Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 226 of 228
Found at i:67056038 original size:21 final size:21
Alignment explanation
Indices: 67056012--67056052 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67056002 ATCTGCTCAA
* *
67056012 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
67056033 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
67056053 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:67062392 original size:22 final size:23
Alignment explanation
Indices: 67062365--67062407 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67062355 ATTAAATTAA
67062365 AAAATAA-AAAGAAACGAATAGT
1 AAAATAATAAAGAAACGAATAGT
*
67062387 AAAATAATAAAGAAAGGAATA
1 AAAATAATAAAGAAACGAATA
67062408 ATTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (23 bp):
AAAATAATAAAGAAACGAATAGT
Found at i:67063107 original size:15 final size:15
Alignment explanation
Indices: 67063089--67063118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
67063079 AAGATATTTT
67063089 AACAAATGAAATTAA
1 AACAAATGAAATTAA
*
67063104 AACAAATGAATTTAA
1 AACAAATGAAATTAA
67063119 CAATAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
AACAAATGAAATTAA
Found at i:67077122 original size:11 final size:11
Alignment explanation
Indices: 67077106--67077136 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67077096 TAGAATATAC
67077106 CCCATACCTTG
1 CCCATACCTTG
*
67077117 CCCATACCTTT
1 CCCATACCTTG
67077128 CCCATACCT
1 CCCATACCT
67077137 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:67077705 original size:18 final size:18
Alignment explanation
Indices: 67077682--67077774 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
67077672 TACGACCGTT
67077682 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
*
67077700 TACGGCACTATTTACGTA
1 TACGGCACTATTCACGTA
* * *
67077718 TACAGTATTATTCACGTA
1 TACGGCACTATTCACGTA
67077736 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
67077754 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
67077772 TAC
1 TAC
67077775 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:67077737 original size:36 final size:36
Alignment explanation
Indices: 67077688--67077774 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 36
67077678 CGTTTACGGC
*
67077688 ACTATTCACGTATACGGCACTATTTACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
67077724 ATTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
67077760 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
67077775 AGTAGTTGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:67081836 original size:11 final size:11
Alignment explanation
Indices: 67081820--67081850 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
67081810 TAGAATATAC
67081820 CCCATACCTTG
1 CCCATACCTTG
*
67081831 CCCATACCTTT
1 CCCATACCTTG
67081842 CCCATACCT
1 CCCATACCT
67081851 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:67104409 original size:77 final size:77
Alignment explanation
Indices: 67104299--67104454 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
67104289 AGGCAATGTA
67104299 AACACAAATTGTTCCTAAACATAATTATATATTAAATTAAAAAATAAAAAGAAACAAATAGTAAA
1 AACACAAATTGTTCCTAAACATAATTATATATTAAATTAAAAAATAAAAAGAAACAAATAGTAAA
67104364 AGAATAAAAAAG
66 AGAATAAAAAAG
67104376 AACACAAATTGTTCCTAAACATAATTATATATTAAATTAAAAAATAAAAAGAAACAAATAGTAAA
1 AACACAAATTGTTCCTAAACATAATTATATATTAAATTAAAAAATAAAAAGAAACAAATAGTAAA
67104441 AGAATAAAAAAG
66 AGAATAAAAAAG
67104453 AA
1 AA
67104455 TAATTTATTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.63, C:0.08, G:0.06, T:0.23
Consensus pattern (77 bp):
AACACAAATTGTTCCTAAACATAATTATATATTAAATTAAAAAATAAAAAGAAACAAATAGTAAA
AGAATAAAAAAG
Found at i:67105162 original size:16 final size:16
Alignment explanation
Indices: 67105141--67105176 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
67105131 AAGATATTTT
67105141 AACAAATGAAATTAAC
1 AACAAATGAAATTAAC
67105157 AACAAATGAAATTAAC
1 AACAAATGAAATTAAC
67105173 AACA
1 AACA
67105177 GATACGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (16 bp):
AACAAATGAAATTAAC
Found at i:67112741 original size:18 final size:18
Alignment explanation
Indices: 67112718--67112752 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67112708 ATATTTTTTA
*
67112718 AATTCAGATATCAAAATG
1 AATTCAGATACCAAAATG
67112736 AATTCAGATACCAAAAT
1 AATTCAGATACCAAAAT
67112753 AAACCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (18 bp):
AATTCAGATACCAAAATG
Found at i:67115647 original size:3 final size:3
Alignment explanation
Indices: 67115639--67115664 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
67115629 CTCCTAATAT
67115639 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
67115665 TTACAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:67121496 original size:12 final size:13
Alignment explanation
Indices: 67121479--67121515 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
67121469 GAACCGGACA
67121479 CGAACCGAA-CTC
1 CGAACCGAAGCTC
67121491 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
67121503 CGAACCGTAGCTC
1 CGAACCGAAGCTC
67121516 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:67124911 original size:18 final size:17
Alignment explanation
Indices: 67124888--67124925 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
67124878 GAACACCTTT
67124888 TATATATA-GTTGTATAGA
1 TATATATATG-TGTATA-A
67124906 TATATATATGTGTATAA
1 TATATATATGTGTATAA
67124923 TAT
1 TAT
67124926 TAGTATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 14 0.74
19 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
TATATATATGTGTATAA
Found at i:67126824 original size:31 final size:31
Alignment explanation
Indices: 67126783--67126866 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 31
67126773 AAAAACTTTA
67126783 AAATTAAAAAGTAAATGGACTAAAA-TTGA-C
1 AAATT-AAAAGTAAATGGACTAAAATTTGATC
*
67126813 AAATTTGAAAAGTATAA-AGAC-AAAATTTGATC
1 AAA-TT-AAAAGTA-AATGGACTAAAATTTGATC
*
67126845 AAATT-AAAGTACATGGACTAAA
1 AAATTAAAAGTAAATGGACTAAA
67126867 TCCATAACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
28 1 0.02
29 9 0.20
30 10 0.23
31 18 0.41
32 6 0.14
ACGTcount: A:0.55, C:0.07, G:0.13, T:0.25
Consensus pattern (31 bp):
AAATTAAAAGTAAATGGACTAAAATTTGATC
Found at i:67137041 original size:57 final size:58
Alignment explanation
Indices: 67136944--67137054 Score: 197
Period size: 57 Copynumber: 1.9 Consensus size: 58
67136934 TTGGTATTCT
67136944 TCTTGTCCATTTTATAATTTATATTCGAGATTTATAGTTATTCCTCTCAACAATGTTG
1 TCTTGTCCATTTTATAATTTATATTCGAGATTTATAGTTATTCCTCTCAACAATGTTG
* *
67137002 TCTT-TCCGTTTTATAATTTATATTCGAGATTTGTAGTTATTCCTCTCAACAAT
1 TCTTGTCCATTTTATAATTTATATTCGAGATTTATAGTTATTCCTCTCAACAAT
67137055 ACTGTCTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
57 47 0.92
58 4 0.08
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (58 bp):
TCTTGTCCATTTTATAATTTATATTCGAGATTTATAGTTATTCCTCTCAACAATGTTG
Found at i:67147505 original size:57 final size:57
Alignment explanation
Indices: 67147414--67147525 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 57
67147404 TCTTCTTATC
* *
67147414 CATTTTAAAATTTATATTCGGGATTTATAGTTATTCCTCTCAACAATATTGTCTTTG
1 CATTTTAAAATTTATATTCGAGATTTATAATTATTCCTCTCAACAATATTGTCTTTG
* *
67147471 CATTTTATAATTTATATTCGAGATTTGTAATTATTCCTCTCAACAATATTGTCTT
1 CATTTTAAAATTTATATTCGAGATTTATAATTATTCCTCTCAACAATATTGTCTT
67147526 CGATGCTTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (57 bp):
CATTTTAAAATTTATATTCGAGATTTATAATTATTCCTCTCAACAATATTGTCTTTG
Found at i:67153286 original size:16 final size:16
Alignment explanation
Indices: 67153253--67153286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67153243 AGGGTATGTT
* *
67153253 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
67153269 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
67153285 AA
1 AA
67153287 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:67156113 original size:21 final size:21
Alignment explanation
Indices: 67156087--67156127 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67156077 AGACGAGCAA
* *
67156087 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
67156108 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
67156128 TTAAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:67158057 original size:16 final size:16
Alignment explanation
Indices: 67158024--67158057 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
67158014 GGAGATTGTT
* *
67158024 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
67158040 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
67158056 AA
1 AA
67158058 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:67161378 original size:9 final size:8
Alignment explanation
Indices: 67161356--67161380 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
67161346 TAAGTTGTAT
67161356 TTAAAAAA
1 TTAAAAAA
67161364 TTAAAAAA
1 TTAAAAAA
67161372 TTAAAAAA
1 TTAAAAAA
67161380 T
1 T
67161381 ATATAAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TTAAAAAA
Found at i:67163659 original size:7 final size:7
Alignment explanation
Indices: 67163647--67163671 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67163637 GGGGTCAAAA
67163647 TTAAATT
1 TTAAATT
67163654 TTAAATT
1 TTAAATT
67163661 TTAAATT
1 TTAAATT
67163668 TTAA
1 TTAA
67163672 TAGCTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:67171413 original size:21 final size:22
Alignment explanation
Indices: 67171384--67171430 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
