCAGCAGAGCAGATCGAAG-ATGACAGATCTTATCTCCCTAAGCAGT
*
30234878 AGCGGAGCAGAT
64 AGTGGAGCAGAT
30234890 CGAAGATGGC
Statistics
Matches: 227, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
172 12 0.05
173 181 0.80
174 34 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (172 bp):
TCTTATCTCCCTAAGTTGCAGCAGAGCAGATCGAAGATGACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATTGTAGCCAGTAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATAAAAG
ATATTATCTCTCTGGAGTTGCAGTAGAGTAGATCACATCAGG
Found at i:30234918 original size:44 final size:45
Alignment explanation
Indices: 30234833--30234933 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 45
30234823 CTGAAGTTGC
* *
30234833 AGCGGAGCAGATCGAAGAATTACAGATATTATCTCCCTAAGCAGT
1 AGCGGAGCAGATCGAAGAATGACAGATATAATCTCCCTAAGCAGT
* *
30234878 AGCGGAGCAGATCGAAG-ATGGCAGATCTAATCTCCCTAAGCAGT
1 AGCGGAGCAGATCGAAGAATGACAGATATAATCTCCCTAAGCAGT
*
30234922 AGTGGAGCAGAT
1 AGCGGAGCAGAT
30234934 TGTAGCCAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 34 0.67
45 17 0.33
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.20
Consensus pattern (45 bp):
AGCGGAGCAGATCGAAGAATGACAGATATAATCTCCCTAAGCAGT
Found at i:30235047 original size:218 final size:219
Alignment explanation
Indices: 30234664--30235281 Score: 961
Period size: 218 Copynumber: 2.8 Consensus size: 219
30234654 AGTTGCAGCA
* *
30234664 GAGCGGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* * *
30234729 CCTATCTCCCTGAAGTTGTAGTGGAGCGTATTAAAATAAAAGATCTTATCTCTCTGGAGTTGCAG
66 CCTATCTCCCTGAAGTTGAAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
* *
30234794 TAGAGTAGATCACATCAGGTCTTATCTCTCTGAAGTTGCAGCGGAGCAGATC-GAAGAATTACAG
131 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTGAAGAATTACAG
30234858 ATATTATCTCCCTAAGCAGTAGCG
196 ATATTATCTCCCTAAGCAGTAGCG
*
30234882 GAGCAGATCGAAGATGGCAGATCTAATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* * *
30234947 CCTATCTCCCTGAAGTTAAAGTGGAGCGAATTAAAATAAAAGATATTATCTCTCTAAAGTTGCAG
66 CCTATCTCCCTGAAGTTGAAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
30235012 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGAATTACAG
131 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTGAAGAATTACAG
* * * *
30235076 ATCTTATCTCCTTAAGCATTAGTG
196 ATATTATCTCCCTAAGCAGTAGCG
* * * * * * * *
30235100 GAGCAGATTGAAGATGACAAATCTTATCTCCCTAAGCAGTAGTAGAGTAGATTGAAACTAGTAAT
1 GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
* * * * *
30235165 CCTATCTCTCTGAAGTTGCAGTGGAGTGGATTAAAATAAAAGATCTTATCTCTCTGAAGTGGCAG
66 CCTATCTCCCTGAAGTTGAAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
*
30235230 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGATC
131 TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC
30235282 AAGGAAGCAA
Statistics
Matches: 365, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 1 0.00
218 363 0.99
219 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (219 bp):
GAGCAGATCGAAGATGGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGTAGCCAGTAAT
CCTATCTCCCTGAAGTTGAAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAG
TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCTGAAGAATTACAG
ATATTATCTCCCTAAGCAGTAGCG
Found at i:30235136 original size:44 final size:45
Alignment explanation
Indices: 30235031--30235155 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
30235021 TCGCATCAGG
** * * * * *
30235031 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAATTACAGA
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGAATGACAAA
* *
30235077 TCTTATCTCCTTAAGCATTAGTGGAGCAGATTGAAG-ATGACAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAATGACAAA
* *
30235121 TCTTATCTCCCTAAGCAGTAGTAGAGTAGATTGAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
30235156 ACTAGTAATC
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
44 37 0.56
45 18 0.27
46 11 0.17
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAATGACAAA
Found at i:30235599 original size:17 final size:18
Alignment explanation
Indices: 30235569--30235602 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30235559 TCAAAAAGAA
30235569 AAAAACAAATAAATAAAT
1 AAAAACAAATAAATAAAT
*
30235587 AAAAATAAA-AAATAAA
1 AAAAACAAATAAATAAA
30235603 GCTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAACAAATAAATAAAT
Found at i:30235608 original size:13 final size:14
Alignment explanation
Indices: 30235575--30235621 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
30235565 AGAAAAAAAC
30235575 AAATAAATAAATAA
1 AAATAAATAAATAA
30235589 AAATAAA-AAATAA
1 AAATAAATAAATAA
**
30235602 AGCTAAATAAA-AA
1 AAATAAATAAATAA
*
30235615 AATTAAA
1 AAATAAA
30235622 GGTCCAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:30240886 original size:49 final size:49
Alignment explanation
Indices: 30240814--30240911 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
30240804 ATTTGGGAAC
30240814 GTCAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
1 GTCAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
30240863 GTCAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
1 GTCAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
30240912 TCCTTGTTCG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (49 bp):
GTCAGAAATAGATAAGTTTTTGTAATGCTCCCCTACTTTCCTATTACTT
Found at i:30253375 original size:17 final size:18
Alignment explanation
Indices: 30253353--30253390 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30253343 ATATTTAGTC
30253353 ATATAATAAATTA-TTTA
1 ATATAATAAATTATTTTA
**
30253370 ATATAATTTATTATTTTA
1 ATATAATAAATTATTTTA
30253388 ATA
1 ATA
30253391 AATTATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATAATAAATTATTTTA
Found at i:30253379 original size:30 final size:30
Alignment explanation
Indices: 30253345--30253403 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
30253335 AATTATTTAT
30253345 ATTTAGTCA-TATAATAAATTATTTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* * *
30253375 ATTTATTATTTTAATAAATTATTTGATAT
1 ATTTATCATTATAATAAATTATTTAATAT
30253404 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:30253394 original size:17 final size:17
Alignment explanation
Indices: 30253362--30253394 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30253352 CATATAATAA
30253362 ATTATTTAATATAATTT
1 ATTATTTAATATAATTT
30253379 ATTATTTTAATA-AATT
1 ATTA-TTTAATATAATT
30253395 ATTTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTTAATATAATTT
Found at i:30253500 original size:15 final size:15
Alignment explanation
Indices: 30253482--30253538 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
30253472 TATCAATATT
30253482 AATATTTTAATAATA
1 AATATTTTAATAATA
*
30253497 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
30253516 AATATATTAATAATA
1 AATATTTTAATAATA
*
30253531 AATGTTTT
1 AATATTTT
30253539 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:30255030 original size:26 final size:26
Alignment explanation
Indices: 30255001--30255051 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
30254991 GGGTTTTATT
*
30255001 CTTGTAGACTAAGAAACTAAAATTAA
1 CTTGTAGAATAAGAAACTAAAATTAA
* *
30255027 CTTGTAGAATAAGAACCTATAATTA
1 CTTGTAGAATAAGAAACTAAAATTA
30255052 GGGTAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (26 bp):
CTTGTAGAATAAGAAACTAAAATTAA
Found at i:30258960 original size:26 final size:26
Alignment explanation
Indices: 30258931--30258980 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
30258921 TTTTTTTGGC
30258931 TTCATAAGCAAGCCCTGACTTTTGCT
1 TTCATAAGCAAGCCCTGACTTTTGCT
30258957 TTCATAAGCAAGCCCTGACTTTTG
1 TTCATAAGCAAGCCCTGACTTTTG
30258981 TTGTCCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (26 bp):
TTCATAAGCAAGCCCTGACTTTTGCT
Found at i:30265948 original size:5 final size:5
Alignment explanation
Indices: 30265940--30265972 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
30265930 TCGTATTTTT