67171374 CAGAAGGAGT
*
67171384 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
67171406 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
67171427 GAGT
1 GAGT
67171431 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:67174507 original size:2 final size:2
Alignment explanation
Indices: 67174500--67174529 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67174490 TTCCTTATTT
67174500 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
67174530 CCCCATTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:67176906 original size:36 final size:36
Alignment explanation
Indices: 67176866--67176973 Score: 189
Period size: 36 Copynumber: 3.0 Consensus size: 36
67176856 GATGTAAAAA
67176866 ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
* * *
67176902 ATGGTACAACAAATGAAGTGATTTCATCTGATGTTG
1 ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
67176938 ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
1 ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
67176974 GTGGGGGTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (36 bp):
ATGGTACTACGAATGAAGTGGTTTCATCTGATGTTG
Found at i:67177184 original size:285 final size:285
Alignment explanation
Indices: 67176669--67177190 Score: 823
Period size: 285 Copynumber: 1.8 Consensus size: 285
67176659 CTACAAACAC
67176669 AGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCCTGTTG
1 AGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCCTGTTG
* * *
67176734 GGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTGGTTATGATTCTCAAAAG
66 AGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTCAAAAG
* ** *
67176799 GATTCTTTTGATAATATTTCTGTGGGAAGTGAAGAGTCGCCTGCTAAAGAACCTCAAGATGTAAA
131 GATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGGCTAAAGAACCTCAAGATATAAA
* * *
67176864 AAATGGTACTACGAATGAAGTGGTTTCATCTGATGTTGATGGTACAACAAATGAAGTGATTTCAT
196 AAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACAAATGAAGTGATTTCAT
67176929 CTGATGTTGATGGTACTACGAATGA
261 CTGATGTTGATGGTACTACGAATGA
* * **
67176954 AGTGGTTTCATCTGATGTTGGTGGGGGTAATAGGATGACTTCAGACATC-AGAACTGTGCCTGTT
1 AGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGAC-TCAAGAACCATGCCTGTT
*
67177018 GAGACTGATGACTT-GAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTCCAA
65 GAGACTGATGA-TTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTCAAA
* * * *
67177082 AGGATTCTTTTGATACTATTTCTGTGAGAAGTGAAGAGTTGCAGGCTAAGGAACCTCAGGATATA
129 AGGATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGGCTAAAGAACCTCAAGATATA
* *
67177147 AAAGATGATAATACGAATGATGTGGTTTCACCTGATGTTGATGG
194 AAAAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGG
67177191 GGGTAATAGG
Statistics
Matches: 214, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
285 210 0.98
286 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (285 bp):
AGTGGTTGCATCTGATGTTGGTGGGGGTAATAAGATGACTTCAGACTCAAGAACCATGCCTGTTG
AGACTGATGATTCGAGTACAGAGAAACAGGAATCTCAAGGATGCTCTAGCTATGATTCTCAAAAG
GATTCTTTTGATAATATTTCTGTGAGAAGTGAAGAGTCGCAGGCTAAAGAACCTCAAGATATAAA
AAATGATAATACGAATGAAGTGGTTTCACCTGATGTTGATGGTACAACAAATGAAGTGATTTCAT
CTGATGTTGATGGTACTACGAATGA
Found at i:67179131 original size:14 final size:13
Alignment explanation
Indices: 67179114--67179139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67179104 TTTGTTTTTA
67179114 TTTTTTTTTCACC
1 TTTTTTTTTCACC
67179127 TTTTTTTTTCACC
1 TTTTTTTTTCACC
67179140 AATTCCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTTTTCACC
Found at i:67180998 original size:30 final size:31
Alignment explanation
Indices: 67180963--67181020 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
67180953 TGTTTTTCTT
67180963 TTAATTTGTTAAATTTTT-TAAA-TATTTTTA
1 TTAATTT-TTAAATTTTTATAAATTATTTTTA
*
67180993 TTAATTTTTAAGTTTTTATAAATTATTT
1 TTAATTTTTAAATTTTTATAAATTATTT
67181021 ATAAACTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 9 0.36
30 11 0.44
31 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
TTAATTTTTAAATTTTTATAAATTATTTTTA
Found at i:67192881 original size:19 final size:20
Alignment explanation
Indices: 67192839--67192881 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
67192829 ATTAAATAAG
* *
67192839 ATTTGCTTTGCCATTATTGT
1 ATTTGCTTTGACATTATAGT
67192859 ATTTGCTTTGACATT-TAGT
1 ATTTGCTTTGACATTATAGT
67192878 ATTT
1 ATTT
67192882 ATACAATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (20 bp):
ATTTGCTTTGACATTATAGT
Found at i:67194852 original size:16 final size:18
Alignment explanation
Indices: 67194833--67194869 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
67194823 TTTTTTGTAT
67194833 TATAAAT-T-ACATAATA
1 TATAAATATAACATAATA
*
67194849 TATAAATATAATATAATA
1 TATAAATATAACATAATA
67194867 TAT
1 TAT
67194870 CAGAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:67197790 original size:30 final size:30
Alignment explanation
Indices: 67197711--67197829 Score: 100
Period size: 30 Copynumber: 3.8 Consensus size: 30
67197701 CTAACACCCA
*
67197711 TTTCAAAAAAATTAAAAGGTTTAATTGAATT
1 TTTCAAAAAAATTAAGAGGTTTAA-TGAATT
*
67197742 TTT-ATTAAAAAAAT-AGAGGTTTAATGAATT
1 TTTCA--AAAAAATTAAGAGGTTTAATGAATT
* * *
67197772 TTTCAAAAAATTTAAGAGGATTAATAAAATCT
1 TTTCAAAAAAATTAAGAGGTTTAAT-GAAT-T
*
67197804 TTTGAAAAAGAATT-AGATGGTTTAAT
1 TTTCAAAAA-AATTAAGA-GGTTTAAT
67197830 TAAAATTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
29 6 0.08
30 20 0.28
31 16 0.23
32 19 0.27
33 10 0.14
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.38
Consensus pattern (30 bp):
TTTCAAAAAAATTAAGAGGTTTAATGAATT
Found at i:67204990 original size:30 final size:30
Alignment explanation
Indices: 67204914--67204991 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
67204904 ATTTTAACTT
* * *
67204914 TTTAAATATTTAAAATATTAATAGATAATA
1 TTTAATTATTTATATTATTAATAGATAATA
*
67204944 TTATAATT-TTTAATATTATTAA-ATATAAATA
1 TT-TAATTATTT-ATATTATTAATAGAT-AATA
67204975 TTTAATTATTTATATTA
1 TTTAATTATTTATATTA
67204992 AATAATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTAATTATTTATATTATTAATAGATAATA
Found at i:67204999 original size:30 final size:31
Alignment explanation
Indices: 67204940--67205001 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
67204930 ATTAATAGAT
*
67204940 AATATTATAATTTTTAATATTATTAAATATA
1 AATATTATAATTTTTAATATTAATAAATATA
67204971 AATATT-TAATTATTT-ATATTAA-ATAATATA
1 AATATTATAATT-TTTAATATTAATA-AATATA
67205001 A
1 A
67205002 GAAAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.04
30 18 0.64
31 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
AATATTATAATTTTTAATATTAATAAATATA
Found at i:67205144 original size:15 final size:15
Alignment explanation
Indices: 67205120--67205152 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
67205110 TATTTATATT
*
67205120 AATATTTTAATAATA
1 AATATATTAATAATA
67205135 AATATATTAATAATA
1 AATATATTAATAATA
67205150 AAT
1 AAT
67205153 GTTTTATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:67206108 original size:32 final size:31
Alignment explanation
Indices: 67206052--67206114 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
67206042 CATTTCAAAA
* *
67206052 TTTTTTAAAAAGTTGATGGTTAAATTCAATT
1 TTTTTTAAAAAGTTGAAGGCTAAATTCAATT
* *
67206083 TTTTTTAAAAATTTTGAAGGCTAAATTTAATT
1 TTTTTTAAAAA-GTTGAAGGCTAAATTCAATT
67206115 AAATAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (31 bp):
TTTTTTAAAAAGTTGAAGGCTAAATTCAATT
Found at i:67207367 original size:10 final size:11
Alignment explanation
Indices: 67207323--67207364 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
67207313 AAACACCAAT
*
67207323 TTTTAAAAAAA
1 TTTTAAAAATA
*
67207334 TTTAAAAAAGTA
1 TTTTAAAAA-TA
67207346 TTTTAAAAATA
1 TTTTAAAAATA
67207357 TTTTAAAA
1 TTTTAAAA
67207365 TATAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:67211257 original size:12 final size:14
Alignment explanation
Indices: 67211228--67211264 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67211218 TCAAGATAGG
67211228 AAAATTGACACTAA
1 AAAATTGACACTAA
*
67211242 AAAATTGACATTAA
1 AAAATTGACACTAA
67211256 AAAATTGAC
1 AAAATTGAC
67211265 CTTTCTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (14 bp):
AAAATTGACACTAA
Found at i:67212170 original size:18 final size:19
Alignment explanation
Indices: 67212133--67212173 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
67212123 TGGGAGACAA
67212133 AAATGCCAGAAATAAAAAT
1 AAATGCCAGAAATAAAAAT
* *
67212152 AAATGCCTGGAAT-AAAAT
1 AAATGCCAGAAATAAAAAT
67212170 AAAT
1 AAAT
67212174 TGAGGTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (19 bp):
AAATGCCAGAAATAAAAAT
Found at i:67212290 original size:16 final size:16
Alignment explanation
Indices: 67212269--67212303 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
67212259 AGAGGGTTCC
67212269 AATCGGATAATCTAGT
1 AATCGGATAATCTAGT
67212285 AATCGGATAATCTAGT
1 AATCGGATAATCTAGT
67212301 AAT
1 AAT
67212304 TTAAGTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (16 bp):
AATCGGATAATCTAGT
Found at i:67217892 original size:21 final size:23
Alignment explanation
Indices: 67217868--67217914 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
67217858 ACACAATTAG
* *
67217868 ATATT-ATAATTTTTAAAAAT-A
1 ATATTAATAATTATAAAAAATCA
67217889 ATATTAATAATTATAAAAAATCA
1 ATATTAATAATTATAAAAAATCA
67217912 ATA
1 ATA
67217915 ATACCTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATTAATAATTATAAAAAATCA
Found at i:67218908 original size:6 final size:7
Alignment explanation
Indices: 67218891--67218918 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