30265940 TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
30265973 TTACTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:30268958 original size:67 final size:67
Alignment explanation
Indices: 30268887--30269071 Score: 262
Period size: 67 Copynumber: 2.7 Consensus size: 67
30268877 TACCTGACAT
* * *
30268887 CATAGCCCAGCTATGGTCTTACACAGTATACCCTATGTTTAATGTCTTGGCGGACTTCTTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAGTATACCCTATGTTTAATGTCCTGGCGGACTTCCTTTGTT
30268952 GC
66 GC
* * * *
30268954 CATAGTCTAGCTATGGTCTTACACAATATACCATATGTTTAATGTCCTGGTGGACTTCCTTTGTT
1 CATAGCCTAGCTATGGTCTTACACAGTATACCCTATGTTTAATGTCCTGGCGGACTTCCTTTGTT
30269019 GC
66 GC
* * *
30269021 CATAGCCTAGCTATGTTCTTACATAGTATATACCCCATGTTTAATGTCCTG
1 CATAGCCTAGCTATGGTCTTACACAG--TATACCCTATGTTTAATGTCCTG
30269072 ACGGGCTCTT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 82 0.80
69 21 0.20
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (67 bp):
CATAGCCTAGCTATGGTCTTACACAGTATACCCTATGTTTAATGTCCTGGCGGACTTCCTTTGTT
GC
Found at i:30275923 original size:17 final size:16
Alignment explanation
Indices: 30275898--30275943 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
30275888 GACAACCCAA
30275898 TTTTAT-TTTTATTTT
1 TTTTATATTTTATTTT
*
30275913 TTTTATATTTTA-CTT
1 TTTTATATTTTATTTT
*
30275928 TTTTCTATTTTATTTT
1 TTTTATATTTTATTTT
30275944 CTTGCATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATATTTTATTTT
Found at i:30284068 original size:79 final size:82
Alignment explanation
Indices: 30283957--30284141 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
30283947 GCTACTCGTT
* * *
30283957 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
30284020 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
30284037 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30284100 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30284117 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30284142 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30284141 original size:40 final size:40
Alignment explanation
Indices: 30283938--30284141 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
30283928 CGGAATTTAA
** *
30283938 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30283978 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30284018 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30284057 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30284097 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30284137 CCGGA
1 CCGGA
30284142 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30291987 original size:79 final size:82
Alignment explanation
Indices: 30291876--30292060 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
30291866 GCTACTCGTT
* * * *
30291876 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-AGATCTTAACCC
* *
30291939 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
30291956 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
* *
30292019 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30292036 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30292061 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 54 0.60
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30292060 original size:40 final size:40
Alignment explanation
Indices: 30291857--30292060 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
30291847 CGGAATTTAA
** *
30291857 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30291897 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30291937 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
30291976 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30292016 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30292056 CCGGA
1 CCGGA
30292061 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 92 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30296296 original size:50 final size:50
Alignment explanation
Indices: 30296237--30296337 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
30296227 AATTACGAAC
30296237 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
1 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
*
30296287 CAAACACAAAACCAAAAATGATTTATTAGTTTTAGTAAGAAAGTAATTCT
1 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
30296337 C
1 C
30296338 TCTCAATAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (50 bp):
CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
Found at i:30299364 original size:27 final size:28
Alignment explanation
Indices: 30299280--30299377 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
30299270 TAAATTGTAC
*
30299280 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
30299308 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
30299336 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
30299363 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30299378 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:30299388 original size:27 final size:27
Alignment explanation
Indices: 30299280--30299390 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
30299270 TAAATTGTAC
* *
30299280 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30299308 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30299336 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30299363 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30299390 A
1 A
30299391 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30301543 original size:24 final size:24
Alignment explanation
Indices: 30301515--30301702 Score: 96
Period size: 24 Copynumber: 7.6 Consensus size: 24
30301505 ATATAATAAA
30301515 AAGCTCATAAGAGCCATAATCGAG
1 AAGCTCATAAGAGCCATAATCGAG
** *
30301539 AAGCTCATGCGAGCCAATAA-CGGG
1 AAGCTCATAAGAGCC-ATAATCGAG
* ** *
30301563 TAGCTCCGAAGAGCCATTAA-CGTG
1 AAGCTCATAAGAGCCA-TAATCGAG
* *
30301587 AAGCTC-TAGATAGCCATATATCGGG
1 AAGCTCATA-AGAGCCATA-ATCGAG
*** *
30301612 AAGCTCCGGAGAGCGATTAATC-AGG
1 AAGCTCATAAGAGCCA-TAATCGA-G
* *
30301637 AAGCTCACAAAGAGCCTTTAATCGAG
1 AAGCTCA-TAAGAGCC-ATAATCGAG
* *
30301663 AAGCTCATGAAGAGCCATATAACGGG
1 AAGCTCAT-AAGAGCCATA-ATCGAG
*
30301689 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
30301703 TGTGGTGTGC
Statistics
Matches: 123, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
23 4 0.03
24 44 0.36
25 36 0.29
26 38 0.31
27 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATAATCGAG
Found at i:30301657 original size:26 final size:26
Alignment explanation
Indices: 30301628--30301678 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30301618 CGGAGAGCGA
30301628 TTAATC-AGGAAGCTCACAAAGAGCCT
1 TTAATCGA-GAAGCTCACAAAGAGCCT
**
30301654 TTAATCGAGAAGCTCATGAAGAGCC
1 TTAATCGAGAAGCTCACAAAGAGCC
30301679 ATATAACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TTAATCGAGAAGCTCACAAAGAGCCT
Found at i:30304702 original size:43 final size:43
Alignment explanation
Indices: 30304606--30304703 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
30304596 TACTTCGATT
* * *
30304606 TATCCAATGATGCACTGTGTGTGCCAGTATAACTGCTTTCGTT
1 TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTCGTA
* ** *
30304649 TTTCTGATGATGCACTATATGTGCCAGTATAATTGC-TTCGGTA
1 TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTC-GTA
30304692 TATCCAATGATG
1 TATCCAATGATG
30304704 TACTTACGGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 3 0.07
43 41 0.93
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (43 bp):
TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTCGTA
Found at i:30310512 original size:22 final size:21
Alignment explanation
Indices: 30310487--30310549 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
30310477 GCCAGTTAAT
30310487 AGAACGGCTAAAAGCCATAAGC
1 AGAACGGCTAAAAGCCATAA-C
* *
30310509 AGAAAGGC-AGAAAGCCTTGAAC
1 AGAACGGCTA-AAAGCCAT-AAC
*
30310531 AGAACGGCTACAAGCCATA
1 AGAACGGCTAAAAGCCATA
30310550 CACTTCCTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 2 0.06