67218881 AATTGGCTTC
67218891 TTTTTTA
1 TTTTTTA
67218898 TTTTTTA
1 TTTTTTA
67218905 TTTTTTA
1 TTTTTTA
67218912 TTTTTTA
1 TTTTTTA
67218919 AATTTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:67220098 original size:16 final size:17
Alignment explanation
Indices: 67220077--67220108 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
67220067 TAATAATAAT
67220077 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
67220093 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
67220109 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:67220795 original size:17 final size:17
Alignment explanation
Indices: 67220773--67220807 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
67220763 GAATGGTCTC
*
67220773 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
67220790 TGTTTCTTTTATTCTTT
1 TGTTTCTTTTATTCTTT
67220807 T
1 T
67220808 ATTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:67220869 original size:21 final size:22
Alignment explanation
Indices: 67220835--67220875 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
67220825 TATTAGTTAA
67220835 TAATAATAACAATATATAATAT
1 TAATAATAACAATATATAATAT
* *
67220857 TAAT-ATAATAATATTTAAT
1 TAATAATAACAATATATAAT
67220876 TCACAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAATAACAATATATAATAT
Found at i:67221038 original size:30 final size:27
Alignment explanation
Indices: 67221002--67221066 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
67220992 TTTCCTATAA
*
67221002 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
67221032 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
67221059 TATAATAT
1 TATAATAT
67221067 AATTCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:67221068 original size:16 final size:17
Alignment explanation
Indices: 67221032--67221069 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
67221022 TAATATAATT
67221032 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
67221049 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
67221064 TATAAT
1 TATAAT
67221070 TCAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:67226062 original size:12 final size:12
Alignment explanation
Indices: 67226045--67226072 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
67226035 AATTGAATCT
67226045 AAGGCCATGGTG
1 AAGGCCATGGTG
67226057 AAGGCCATGGTG
1 AAGGCCATGGTG
67226069 AAGG
1 AAGG
67226073 GGAAGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (12 bp):
AAGGCCATGGTG
Found at i:67227761 original size:42 final size:42
Alignment explanation
Indices: 67227714--67227793 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
67227704 AAAACACATC
*
67227714 ATCAATAAATTTGTAAATAATT-AGTTAAATTCTATTATGAGT
1 ATCAATAAATTAGTAAATAATTGA-TTAAATTCTATTATGAGT
67227756 ATCAATAAATTAGTAAATAATTGATTAAATTCTATTAT
1 ATCAATAAATTAGTAAATAATTGATTAAATTCTATTAT
67227794 TATTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (42 bp):
ATCAATAAATTAGTAAATAATTGATTAAATTCTATTATGAGT
Found at i:67228918 original size:22 final size:23
Alignment explanation
Indices: 67228893--67228936 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67228883 ATAGTAAGTA
67228893 TCGAAATTTAA-TTATAATTTTT
1 TCGAAATTTAATTTATAATTTTT
**
67228915 TCGAGTTTTAATTTATAATTTT
1 TCGAAATTTAATTTATAATTTT
67228937 ATATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (23 bp):
TCGAAATTTAATTTATAATTTTT
Found at i:67242016 original size:35 final size:36
Alignment explanation
Indices: 67241965--67242033 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
67241955 ATATACATAC
*
67241965 ATATATGTATGTATGTGAACATGGATGAATGTGGAG
1 ATATATATATGTATGTGAACATGGATGAATGTGGAG
67242001 ATATATATAT-TATGTGAACATGGATGAATGTGG
1 ATATATATATGTATGTGAACATGGATGAATGTGG
67242034 GCACAAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 23 0.72
36 9 0.28
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.35
Consensus pattern (36 bp):
ATATATATATGTATGTGAACATGGATGAATGTGGAG
Found at i:67253671 original size:30 final size:30
Alignment explanation
Indices: 67253635--67253748 Score: 174
Period size: 30 Copynumber: 3.8 Consensus size: 30
67253625 CCAATATCCC
*
67253635 GATACCCATATCTTTGATTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCAATATTT
67253665 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCAATATTT
* *
67253695 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCCAATATTT
** *
67253725 GGCACCCATATCTTTGATTTTCCA
1 GATACCCATATCTTTGACTTTCCA
67253749 TAAATATGGA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.45
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCAATATTT
Found at i:67253710 original size:15 final size:15
Alignment explanation
Indices: 67253635--67253711 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
67253625 CCAATATCCC
67253635 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
67253650 GATTTTCCA-ATATTT
1 GA-TACCCATATCTTT
67253665 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
67253680 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
67253695 GATACCCATATCTTT
1 GATACCCATATCTTT
67253710 GA
1 GA
67253712 CTTTCTATTA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:67258717 original size:25 final size:25
Alignment explanation
Indices: 67258653--67258719 Score: 95
Period size: 23 Copynumber: 2.8 Consensus size: 25
67258643 TGTGAAAAAC
*
67258653 TTAAAATAAATAATAATAAAATAATT
1 TTAAAATAAATAAT-ATAAAATAAGT
67258679 TTAAAA-AAATAATATAAAA-AAGT
1 TTAAAATAAATAATATAAAATAAGT
67258702 TTAAAATAAATAA-ATAAA
1 TTAAAATAAATAATATAAA
67258720 TTAAATTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
23 14 0.36
24 12 0.31
25 7 0.18
26 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (25 bp):
TTAAAATAAATAATATAAAATAAGT
Found at i:67258724 original size:28 final size:26
Alignment explanation
Indices: 67258653--67258714 Score: 94
Period size: 24 Copynumber: 2.5 Consensus size: 26
67258643 TGTGAAAAAC
*
67258653 TTAAAATAAATAATAATAAAATAATT
1 TTAAAATAAATAATAATAAAATAAGT
67258679 TTAAAA-AAATAAT-ATAAAA-AAGT
1 TTAAAATAAATAATAATAAAATAAGT
67258702 TTAAAATAAATAA
1 TTAAAATAAATAA
67258715 ATAAATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.26
24 12 0.35
25 7 0.21
26 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATAATAAAATAAGT
Found at i:67261023 original size:24 final size:24
Alignment explanation
Indices: 67260996--67261045 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
67260986 TTTCTATAAG
*
67260996 TTTAATAGTTATTAGTATAATATA
1 TTTAATAGTTATTAGCATAATATA
* * *
67261020 TTTAGTATTTATTAGCATAATTTA
1 TTTAATAGTTATTAGCATAATATA
67261044 TT
1 TT
67261046 GTACTTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTAATAGTTATTAGCATAATATA
Found at i:67265356 original size:19 final size:19
Alignment explanation
Indices: 67265332--67265368 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
67265322 CCAAGAACAT
67265332 AAAATACAACA-GGCCCAAA
1 AAAATACAA-ATGGCCCAAA
67265351 AAAATACAAATGGCCCAA
1 AAAATACAAATGGCCCAA
67265369 TTTTTAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.57, C:0.24, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAATACAAATGGCCCAAA
Found at i:67266638 original size:12 final size:12
Alignment explanation
Indices: 67266621--67266652 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
67266611 AAACTAATAT
67266621 ATTATTATTATC
1 ATTATTATTATC
67266633 ATTATTATTATC
1 ATTATTATTATC
67266645 A-TATTATT
1 ATTATTATT
67266653 TTTTATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:67273151 original size:88 final size:88
Alignment explanation
Indices: 67273002--67273539 Score: 845
Period size: 88 Copynumber: 6.2 Consensus size: 88
67272992 ATGAAGTTAC
* * * * *
67273002 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
67273067 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
67273090 AGATCTTGCCTTCCAACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
67273155 TGATAGAGCTGGTT-AA-AGAAA
66 TGATAGAGCTGGTTGAAGACAAA
67273176 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
67273241 TGATAGAGCTGGTT-AA-AGAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
67273262 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCAGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
67273327 TGATGGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
*
67273350 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTATTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
67273415 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * * *
67273438 GGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
* * **
67273503 T-AGTTGAGCTGGTTAAAGA-AGC
66 TGA-TAGAGCTGGTTGAAGACAAA
67273525 AGATCTTGCCTTCCT
1 AGATCTTGCCTTCCT
67273540 GCGTTAATAG
Statistics
Matches: 422, Mismatches: 25, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
86 166 0.39
87 20 0.05
88 236 0.56
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:67273186 original size:42 final size:42
Alignment explanation
Indices: 67273138--67273272 Score: 112
Period size: 43 Copynumber: 3.2 Consensus size: 42
67273128 AGACACAAAC
67273138 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGAAAAGAT
* * * ** ** * * ** *
67273180 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTAAAGA-A-AAGAT
67273224 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGAAAAGAT
67273266 CTTGCCT
1 CTTGCCT
67273273 TCCTACATTG
Statistics
Matches: 63, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
41 2 0.03
42 20 0.32
43 26 0.41
44 13 0.21