22 28 0.85
23 3 0.09
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (21 bp):
AGAACGGCTAAAAGCCATAAC
Found at i:30314149 original size:25 final size:27
Alignment explanation
Indices: 30314121--30314181 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
30314111 AGGGGTAAAA
* *
30314121 TGGTAATTTTA-CCTTC-GGGGTATTT
1 TGGTCATTTTACCCTTCAAGGGTATTT
30314146 TGGTCATTTTACCCTTCAAGGGTATTT
1 TGGTCATTTTACCCTTCAAGGGTATTT
*
30314173 CGGTCATTT
1 TGGTCATTT
30314182 GATAACCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 5 0.16
27 16 0.52
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.46
Consensus pattern (27 bp):
TGGTCATTTTACCCTTCAAGGGTATTT
Found at i:30318703 original size:43 final size:43
Alignment explanation
Indices: 30318637--30318921 Score: 332
Period size: 43 Copynumber: 6.7 Consensus size: 43
30318627 TTTTGGAAAT
* * *
30318637 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTC-AC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-CTCAAC
* *
30318680 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-TCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
*
30318722 AAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTT-TACAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAAC
* * *
30318765 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGATTT-TCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAAC
* * * *
30318808 AAACGCCGCTGTAGATCAAGACCTTTAGCAGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
* *
30318851 AAACGCCGC-ATAGATCAAGACCTTTAGCGGCGCTTTTATCGAAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTCTC-AAC
30318895 AAACGCCGCTATAGAAT-AA-ACCTTTAG
1 AAACGCCGCTATAG-ATCAAGACCTTTAG
30318922 TGATGCTTCT
Statistics
Matches: 213, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 60 0.28
43 124 0.58
44 19 0.09
45 6 0.03
46 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
Found at i:30318778 original size:85 final size:84
Alignment explanation
Indices: 30318635--30318921 Score: 357
Period size: 85 Copynumber: 3.4 Consensus size: 84
30318625 ATTTTTGGAA
* * *
30318635 ATAAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT--TCACAAACGCCGCTATAGATCAAG
30318700 ACCTTTAGCGGCGCTTTT-CC
64 ACCTTTAGCGGCGCTTTTCCC
* *
30318720 ATAAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTTTACAACAAACGCCGCTATAGCTCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-C-ACAAACGCCGCTATAGATCAAG
*
30318785 ACCTTTAGCGGCGATTTTCCC
64 ACCTTTAGCGGCGCTTTTCCC
* * *
30318806 ACAAACGCCGCTGTAGATCAAGACCTTTAGCAGCGCTTTTTCTACAAACGCCGC-ATAGATCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTC-ACAAACGCCGCTATAGATCAAG
**
30318870 ACCTTTAGCGGCGCTTTTATCGA
64 ACCTTTAGCGGCGC-TTT-TCCC
*
30318893 AAAAACGCCGCTATAGAAT-AA-ACCTTTAG
1 ATAAACGCCGCTATAG-ATCAAGACCTTTAG
30318922 TGATGCTTCT
Statistics
Matches: 178, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 95 0.53
86 57 0.32
87 22 0.12
88 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (84 bp):
ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACAAACGCCGCTATAGATCAAGAC
CTTTAGCGGCGCTTTTCCC
Found at i:30318865 original size:128 final size:130
Alignment explanation
Indices: 30318632--30318909 Score: 413
Period size: 128 Copynumber: 2.1 Consensus size: 130
30318622 GGCATTTTTG
*
30318632 GAAATAAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATC
1 GAAA-AAACGCCGCTATAGACCAAGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATC
* * *
30318697 AAGACCTTTAGCGGCGCTTTTCCATAAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTTTA-
65 AAGACCTTTAGCAGCGCTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTAT
30318761 C
130 C
* * *
30318762 -AACAAACGCCGCTATAG-CTCAAGACCTTTAGCGGCGATTTTCC-CACAAACGCCGCTGTAGAT
1 GAAAAAACGCCGCTATAGAC-CAAGACCTTTAGCGGC-ACTTTCCTCACAAACGCCGCTATAGAT
*
30318824 CAAGACCTTTAGCAGCGCTTTTTCTACAAACGCCGC-ATAGATCAAGACCTTTAGCGGCGCTTTT
64 CAAGACCTTTAGCAGCGC-TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT
30318888 ATC
128 ATC
30318891 GAAAAAACGCCGCTATAGA
1 GAAAAAACGCCGCTATAGA
30318910 ATAAACCTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
127 1 0.01
128 92 0.69
129 24 0.18
130 16 0.12
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (130 bp):
GAAAAAACGCCGCTATAGACCAAGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCA
AGACCTTTAGCAGCGCTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTATC
Found at i:30322447 original size:102 final size:105
Alignment explanation
Indices: 30322331--30322528 Score: 287
Period size: 107 Copynumber: 1.9 Consensus size: 105
30322321 ACAAAGAAAT
* *
30322331 TTTCATTTTGAACAAAATGATG-CAGTTTTACTATTCTAAAAA-TTTTTA-T-TTTTTTATAAAT
1 TTTCATTTTGAACAAAATGACGTC-GTTTTACTATGCTAAAAATTTTTTATTGTTTTTTATAAAT
*
30322392 TGATTTATTTTTTGCGTCATTTTAATAAAAAAACGCCGCTA
65 TGATTTATTTTTTGCGGCATTTTAATAAAAAAACGCCGCTA
*
30322433 TTTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAATGACGTCGTTTTACTATGCTAAAAATTTTTTA--TTGTTTTTTATAAA
* *
30322498 TTGATTTATTTTTTGCGGCGTTTTTATAAAA
64 TTGATTTATTTTTTGCGGCATTTTAATAAAA
30322529 TTTGATCGGG
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
102 37 0.44
103 7 0.08
106 1 0.01
107 39 0.46
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (105 bp):
TTTCATTTTGAACAAAATGACGTCGTTTTACTATGCTAAAAATTTTTTATTGTTTTTTATAAATT
GATTTATTTTTTGCGGCATTTTAATAAAAAAACGCCGCTA
Found at i:30323334 original size:19 final size:17
Alignment explanation
Indices: 30323310--30323366 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
30323300 CTTTTTTTCA
30323310 AACAAAAAAATAACAGAAT
1 AACAAAAAAATAA-A-AAT
30323329 AAC-AAAAAATAAAAAT
1 AACAAAAAAATAAAAAT
*
30323345 AA-AATAAAATAATAAA-
1 AACAAAAAAATAA-AAAT
30323361 AACAAA
1 AACAAA
30323367 TCCTAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 15 0.45
17 6 0.18
18 9 0.27
19 3 0.09
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (17 bp):
AACAAAAAAATAAAAAT
Found at i:30338016 original size:50 final size:50
Alignment explanation
Indices: 30337957--30338057 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
30337947 AATTACGAAC
30337957 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
1 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
*
30338007 CAAACACAAAACCAAAAATGATTTATTAGTTTTAGTAAGAAAGTAATTCT
1 CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
30338057 C
1 C
30338058 TCTCAATAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (50 bp):
CAAACACAAAACCAAAAATGATTTATTAGTTTCAGTAAGAAAGTAATTCT
Found at i:30341073 original size:56 final size:56
Alignment explanation
Indices: 30340982--30341104 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
30340972 GAGATTGGCG
* * *
30340982 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
30341039 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
30341094 CTGAGTGTGCG
1 CTAAGTGTGCG
30341105 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:30341091 original size:27 final size:28
Alignment explanation
Indices: 30340982--30341104 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
30340972 GAGATTGGCG
* * * *
30340982 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
30341011 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
30341039 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
30341067 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
30341094 CTGAGTGTGCG
1 CTAAGTGTGCG
30341105 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:30341115 original size:27 final size:27
Alignment explanation
Indices: 30341007--30341117 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
30340997 TAAATTGTAC
* * *
30341007 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30341035 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30341063 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30341090 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30341117 A
1 A
30341118 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30343268 original size:24 final size:24
Alignment explanation
Indices: 30343240--30343427 Score: 96
Period size: 24 Copynumber: 7.6 Consensus size: 24
30343230 ATATAATAAA
30343240 AAGCTCATAAGAGCCATAATCGAG
1 AAGCTCATAAGAGCCATAATCGAG
** *
30343264 AAGCTCATGCGAGCCAATAA-CGGG
1 AAGCTCATAAGAGCC-ATAATCGAG
* ** *
30343288 TAGCTCCGAAGAGCCATTAA-CGTG
1 AAGCTCATAAGAGCCA-TAATCGAG
* *
30343312 AAGCTC-TAGATAGCCATATATCGGG
1 AAGCTCATA-AGAGCCATA-ATCGAG
*** *
30343337 AAGCTCCGGAGAGCGATTAATC-AGG
1 AAGCTCATAAGAGCCA-TAATCGA-G
* *
30343362 AAGCTCACAAAGAGCCTTTAATCGAG
1 AAGCTCA-TAAGAGCC-ATAATCGAG
* *
30343388 AAGCTCATGAAGAGCCATATAACGGG
1 AAGCTCAT-AAGAGCCATA-ATCGAG
*
30343414 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
30343428 TGTGGTGTGC
Statistics
Matches: 123, Mismatches: 28, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
23 4 0.03
24 44 0.36
25 36 0.29
26 38 0.31
27 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (24 bp):
AAGCTCATAAGAGCCATAATCGAG
Found at i:30343382 original size:26 final size:26
Alignment explanation
Indices: 30343353--30343403 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30343343 CGGAGAGCGA
30343353 TTAATC-AGGAAGCTCACAAAGAGCCT
1 TTAATCGA-GAAGCTCACAAAGAGCCT
**
30343379 TTAATCGAGAAGCTCATGAAGAGCC
1 TTAATCGAGAAGCTCACAAAGAGCC
30343404 ATATAACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TTAATCGAGAAGCTCACAAAGAGCCT
Found at i:30346426 original size:43 final size:43
Alignment explanation
Indices: 30346330--30346427 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
30346320 TACTTCGATT
* * *
30346330 TATCCAATGATGCACTGTGTGTGCCAGTATAACTGCTTTCGTT
1 TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTCGTA
* ** *
30346373 TTTCTGATGATGCACTATATGTGCCAGTATAATTGC-TTCGGTA
1 TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTC-GTA
30346416 TATCCAATGATG
1 TATCCAATGATG
30346428 TACTTACGGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
42 3 0.07
43 41 0.93
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (43 bp):
TATCCAATGATGCACTATATGTGCCAGTATAACTGCTTTCGTA
Found at i:30352106 original size:22 final size:21
Alignment explanation
Indices: 30352081--30352142 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
30352071 GCCAGTTAAT
30352081 AGAACGGCTAAAAGCCATAAGC
1 AGAACGGCTAAAAGCCATAA-C
* *
30352103 AGAAAGGC-AGAAAG-CTTGAAC
1 AGAACGGCTA-AAAGCCAT-AAC
*
30352124 AGAACGGCTACAAGCCATA
1 AGAACGGCTAAAAGCCATA
30352143 CACTTCCTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 9
0.69 0.11 0.20
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (21 bp):
AGAACGGCTAAAAGCCATAAC
Found at i:30355713 original size:25 final size:27
Alignment explanation
Indices: 30355685--30355745 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
30355675 AGGGGTAAAA
* *
30355685 TGGTAATTTTA-CCTTC-GGGGTATTT
1 TGGTCATTTTACCCTTCAAGGGTATTT
30355710 TGGTCATTTTACCCTTCAAGGGTATTT
1 TGGTCATTTTACCCTTCAAGGGTATTT
*
30355737 CGGTCATTT
1 TGGTCATTT
30355746 GATAACCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 5 0.16
27 16 0.52
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.46
Consensus pattern (27 bp):
TGGTCATTTTACCCTTCAAGGGTATTT
Found at i:30360289 original size:43 final size:43
Alignment explanation
Indices: 30360223--30360506 Score: 332
Period size: 43 Copynumber: 6.7 Consensus size: 43
30360213 TTTTGGAAAT
* * *
30360223 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTC-AC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-CTCAAC
* *
30360266 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-TCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
*
30360308 AAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTT-TACAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAAC
* * *
30360351 AAACGCCGCTATAGCTCAAGACCTTTAGCGGCGATTT-TCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCT-CAAC
* * * *