45 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (42 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAAGAAAAGAT
Found at i:67273353 original size:174 final size:172
Alignment explanation
Indices: 67273002--67273539 Score: 819
Period size: 174 Copynumber: 3.1 Consensus size: 172
67272992 ATGAAGTTAC
* * * * *
67273002 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
* *
67273067 TGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCAACATTGACAGCGAAGCAGATCGAAGAC
66 TGATAGAGCTGGTT-AA-AGAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
67273132 ACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAA-AGAAA
129 ACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAGA-AAA
67273176 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
67273241 TGATAGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACAC
66 TGATAGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACAC
* *
67273306 AAACCTTGCCTCTTTCAGTTGTGATGGAGCTGGTTGAAGACAAA
131 AAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT-AAGA-AAA
*
67273350 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTATTTCGGTTG
1 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
* * * *
67273415 TGATAGAGCTGGTTGAAGACAAAGGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGAC
66 TGATAGAGCTGGTTAAAGA-AAA-GATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGAC
* * **
67273480 ACAAACCTTGCCTCTCTCGGTTGT-AGTTGAGCTGGTTAAAGAAGC
129 ACAAACCTTGCCTCTTTCGGTTGTGA-TAGAGCTGGTT-AAGAAAA
67273525 AGATCTTGCCTTCCT
1 AGATCTTGCCTTCCT
67273540 GCGTTAATAG
Statistics
Matches: 338, Mismatches: 21, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
172 80 0.24
173 4 0.01
174 160 0.47
175 20 0.06
176 74 0.22
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (172 bp):
AGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTAAAGAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACAC
AAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTAAGAAAA
Found at i:67273778 original size:50 final size:49
Alignment explanation
Indices: 67273599--67273873 Score: 212
Period size: 50 Copynumber: 5.6 Consensus size: 49
67273589 GCAGTGGAAT
* ** * *
67273599 AGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACATGGCGGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGC-ATTAAAA
* * * * *** * * * * *
67273649 AGATTAAAGCTACACCAGCGAATCTTATTTCTCAGGCAGTGCAGT-AAA
1 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGCATTAAAA
*
67273697 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGATTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGC-ATTAAAA
* * * * * * ** ** *
67273747 AGATTAAAGCTACATCAGCGAATCTTACCTCCCAGGCGGTGCAATGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGC-ATTAAAA
* *
67273797 AGATTAAAACCACATCGGTGAATCTTGCTTCCCCT-ACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTGCCT-CCCTGACATTGCA-TTAAAA
67273847 AGATTAAAGCCACATCGGTGAATCTTG
1 AGATTAAAGCCACATCGGTGAATCTTG
67273874 ATTAAAGCTA
Statistics
Matches: 168, Mismatches: 53, Indels: 8
0.73 0.23 0.03
Matches are distributed among these distances:
48 34 0.20
49 4 0.02
50 127 0.76
51 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (49 bp):
AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTGACATTGCATTAAAA
Found at i:67273849 original size:100 final size:99
Alignment explanation
Indices: 67273572--67273872 Score: 374
Period size: 98 Copynumber: 3.0 Consensus size: 99
67273562 AAAACAAAGC
* * * **
67273572 CTTACTTCCTAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGTGAATCTTGCCTCTTTGACA
1 CTTACTTCCCAGGCAGTGCAATGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
* *
67273637 TGGCGGTTAAAAAGATTAAAGCTACACCAGCGAAT
66 TTGC-GTTAAAAAGATTAAAGCTACATCAGCGAAT
* * *
67273672 CTTATTTCTCAGGCAGTGC-A-GTAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
1 CTTACTTCCCAGGCAGTGCAATGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
67273735 TTGCGATTAAAAAGATTAAAGCTACATCAGCGAAT
66 TTGCG-TTAAAAAGATTAAAGCTACATCAGCGAAT
* * * * * *
67273770 CTTACCTCCCAGGCGGTGCAATGGAACAGATTAAAACCACATCGGTGAATCTTGCTTCCCCT-AC
1 CTTACTTCCCAGGCAGTGCAATGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTGAC
* * *
67273834 ATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAAT
65 ATTGC-GTTAAAAAGATTAAAGCTACATCAGCGAAT
67273870 CTT
1 CTT
67273873 GATTAAAGCT
Statistics
Matches: 174, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
97 1 0.01
98 85 0.49
99 1 0.01
100 82 0.47
101 5 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (99 bp):
CTTACTTCCCAGGCAGTGCAATGGAAAAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACA
TTGCGTTAAAAAGATTAAAGCTACATCAGCGAAT
Found at i:67273894 original size:25 final size:25
Alignment explanation
Indices: 67273848--67273895 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
67273838 CAGTTAAAAA
* * *
67273848 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
67273873 GATTAAAGCTACAACAGCGAATC
1 GATTAAAGCCACAACAGCGAATC
67273896 CTACACCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:67273970 original size:125 final size:125
Alignment explanation
Indices: 67273748--67273985 Score: 334
Period size: 125 Copynumber: 1.9 Consensus size: 125
67273738 CGATTAAAAA
* * ** * *
67273748 GATTAAAGCTACATCAGCGAATCTTACCTCCCAGGCGGTGCAATGGAACAGATTAAAACCACATC
1 GATTAAAGCTACAACAGCGAATCCTACCTCCCAAACGATGCAATGGAACAGATTAAAACCAAATC
* *
67273813 GGTGAATCTTGCTTCCCCTACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
66 GATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
* *
67273873 GATTAAAGCTACAACAGCGAATCCTACAC-CCCAAACGATGCAGTGGAACAGATTAAAGCCAAAT
1 GATTAAAGCTACAACAGCGAATCCTAC-CTCCCAAACGATGCAATGGAACAGATTAAAACCAAAT
* * * *
67273937 TGATGAATCTTGTTTCTCCGACATTGTAGTTAAAAAGATTAAAGCCACA
65 CGATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACA
67273986 ATGGCGAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
125 97 0.99
126 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (125 bp):
GATTAAAGCTACAACAGCGAATCCTACCTCCCAAACGATGCAATGGAACAGATTAAAACCAAATC
GATGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
Found at i:67274209 original size:46 final size:44
Alignment explanation
Indices: 67274112--67274792 Score: 375
Period size: 44 Copynumber: 15.7 Consensus size: 44
67274102 GAAAGTAAAG
* * * * *
67274112 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* *
67274153 GGTTTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTCA
* ** ** **
67274199 GATCTTATCTCCCTGAGATTACAGTGGAGCGGA-TTAAAATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* * * * *
67274242 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
67274284 -AGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GA-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTCA
* ** ** **
67274330 GATCTTATCTCCCTGAGATTACAGTGGAGCGGA-TTAAAATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* * * * *
67274373 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--ACA-TCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
*
67274415 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTCA
* * ** **
67274461 GATCTTATCTCCCTGAAGTTACAGTGGAG-CGTA-TTAAAATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAG-ACCGAAAATTCA
* * ** * *
67274504 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC--ACA-TCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
*
67274546 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AA-TTCA
* * ** **
67274592 GATCTTATCTCCCTGAAGTTACAGTGGAG-CGTA-TTAAAATAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAG-ACCGAAAATTCA
* * ** * *
67274635 GGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCG--CA-TCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* * * ** *****
67274677 GGTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* * * * * *
67274721 GATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAGA--CA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
* *
67274763 GTATCCTATCTCCCTGAAGTTACAGTGGAG
1 G-ATCTTATCTCCCTGAGGTTACAGTGGAG
67274793 CGTATTAAAA
Statistics
Matches: 485, Mismatches: 117, Indels: 74
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 145 0.30
42 6 0.01
43 42 0.09
44 154 0.32
45 12 0.02
46 124 0.26
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAATTCA
Found at i:67274261 original size:131 final size:131
Alignment explanation
Indices: 67274027--67274705 Score: 1107
Period size: 131 Copynumber: 5.2 Consensus size: 131
67274017 TTACAAATCC
** * * * * * *
67274027 TATCTCCCTGATATTACAGTGGAGTGGATCGAAGAA--CCAAAGTCTTATCCCCCTGAAGA-TGC
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA-TCTTATCTCCCTG-AGATTAC
* * *
67274089 AGTGGGGCGAATTGAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
64 AGTGGAGCGGATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
*
67274154 GTTT
128 GTCT
67274158 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
*
67274223 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAGTC
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
67274288 T
131 T
67274289 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
67274354 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
67274419 T
131 T
67274420 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-AGTTACA
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA-TTACA
* *
67274484 GTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGT
67274549 CT
130 CT
67274551 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-AGTTACA