30360394 AAACGCCGCTGTAGATCAAGACCTTTAGCAGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
*
30360437 AAACGCCGC-ATAGATCAAGACCTTTAGCGGCGCTTTTATCGAA-
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTCTC-AAC
30360480 AAACGCCGCTATAGAAT-AA-ACCTTTAG
1 AAACGCCGCTATAG-ATCAAGACCTTTAG
30360507 TGATGCTTCT
Statistics
Matches: 213, Mismatches: 21, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.01
42 60 0.28
43 141 0.66
44 8 0.04
45 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTCTCAAC
Found at i:30360364 original size:85 final size:83
Alignment explanation
Indices: 30360221--30360506 Score: 362
Period size: 85 Copynumber: 3.4 Consensus size: 83
30360211 ATTTTTGGAA
* * *
30360221 ATAAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT--TCACAAACGCCGCTATAGATCAAG
30360286 ACCTTTAGCGGCGCTTTTCC
64 ACCTTTAGCGGCGCTTTTCC
* *
30360306 ATAAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTTTACAACAAACGCCGCTATAGCTCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTT-C-ACAAACGCCGCTATAGATCAAG
*
30360371 ACCTTTAGCGGCGATTTTCCC
64 ACCTTTAGCGGCGCTTTT-CC
* * *
30360392 ACAAACGCCGCTGTAGATCAAGACCTTTAGCAGCGCTTTTTCTACAAACGCCGC-ATAGATCAAG
1 ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC-TTTTC-ACAAACGCCGCTATAGATCAAG
*
30360456 ACCTTTAGCGGCGCTTTTATCG
64 ACCTTTAGCGGCGC-TTT-TCC
*
30360478 AAAAACGCCGCTATAGAAT-AA-ACCTTTAG
1 ATAAACGCCGCTATAG-ATCAAGACCTTTAG
30360507 TGATGCTTCT
Statistics
Matches: 178, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 103 0.58
86 66 0.37
87 7 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (83 bp):
ATAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCACAAACGCCGCTATAGATCAAGAC
CTTTAGCGGCGCTTTTCC
Found at i:30360451 original size:128 final size:129
Alignment explanation
Indices: 30360223--30360494 Score: 410
Period size: 128 Copynumber: 2.1 Consensus size: 129
30360213 TTTTGGAAAT
*
30360223 AAACGCCGCTATAGACCATGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTATAGACCAAGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCAAGAC
* * *
30360288 CTTTAGCGGCGCTTTTCCATAAACGCCGCTATAGATCAAGATCTTTAGCGGCGCTTTTA-C-AA
66 CTTTAGCAGCGCTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTATCGAA
* *
30360350 CAAACGCCGCTATAG-CTCAAGACCTTTAGCGGCGATTTTCC-CACAAACGCCGCTGTAGATCAA
1 -AAACGCCGCTATAGAC-CAAGACCTTTAGCGGC-ACTTTCCTCACAAACGCCGCTATAGATCAA
*
30360413 GACCTTTAGCAGCGCTTTTTCTACAAACGCCGC-ATAGATCAAGACCTTTAGCGGCGCTTTTATC
63 GACCTTTAGCAGCGC-TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTATC
30360477 GAA
127 GAA
30360480 AAACGCCGCTATAGA
1 AAACGCCGCTATAGA
30360495 ATAAACCTTT
Statistics
Matches: 131, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
127 1 0.01
128 92 0.70
129 36 0.27
130 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (129 bp):
AAACGCCGCTATAGACCAAGACCTTTAGCGGCACTTTCCTCACAAACGCCGCTATAGATCAAGAC
CTTTAGCAGCGCTTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTATCGAA
Found at i:30364030 original size:103 final size:105
Alignment explanation
Indices: 30363911--30364109 Score: 287
Period size: 103 Copynumber: 1.9 Consensus size: 105
30363901 ACAAAGAAAT
* *
30363911 TTTCATTTTGAACAAAATGATG-CAGTTTTACTATTCTAAAAAATTTTTA-T-TTTTTTATAAAT
1 TTTCATTTTGAACAAAATGACGTC-GTTTTACTATGCTAAAAAATTTTTATTGTTTTTTATAAAT
*
30363973 TGATTTATTTTTTGCGTCATTTTAATAAAAAAACGCCGCTA
65 TGATTTATTTTTTGCGGCATTTTAATAAAAAAACGCCGCTA
* *
30364014 TTTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTAAAAATTTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAATGACGTCGTTTTACTATGCTAAAAAATTTTTA--TTGTTTTTTATAAA
* *
30364079 TTGATTTATTTTTTGCGGCGTTTTTATAAAA
64 TTGATTTATTTTTTGCGGCATTTTAATAAAA
30364110 TTTGATCGGG
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
103 43 0.51
104 1 0.01
106 1 0.01
107 39 0.46
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (105 bp):
TTTCATTTTGAACAAAATGACGTCGTTTTACTATGCTAAAAAATTTTTATTGTTTTTTATAAATT
GATTTATTTTTTGCGGCATTTTAATAAAAAAACGCCGCTA
Done.