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA-TTACA
* * *
67274615 GTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGT
67274680 CT
130 CT
*
67274682 TATCTCCCTGAGGTTACAATGGAG
1 TATCTCCCTGAGGTTACAGTGGAG
67274706 CAGATTGAAG
Statistics
Matches: 526, Mismatches: 18, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
130 1 0.00
131 497 0.94
132 25 0.05
133 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (131 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAG
TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
T
Found at i:67274306 original size:85 final size:86
Alignment explanation
Indices: 67274157--67274788 Score: 333
Period size: 85 Copynumber: 7.2 Consensus size: 86
67274147 ACATCAGGTT
* * * *
67274157 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGATCTTATCTCCCTGAGATTAC
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATC--A-AA--TCAAGATCTTATCTCCCTGAGGTTAC
*
67274221 AGTGGAGCGGATTAAAATAAAGGATC
61 AGTGGAGCAGATTAAAATAAAGGATC
* *
67274247 TTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAG-TCTTATCTCCCTGAGGTTACAGTGG
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATCAAATCAAGATCTTATCTCCCTGAGGTTACAGTGG
* ** **
67274311 AGTAGACCGAAGAATTTCA-GATC
66 AGCAGA-TTAA-AA-TAAAGGATC
* ** * * * *
67274334 TTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
1 TTATCTCCCTGAAG-TTACAGTAGAGTAGA-TCAAATCAA-GATCTTATCTCCCTGAGGTTACAG
* * * * *
67274398 TAGAGTAGA-TCACAT-CAGG-TC
63 TGGAGCAGATTAAAATAAAGGATC
* * * *
67274419 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGATCTTATCTCCCTGAAGTTAC
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATC--A-AA--TCAAGATCTTATCTCCCTGAGGTTAC
67274483 AGTGGAGC-GTATTAAAATAAAGGATC
61 AGTGGAGCAG-ATTAAAATAAAGGATC
* * * *
67274509 TTATCTCTCTGAAGTTACAGCAGAGTAGATCACATC-AGGTCTTATCTCCCTGAGGTTACAGTGG
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATCAAATCAAGATCTTATCTCCCTGAGGTTACAGTGG
* ** **
67274573 AGTAGACCGAAGAATTTCA-GATC
66 AGCAGA-TTAA-AA-TAAAGGATC
* * * * * *
67274596 TTATCTCCCTGAAGTTACAGTGGAGCGTA-TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
1 TTATCTCCCTGAAGTTACAGT--AGAGTAGATCAAATCAA-GATCTTATCTCCCTGAGGTTACAG
** * *** *
67274660 CAGAGTAGA-TCGCAT-CAGG-TC
63 TGGAGCAGATTAAAATAAAGGATC
* * * * * ** * * *
67274681 TTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGATCTTATCTCCTTGAGATTACAGC
1 TTATCTCCCTGAAGTTACAGTAGAGTAGA-TCAAATC-AAGATCTTATCTCCCTGAGGTTACAGT
** * * *
67274746 GGAGCAGA-TCGAAGACAGTATC
64 GGAGCAGATTAAAATAAAGGATC
*
67274768 CTATCTCCCTGAAGTTACAGT
1 TTATCTCCCTGAAGTTACAGT
67274789 GGAGCGTATT
Statistics
Matches: 421, Mismatches: 88, Indels: 69
0.73 0.15 0.12
Matches are distributed among these distances:
83 3 0.01
85 146 0.35
86 21 0.05
87 107 0.25
88 22 0.05
89 11 0.03
90 111 0.26
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (86 bp):
TTATCTCCCTGAAGTTACAGTAGAGTAGATCAAATCAAGATCTTATCTCCCTGAGGTTACAGTGG
AGCAGATTAAAATAAAGGATC
Found at i:67274792 original size:172 final size:173
Alignment explanation
Indices: 67274548--67274862 Score: 526
Period size: 172 Copynumber: 1.8 Consensus size: 173
67274538 TCACATCAGG
* * * *
67274548 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAA--TCAGATCCTATCTCCCTGAAGTTA
*
67274613 CAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
64 CAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAA
67274678 GTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
129 GTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
* *
67274723 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAG-A-CAGTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAG-ATCCTATCTCCCTGAAGTTAC
67274786 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
65 AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
67274851 TCTTATCTCCCT
130 TCTTATCTCCCT
67274863 AAGCAGTAGT
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
171 3 0.02
172 96 0.73
174 1 0.01
175 32 0.24
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (173 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAGATCCTATCTCCCTGAAGTTACA
GTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAGT
CTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAAGA
Found at i:67274816 original size:393 final size:390
Alignment explanation
Indices: 67274027--67274840 Score: 1111
Period size: 393 Copynumber: 2.1 Consensus size: 390
67274017 TTACAAATCC
* * *
67274027 TATCTCCCTGATA-TTACAGTGGAGTGGATCGAAGAACCAAAGTCTTATCCCCCTGAAGATGCAG
1 TATCTCCCTGA-AGTTACAGTGGAGTAGACCGAAGAACCAAAGTCTTATCCCCCTGAAGATACAG
* * *
67274091 TGGGGCGAATTGAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGT
65 TGGAGCGAATTGAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGT
*
67274156 TTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTAC
130 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTAC
*
67274221 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAG
195 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAAG
* *
67274286 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
260 TCTTATCTCCCTGAGGTTACAATGGAGCAGACCGAAGAA--T-AGATCTTATCTCCCTGAGATTA
* * * * * * * *
67274351 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
322 CAGCGGAGCAGATTAAAAGAAAGGATCCTATCTCCCTGAAGTTACAGTAGAGTAGATAAAATAAG
67274416 GTCT
387 GTCT
* * * * *
67274420 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA-TCTTATCTCCCTGAAGTTACA
1 TATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAA--CCAAAGTCTTATCCCCCTGAAGATACA
*
67274484 GTGGAGCGTATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGG
64 GTGGAGCGAATTGAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGG
67274548 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-AGTT
129 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA-TT
* *
67274612 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
193 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCA
* ** *
67274677 GGTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAA-AGATCTTATCTCCTTGAGATT
258 AGTCTTATCTCCCTGAGGTTACAATGGAGCAGACCGAAG--AATAGATCTTATCTCCCTGAGATT
** * * * *
67274741 ACAGCGGAGCAGA-TCGAAGACAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGTA-TTAAAAT
321 ACAGCGGAGCAGATTAAAAGAAAGGATCCTATCTCCCTGAAGTTACAGT--AGAGTAGATAAAAT
67274804 AAAGGATCT
384 -AAGG-TCT
* **
67274813 TATCTCTCTGAAGTTACAGCAGAGTAGA
1 TATCTCCCTGAAGTTACAGTGGAGTAGA
67274841 TCGCATCAAG
Statistics
Matches: 371, Mismatches: 40, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
390 28 0.08
391 35 0.09
392 9 0.02
393 266 0.72
394 28 0.08
395 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (390 bp):
TATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAACCAAAGTCTTATCCCCCTGAAGATACAGT
GGAGCGAATTGAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAGGTC
TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCACATCAAGT
CTTATCTCCCTGAGGTTACAATGGAGCAGACCGAAGAATAGATCTTATCTCCCTGAGATTACAGC
GGAGCAGATTAAAAGAAAGGATCCTATCTCCCTGAAGTTACAGTAGAGTAGATAAAATAAGGTCT
Found at i:67274831 original size:262 final size:259
Alignment explanation
Indices: 67274027--67274840 Score: 1029
Period size: 262 Copynumber: 3.1 Consensus size: 259
67274017 TTACAAATCC
* * * * * * *
67274027 TATCTCCCTGATA-TTACAGTGGAGTGGATCGAAGAA--CCAAAGTCTTATCCCCCTGAAGATGC
1 TATCTCCCTGA-AGTTACAGTGGAGTAGACCGAAGAATTTCAGA-TCTTATCTCCCTGAAGTTAC
* *
67274089 AGTGGGGCGAATTGAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
64 AGTGGAGCGAATT-AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAG
*
67274154 GTTTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
128 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA--T-AGATCTTATCTCCCTGAGATT
67274219 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT-AGAGTAGATCACATC
190 ACAGTGGAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACAT-
67274283 AA-GTCT
253 AAGGTCT
*
67274289 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTG-AGATTACA
1 TATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAG-TTACA
*
67274353 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGT
65 GTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGT
67274418 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA-AGTTA
130 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA--T-AGATCTTATCTCCCTGAGA-TTA
* *
67274482 CAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG-CAGAGTAGATCACATCA
191 CAGTGGAGCG-ATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACATAA
67274546 GGTCT
255 GGTCT
*
67274551 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAG
1 TATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAG
* * *
67274616 TGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTC
66 TGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
* * ** *
67274681 TTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAA-AGATCTTATCTCCTTGAGATTACAG
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG--AATAGATCTTATCTCCCTGAGATTACAG
* ** * * * * * * * * *
67274745 CGGAGCAGA-TCGAAGACAGTATCCTATCTCCCTGAAGTTACAGTGGAGCGTA-TTAAAATAAAG
194 TGGAGC-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT-GAGAGTAGATCACAT-AAG
67274808 GATCT
256 G-TCT
* **
67274813 TATCTCTCTGAAGTTACAGCAGAGTAGA
1 TATCTCCCTGAAGTTACAGTGGAGTAGA
67274841 TCGCATCAAG
Statistics
Matches: 496, Mismatches: 39, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
259 27 0.05
260 32 0.06
261 13 0.03
262 392 0.79
263 27 0.05
264 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (259 bp):
TATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTTACAG
TGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGGTC
TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATAGATCTTATCTCCCTGAGATTACAGTG
GAGCGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTGAGAGTAGATCACATAAGGTCT
Found at i:67274899 original size:44 final size:43
Alignment explanation
Indices: 67274847--67274976 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 43
67274837 TAGATCGCAT
67274847 CAAGTCTTATCTCCCTAAGCAGTAGTGAAGCAGAAGAAAGAAAC
1 CAAGTCTTATCTCCCTAAGCAGTAGTG-AGCAGAAGAAAGAAAC
** *
67274891 CAAGTCTTATCTCCCTAAGCAGTAGTG-G-A-ACAGATCG-CAC
1 CAAGTCTTATCTCCCTAAGCAGTAGTGAGCAGA-AGAAAGAAAC
* *
67274931 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAAC
1 CAAGTCTTATCTCCCTAAGCAGTAGT-GAGCAGAAGAAAGAAAC
67274975 CA
1 CA
67274977 CAAATCTCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
40 29 0.40
41 6 0.08
42 2 0.03
43 3 0.04
44 32 0.44
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (43 bp):
CAAGTCTTATCTCCCTAAGCAGTAGTGAGCAGAAGAAAGAAAC
Found at i:67274901 original size:172 final size:172
Alignment explanation
Indices: 67274547--67274906 Score: 487
Period size: 172 Copynumber: 2.1 Consensus size: 172
67274537 ATCACATCAG
* * * *
67274547 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAAGTT
1 GTCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAA--TCAGATCCTATCTCCCTGAAGTT
67274612 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
64 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* * * * ** *
67274677 GGTCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGCCAAA
129 AGTCTTATCTCCCTAAGGTTACAATGCAGAAGAAAGAAACCAAA
* *
67274721 GATCTTATCTCCTTGAGATTACAGCGGAGCAGATCGAAG-A-CAGTATCCTATCTCCCTGAAGTT
1 G-TCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAG-ATCCTATCTCCCTGAAGTT
67274784 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
64 ACAGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
*
67274849 AGTCTTATCTCCCTAAGCAG-TAGTGAA-GCAGAAGAAAGAAACC-AA
129 AGTCTTATCTCCCTAAG--GTTA--CAATGCAGAAGAAAGAAACCAAA
67274894 GTCTTATCTCCCT
1 GTCTTATCTCCCT
67274907 AAGCAGTAGT
Statistics
Matches: 165, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
171 3 0.02
172 109 0.66
173 5 0.03
174 14 0.08
175 34 0.21
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (172 bp):
GTCTTATCTCCCTGAGATTACAGCGGAGCAGACCGAAGAATCAGATCCTATCTCCCTGAAGTTAC
AGTGGAGCGTATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAAG
TCTTATCTCCCTAAGGTTACAATGCAGAAGAAAGAAACCAAA
Found at i:67274944 original size:40 final size:40
Alignment explanation
Indices: 67274838--67274964 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
67274828 ACAGCAGAGT
*
67274838 AGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT-GAAGC
1 AGATCGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAA-C
** *
67274878 AGAAGAAAGAAACCAAGTCTTATCTCCCTAAGCAGTAGTGGAAC
1 ---AGATCG-CACCAAGTCTTATCTCCCTAAGCAGTAGTGGAAC
*
67274922 AGATCGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAGC
1 AGATCGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAAC
67274962 AGA
1 AGA
67274965 CGAAAAAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 35 0.47
41 4 0.05
43 4 0.05
44 28 0.38
45 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (40 bp):
AGATCGCACCAAGTCTTATCTCCCTAAGCAGTAGTGGAAC
Found at i:67276554 original size:12 final size:12
Alignment explanation
Indices: 67276537--67276568 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
67276527 AAACTAATAT
67276537 ATTATTATTATC
1 ATTATTATTATC
67276549 ATTATTATTATC
1 ATTATTATTATC
67276561 A-TATTATT
1 ATTATTATT
67276569 TTTTATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:67289188 original size:32 final size:32
Alignment explanation
Indices: 67289121--67289180 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
67289111 CCCCGCAAGG
**
67289121 ATTTAGTCGAATTTAATTTTTGTACTTTTTAA
1 ATTTAGTCGAATTTAATCCTTGTACTTTTTAA
67289153 ATTTA-TC-AATTTAATCCTTGTACTTTTT
1 ATTTAGTCGAATTTAATCCTTGTACTTTTT
67289181 TGAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 2 0.08
32 5 0.19
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (32 bp):
ATTTAGTCGAATTTAATCCTTGTACTTTTTAA
Found at i:67293045 original size:18 final size:18
Alignment explanation
Indices: 67293022--67293057 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67293012 ACCTTGACGG
67293022 CGGACCGCTGTTCGAACC
1 CGGACCGCTGTTCGAACC
67293040 CGGACCGCTGTTCGAACC
1 CGGACCGCTGTTCGAACC
67293058 GGCTCGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.17
Consensus pattern (18 bp):
CGGACCGCTGTTCGAACC
Found at i:67295534 original size:82 final size:81
Alignment explanation
Indices: 67295376--67295532 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 81
67295366 TAATTCTATC
* * *
67295376 CTTTATATATTTTTCTCAATTTTTATTAAATAACTTTAAATTTGAAATTTGAAACTCACAAAGAA
1 CTTTATATATTTTTCTCAAATATTATTAAATAACTTTAAATTTGAAATTTGAAACCCACAAAGAA
67295441 TATTTCTTTTTCCATA
66 TATTTCTTTTTCCATA
67295457 CTTTATATACATTTTT-TCAAATATTATTAAATAACTTTAAATTTGAAATTTGAAACCCAC-AAG
1 CTTTATAT--ATTTTTCTCAAATATTATTAAATAACTTTAAATTTGAAATTTGAAACCCACAAAG
67295520 AATATTTCTTTTT
64 AATATTTCTTTTT
67295533 TCTTTTATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
81 24 0.34
82 41 0.58
83 6 0.08
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (81 bp):
CTTTATATATTTTTCTCAAATATTATTAAATAACTTTAAATTTGAAATTTGAAACCCACAAAGAA
TATTTCTTTTTCCATA
Found at i:67305017 original size:221 final size:221
Alignment explanation
Indices: 67304634--67305078 Score: 863
Period size: 221 Copynumber: 2.0 Consensus size: 221
67304624 CTTTATATCT
67304634 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
1 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
*
67304699 ACTATACAATTTGAACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
66 ACAATACAATTTGAACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
*
67304764 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTTAGCTTGCTAACATAGAATT
131 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
67304829 TAAGTGAATATCAAAGTAACTTCTTG
196 TAAGTGAATATCAAAGTAACTTCTTG
67304855 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
1 AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
*
67304920 ACAATACAATTTGCACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
66 ACAATACAATTTGAACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
67304985 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
131 TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
67305050 TAAGTGAATATCAAAGTAACTTCTTG
196 TAAGTGAATATCAAAGTAACTTCTTG
67305076 AAA
1 AAA
67305079 CTAGCCATTA
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 221 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (221 bp):
AAAGGTTAGAATATTCACCTCTAAATCTCCTCGAGAACTTGAATAGTAAACACTCAATGGTATTT
ACAATACAATTTGAACTCTCACAAAACAGTTTATCAATGAACATATTAGAATGCACTCAATACTC
TCTTACCCAAAACCTATACAAGCCTCAAAAGCATATATTCTAATTCAGCTTGCTAACATAGAATT
TAAGTGAATATCAAAGTAACTTCTTG
Found at i:67318296 original size:33 final size:31
Alignment explanation
Indices: 67318256--67318346 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 31
67318246 ATACCAACGG
*
67318256 AAAAGTGTCAAATTTAGATACCAAATCAGGAA
1 AAAAGTGTCAAGTTTAGATACCAAATCA-GAA
* * *
67318288 AACAAGTGTCGAGTTTAGGTACCAAATTAGAA
1 AA-AAGTGTCAAGTTTAGATACCAAATCAGAA
* *
67318320 AAAATATGTCAAGTTCAGATACCAAAT
1 AAAA-GTGTCAAGTTTAGATACCAAAT
67318347 ATTATATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 2 0.04
32 25 0.51
33 22 0.45
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.24
Consensus pattern (31 bp):
AAAAGTGTCAAGTTTAGATACCAAATCAGAA
Found at i:67334045 original size:21 final size:20
Alignment explanation
Indices: 67334002--67334045 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
67333992 TTTTGAACAA
** *
67334002 TTTAAATTTTTTTTTGTTCT
1 TTTAAATTTTTTTTCCTTAT
67334022 TTTAAACTTTTTTTTCCTTAT
1 TTTAAA-TTTTTTTTCCTTAT
67334043 TTT
1 TTT
67334046 CCATTCTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTAAATTTTTTTTCCTTAT
Found at i:67341417 original size:16 final size:16
Alignment explanation
Indices: 67341396--67341446 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
67341386 GGTTGGGGTG
67341396 AATGGAATA-AGGCTGT
1 AATGGAATAGA-GCTGT
**
67341412 AATGGAATAGAAATGT
1 AATGGAATAGAGCTGT
67341428 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
67341444 AAT
1 AAT
67341447 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:67341709 original size:57 final size:57
Alignment explanation
Indices: 67341635--67341845 Score: 212
Period size: 57 Copynumber: 3.8 Consensus size: 57
67341625 TATTATTAAA
67341635 AATAAAA-AATTAAATAATTTAATCATATTC-TAACATAATTATTATTAAATATAATTT
1 AATAAAATAA-TAAATAATTTAATCATATTCTTAACATAATTATTATT-AATATAATTT
* * * *
67341692 AATAAAATAATATATAATTTAATAATATTCTTAATATAATTA-TATGAAT-TAA--T
1 AATAAAATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
*
67341745 AA-AAACCATAATAAATAATTTAATCATATT-TTAACAT-A--ATTATTAATACAATTT
1 AATAAA--ATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
* * * *
67341799 AATAAAATAATATATAATTTACT-AGCATTCTTAATATAATTATTATT
1 AATAAAATAATAAATAATTTAATCA-TATTCTTAACATAATTATTATT
67341846 TTAGGTACAT
Statistics
Matches: 127, Mismatches: 13, Indels: 28
0.76 0.08 0.17
Matches are distributed among these distances:
50 1 0.01
51 6 0.05
52 7 0.06
53 27 0.21
54 30 0.24
55 7 0.06
56 3 0.02
57 34 0.27
58 12 0.09
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (57 bp):
AATAAAATAATAAATAATTTAATCATATTCTTAACATAATTATTATTAATATAATTT
Found at i:67341802 original size:107 final size:110
Alignment explanation
Indices: 67341645--67341841 Score: 319
Period size: 107 Copynumber: 1.8 Consensus size: 110
67341635 AATAAAAAAT
*
67341645 TAAATAATTTAATCATATTCTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAAT
1 TAAATAATTTAATCATATTCTAACATAA-TATTATTAAATACAATTTAATAAAATAATATATAAT
*
67341710 TTAATAATATTCTTAATATAATTATATGAATTAATAAAAACCATAA
65 TTAATAACATTCTTAATATAATTATATGAATTAATAAAAACCATAA
*
67341756 TAAATAATTTAATCATATTTTAACAT-A-ATTATT-AATACAATTTAATAAAATAATATATAATT
1 TAAATAATTTAATCATATTCTAACATAATATTATTAAATACAATTTAATAAAATAATATATAATT
* *
67341818 TACTAGCATTCTTAATATAATTAT
66 TAATAACATTCTTAATATAATTAT
67341842 TATTTTAGGT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 49 0.60
108 6 0.07
110 1 0.01
111 25 0.31
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (110 bp):
TAAATAATTTAATCATATTCTAACATAATATTATTAAATACAATTTAATAAAATAATATATAATT
TAATAACATTCTTAATATAATTATATGAATTAATAAAAACCATAA
Found at i:67345648 original size:36 final size:37
Alignment explanation
Indices: 67345607--67345680 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
67345597 AGAATGAAAA
67345607 AAAATATCAGTTGGGGATTTCAG-GTGTGAGAAAGAG
1 AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
* * *
67345643 AAAATATGATTTGGGGATTTCAGATTGTGAGAAAGAG
1 AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
67345680 A
1 A
67345681 GGAGAATGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 21 0.62
37 13 0.38
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (37 bp):
AAAATATCAGTTGGGGATTTCAGAGTGTGAGAAAGAG
Found at i:67346563 original size:15 final size:15
Alignment explanation
Indices: 67346539--67346569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67346529 ATATTGACTA
67346539 GTCCAAACAAATAAG
1 GTCCAAACAAATAAG
*
67346554 GTCCACACAAATAAG
1 GTCCAAACAAATAAG
67346569 G
1 G
67346570 CATAATTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.13
Consensus pattern (15 bp):
GTCCAAACAAATAAG
Found at i:67347406 original size:24 final size:24
Alignment explanation
Indices: 67347379--67347427 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
67347369 TTTATTAAGT
67347379 TAGTGACGAGTTATAGTATAAACA
1 TAGTGACGAGTTATAGTATAAACA
67347403 TAGTGACGAGTTATAGTATAAACA
1 TAGTGACGAGTTATAGTATAAACA
67347427 T
1 T
67347428 GCATGAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (24 bp):
TAGTGACGAGTTATAGTATAAACA
Found at i:67348084 original size:27 final size:27
Alignment explanation
Indices: 67348046--67348100 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
67348036 GTTCCTTCTT
67348046 ATAGAGAGAGAGAGGTCGTGTTGTGAG
1 ATAGAGAGAGAGAGGTCGTGTTGTGAG
67348073 ATAGAGAGAGAGAGGTCGTGTTGTGAG
1 ATAGAGAGAGAGAGGTCGTGTTGTGAG
67348100 A
1 A
67348101 CCCGGCCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.22
Consensus pattern (27 bp):
ATAGAGAGAGAGAGGTCGTGTTGTGAG
Found at i:67348158 original size:19 final size:19
Alignment explanation
Indices: 67348134--67348171 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
67348124 GGAAGTTTCC
67348134 TGGGAAGATATACGTGCTA
1 TGGGAAGATATACGTGCTA
67348153 TGGGAAGATATACGTGCTA
1 TGGGAAGATATACGTGCTA
67348172 AGGGTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.26
Consensus pattern (19 bp):
TGGGAAGATATACGTGCTA
Found at i:67350974 original size:23 final size:23
Alignment explanation
Indices: 67350948--67350995 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
67350938 AAAAATCAAA
*
67350948 ATATGTAATATACA-AAATAATAT
1 ATAT-TAATATAAATAAATAATAT
*
67350971 ATATTAATCTAAATAAATAATAT
1 ATATTAATATAAATAAATAATAT
67350994 AT
1 AT
67350996 GGAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (23 bp):
ATATTAATATAAATAAATAATAT
Found at i:67351369 original size:23 final size:23
Alignment explanation
Indices: 67351332--67351473 Score: 144
Period size: 23 Copynumber: 6.2 Consensus size: 23
67351322 GAATGCATAA
67351332 AATAATACATGATAAATTTAAAT
1 AATAATACATGATAAATTTAAAT
* * * *
67351355 AATCATAGATGATAAGTTCAAAAT
1 AATAATACATGATAAATT-TAAAT
*
67351379 AATAATACATGATAACTTTAAAT
1 AATAATACATGATAAATTTAAAT
*
67351402 AAAAATACATGATAAATTTAAAAT
1 AATAATACATGATAAATTT-AAAT
* * * *
67351426 AATAACATATTATAAATTAAAAT
1 AATAATACATGATAAATTTAAAT
**
67351449 AAT-ATTGATGATAAATTTAAA-
1 AATAATACATGATAAATTTAAAT
67351470 AATA
1 AATA
67351474 TATTAAGCTT
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
21 3 0.03
22 13 0.14
23 43 0.45
24 37 0.39
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (23 bp):
AATAATACATGATAAATTTAAAT
Found at i:67351473 original size:47 final size:46
Alignment explanation
Indices: 67351332--67351470 Score: 161
Period size: 47 Copynumber: 3.0 Consensus size: 46
67351322 GAATGCATAA
* * *
67351332 AATAATACATGATAAATTTAAATAATCATAGATGATAAGTTCAAAAT
1 AATAACACATGATAAATTTAAATAAT-ATAGATGATAAATTTAAAAT
* * * *
67351379 AATAATACATGATAACTTTAAATAAAAATACATGATAAATTTAAAAT
1 AATAACACATGATAAATTTAAAT-AATATAGATGATAAATTTAAAAT
* * * *
67351426 AATAACATATTATAAATTAAAATAATATTGATGATAAATTTAAAA
1 AATAACACATGATAAATTTAAATAATATAGATGATAAATTTAAAA
67351471 ATATATTAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 19 0.24
47 57 0.73
48 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (46 bp):
AATAACACATGATAAATTTAAATAATATAGATGATAAATTTAAAAT
Found at i:67352221 original size:39 final size:37
Alignment explanation
Indices: 67352141--67352221 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 37
67352131 CCAAAAAAAT
*
67352141 TATTTTAAAAATAAAAAAATAAAAAATAATTTTTTAAA
1 TATTTTAAAAATAAAAAAATAAAAAATAATTTATT-AA
67352179 TATTTTAAAAATAAAAAAAATAAAAAAATATATTTATT-A
1 TATTTTAAAAAT-AAAAAAAT-AAAAAATA-ATTTATTAA
67352218 TATT
1 TATT
67352222 CGGGCCGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
38 12 0.31
39 13 0.33
40 8 0.21
41 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (37 bp):
TATTTTAAAAATAAAAAAATAAAAAATAATTTATTAA
Found at i:67357517 original size:15 final size:16
Alignment explanation
Indices: 67357493--67357535 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
67357483 AAAATATAAT
67357493 TAATCT-AATTAATCC
1 TAATCTAAATTAATCC
**
67357508 TAAT-TAAATTAATTT
1 TAATCTAAATTAATCC
67357523 TAATCTAAATTAA
1 TAATCTAAATTAA
67357536 AAACTTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 15 0.62
16 8 0.33
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATCTAAATTAATCC
Found at i:67357997 original size:18 final size:18
Alignment explanation
Indices: 67357974--67358011 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
67357964 TAGAAGACTT
* *
67357974 TATATTATGTTATTTTTA
1 TATATTATGTAATTTATA
67357992 TATATTATGTAATTTATA
1 TATATTATGTAATTTATA
67358010 TA
1 TA
67358012 ACACATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
TATATTATGTAATTTATA
Found at i:67358166 original size:21 final size:21
Alignment explanation
Indices: 67358094--67358168 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
67358084 TGATTATATA
67358094 AAAAATAA-ATAAATAAAATTT
1 AAAAATAATAT-AATAAAATTT
* *
67358115 AAAAA-ATTATTA-AAAATTAAAT
1 AAAAATAATATAATAAAATT---T
*
67358137 GAAAATAATATAATAAAATTT
1 AAAAATAATATAATAAAATTT
67358158 AAAAATAATAT
1 AAAAATAATAT
67358169 GGGTGGATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 6 0.14
20 2 0.05
21 18 0.43
22 5 0.12
23 5 0.12
24 6 0.14
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAAATAATATAATAAAATTT
Found at i:67368436 original size:22 final size:21
Alignment explanation
Indices: 67368404--67368451 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
67368394 TACATATTAA
67368404 ATTTTATATAAAATAA-AATT
1 ATTTTATATAAAATAATAATT
* *
67368424 ATTTTAATGATAATATAATTATT
1 ATTTT-AT-ATAAAATAATAATT
67368447 ATTTT
1 ATTTT
67368452 TTAAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 2 0.09
22 8 0.35
23 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTTTATATAAAATAATAATT
Found at i:67369599 original size:35 final size:35
Alignment explanation
Indices: 67369555--67369640 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 35
67369545 AGGTTCAAAG
*
67369555 TTTAGGGTTC-GGGATTCGAGATTCGAA-ATTTAAGA
1 TTTAAGGTTCTGGG-TTCGAGATTC-AATATTTAAGA
* * *
67369590 TTTAAGGTTCTGGGTTCGGGATTCAATGTTTAGGA
1 TTTAAGGTTCTGGGTTCGAGATTCAATATTTAAGA
* *
67369625 TTTAAGATTCTAGGTT
1 TTTAAGGTTCTGGGTT
67369641 TGGGGTTCGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
34 2 0.05
35 38 0.88
36 3 0.07
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (35 bp):
TTTAAGGTTCTGGGTTCGAGATTCAATATTTAAGA
Found at i:67369667 original size:21 final size:21
Alignment explanation
Indices: 67369629--67369669 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
67369619 TTAGGATTTA
**
67369629 AGATTCTAGGTTTGGGGTTCG
1 AGATTCTAGGTTCAGGGTTCG
*
67369650 AGATTCTTGGTTCAGGGTTC
1 AGATTCTAGGTTCAGGGTTC
67369670 AGGGTTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.39
Consensus pattern (21 bp):
AGATTCTAGGTTCAGGGTTCG
Found at i:67384738 original size:16 final size:16
Alignment explanation
Indices: 67384717--67384751 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
67384707 AACAGTCTGC
*
67384717 AATAGTTTAAACCCAA
1 AATAGTTAAAACCCAA
*
67384733 AATAGTTAAAACCCGA
1 AATAGTTAAAACCCAA
67384749 AAT
1 AAT
67384752 GATATGGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (16 bp):
AATAGTTAAAACCCAA
Found at i:67390733 original size:20 final size:21
Alignment explanation
Indices: 67390692--67390734 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
67390682 AATAGGCATG
*
67390692 CATATTTTTTAAAAATTGATT
1 CATATATTTTAAAAATTGATT
*
67390713 CATATATTTTAAATA-TGATT
1 CATATATTTTAAAAATTGATT
67390733 CA
1 CA
67390735 CATTAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (21 bp):
CATATATTTTAAAAATTGATT
Found at i:67392863 original size:87 final size:87
Alignment explanation
Indices: 67392756--67392939 Score: 269
Period size: 87 Copynumber: 2.1 Consensus size: 87
67392746 CCTATGGCTA
* * * * *
67392756 TGGATACACAGCAAATTAATGCAGATAAAATTTGCAACTGACTATGGATGCACAACATGTTAGTA
1 TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
* *
67392821 GGTAAAAGTTGTCAATAGGTTG
66 GGTAAAAGCTGTCAATACGTTG
* *
67392843 TGGATACACAGTAAATTAATGCAGATAAAATATCCCACTAACTATAGATGCACAACATGTTAATA
1 TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
*
67392908 GGTAAGAGCTGTCAATACGTTG
66 GGTAAAAGCTGTCAATACGTTG
*
67392930 TGGATGCACA
1 TGGATACACA
67392940 TCATATTTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (87 bp):
TGGATACACAGCAAATTAATGCAGATAAAATATCCAACTAACTATAGATGCACAACATGTTAATA
GGTAAAAGCTGTCAATACGTTG
Found at i:67394068 original size:29 final size:30
Alignment explanation
Indices: 67394003--67394078 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
67393993 TCAAAATTAT
* *
67394003 ACATGAACTTTGATTTAATGTGTAATTTGAT
1 ACATGAACTTTGATTT-AGGTGTAATTTGAC
*
67394034 ATATGAACTTTGATTT-GGTGTAATTAT-AC
1 ACATGAACTTTGATTTAGGTGTAATT-TGAC
67394063 ACATGAAACTTTGATT
1 ACATG-AACTTTGATT
67394079 ACGATTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 13 0.33
30 11 0.28
31 15 0.38
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (30 bp):
ACATGAACTTTGATTTAGGTGTAATTTGAC
Found at i:67395580 original size:87 final size:87
Alignment explanation
Indices: 67395434--67395619 Score: 266
Period size: 87 Copynumber: 2.1 Consensus size: 87
67395424 TGCCTATGGC
* * * * * *
67395434 TGTGGATACACAGCAAATTAATGCAGATAAAATTTGCAACTGACTGTGGATGCACAACATGTTAG
1 TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTGACTGTAGATGCACAACATGTTAA
67395499 CAAGTAAGAGCTGTCAATAGGT
66 CAAGTAAGAGCTGTCAATAGGT
* *
67395521 TGTGGATGCACAGTAAAATAATGCAGATAAAATCTCCCAC-GAACTGTAGATGCACAACATGTTA
1 TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTG-ACTGTAGATGCACAACATGTTA
* *
67395585 ATAGGTAAGAGCTGTCAATAGGT
65 ACAAGTAAGAGCTGTCAATAGGT
67395608 TGTGGATGCACA
1 TGTGGATGCACA
67395620 TCATATTTGC
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.01
87 87 0.99
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (87 bp):
TGTGGATGCACAGCAAAATAATGCAGATAAAATCTCCAACTGACTGTAGATGCACAACATGTTAA
CAAGTAAGAGCTGTCAATAGGT
Found at i:67395835 original size:34 final size:34
Alignment explanation
Indices: 67395787--67395874 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
67395777 ATATGACATG
* * *
67395787 CTTATAATATATCAATACGGTAGTC-ATTA-ATGC
1 CTTATAACATATCAATACAGTAG-CAAATAGATGC
*
67395820 ACTTATAACAGATCAATACAGTAGCAAATAGTATGC
1 -CTTATAACATATCAATACAGTAGCAAATAG-ATGC
67395856 CTTATAACATATCAATACA
1 CTTATAACATATCAATACA
67395875 AAAGCAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 1 0.02
34 23 0.50
35 18 0.39
36 4 0.09
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (34 bp):
CTTATAACATATCAATACAGTAGCAAATAGATGC
Found at i:67395881 original size:35 final size:34
Alignment explanation
Indices: 67395816--67395916 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 34
67395806 GTAGTCATTA
* *
67395816 ATGCACTTATAACAGATCAATACAGTAGCAAATAGT
1 ATGC-CTTATAACA-ATCAATACAATAGCAAATAAT
* *
67395852 ATGCCTTATAACATATCAATACAAAAGCAATTAAT
1 ATGCCTTATAACA-ATCAATACAATAGCAAATAAT
* *
67395887 ACG-CTTATAACAATTCAATATAATAGCAAA
1 ATGCCTTATAACAA-TCAATACAATAGCAAA
67395917 AGACATGCTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 1 0.02
34 22 0.40
35 28 0.51
36 4 0.07
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.27
Consensus pattern (34 bp):
ATGCCTTATAACAATCAATACAATAGCAAATAAT
Found at i:67396748 original size:29 final size:30
Alignment explanation
Indices: 67396683--67396758 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
67396673 TCAAAATTAT
*
67396683 ACATGAACTTTGATTTAATGTGTAATTTGAA
1 ACATGAACTTTGATTT-AGGTGTAATTTGAA
* *
67396714 ATATGAACTTTGATTT-GGTGTAATTAT-AC
1 ACATGAACTTTGATTTAGGTGTAATT-TGAA
67396743 ACATGAAACTTTGATT
1 ACATG-AACTTTGATT
67396759 ACGATTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 13 0.33
30 11 0.28
31 15 0.38
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (30 bp):
ACATGAACTTTGATTTAGGTGTAATTTGAA
Found at i:67400959 original size:16 final size:16
Alignment explanation
Indices: 67400923--67400953 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67400913 CTCAAATGAC
67400923 CTAAATTCAAAACAAT
1 CTAAATTCAAAACAAT
*
67400939 CTAAATTCGAAACAA
1 CTAAATTCAAAACAA
67400954 CTTAAAACAC
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:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (16 bp):
CTAAATTCAAAACAAT
Found at i:67404052 original size:10 final size:10
Alignment explanation
Indices: 67404037--67404070 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
67404027 GCGTGGAAGA
67404037 CTCAACTCAG
1 CTCAACTCAG
*
67404047 CTCAACTCAA
1 CTCAACTCAG
67404057 CTCAACTCAG
1 CTCAACTCAG
67404067 CTCA
1 CTCA
67404071 GCTCTCACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.32, C:0.41, G:0.06, T:0.21
Consensus pattern (10 bp):
CTCAACTCAG
Found at i:67404074 original size:5 final size:5
Alignment explanation
Indices: 67404036--67404070 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
67404026 CGCGTGGAAG
* *
67404036 ACTCA ACTCA GCTCA ACTCA ACTCA ACTCA GCTCA
1 ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA ACTCA
67404071 GCTCTCACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.34, C:0.40, G:0.06, T:0.20
Consensus pattern (5 bp):
ACTCA
Found at i:67407739 original size:6 final size:6
Alignment explanation
Indices: 67407721--67407750 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
67407711 GTTCCGTAAC
*
67407721 ACCCCA ACACCA ACCCCA ACCCCA ACCCCA
1 ACCCCA ACCCCA ACCCCA ACCCCA ACCCCA
67407751 TCCAACATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.63, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCCA
Found at i:67415361 original size:28 final size:28
Alignment explanation
Indices: 67415329--67415385 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
67415319 CAAATCACTG
67415329 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
67415357 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTGATTTCAAATGATTTTTTA
67415385 G
1 G
67415386 AATCTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (28 bp):
GTAACTTCTGATTTCAAATGATTTTTTA
Found at i:67415401 original size:27 final size:28
Alignment explanation
Indices: 67415329--67415402 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 28
67415319 CAAATCACTG
* **
67415329 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
* **
67415357 GTAACTTCTGATTTCAAATGATTTTTTA
1 GTAACTTCTAATGCCAAATGATTTTTTA
67415385 G-AATCTT-TAATGCCAAAT
1 GTAA-CTTCTAATGCCAAAT
67415403 TTCCTCACGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.24
28 32 0.76
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (28 bp):
GTAACTTCTAATGCCAAATGATTTTTTA
Found at i:67416948 original size:45 final size:45
Alignment explanation
Indices: 67416884--67416970 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
67416874 TTCCTTAATG
** * *
67416884 GTCATTTTCCACCTTAGGACATGCTCATTATCTTTGTTTGGTATT
1 GTCATTTTCCAAATTAGGACATGCACATTATCTTTGCTTGGTATT
67416929 GTCATTTTCCAAATTAGGACATGCACATTATCTTTGCTTGGT
1 GTCATTTTCCAAATTAGGACATGCACATTATCTTTGCTTGGT
67416971 TTAAAAACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.44
Consensus pattern (45 bp):
GTCATTTTCCAAATTAGGACATGCACATTATCTTTGCTTGGTATT
Found at i:67420009 original size:29 final size:29
Alignment explanation
Indices: 67419976--67420032 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
67419966 CTGGGACAAC
67419976 GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
1 GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
67420005 GTTCCCAAAGTTTCAGCCTTTAAAAAAA
1 GTTCCCAAAGTTTCAGCCTTTAAAAAAA
67420033 CCTTGGCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (29 bp):
GTTCCCAAAGTTTCAGCCTTTAAAAAAAG
Found at i:67422233 original size:27 final size:26
Alignment explanation
Indices: 67422183--67422242 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
67422173 AAAAATTATT
67422183 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTTTAAAATTAAAAAAA
67422209 TTAAAAATGTATTTTAAAATT-AAAAAA
1 TTAAAAA--TATTTTAAAATTAAAAAAA
67422236 TTAAAAA
1 TTAAAAA
67422243 AAAAAGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 7 0.22
27 13 0.41
28 12 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
TTAAAAATATTTTAAAATTAAAAAAA
Found at i:67422258 original size:11 final size:11
Alignment explanation
Indices: 67422244--67422269 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
67422234 AATTAAAAAA
67422244 AAAAGTATTTT
1 AAAAGTATTTT
67422255 AAAAGTATTTT
1 AAAAGTATTTT
67422266 AAAA
1 AAAA
67422270 ATAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:67422868 original size:27 final size:27
Alignment explanation
Indices: 67422828--67422884 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
67422818 AGAAGAGGAG
*
67422828 AAAATACTTTTGAAAAGT-ATTGTTAAA
1 AAAATACTTATGAAAAGTGATT-TTAAA
*
67422855 AAAATGCTTATGAAAAGTGATTTTAAA
1 AAAATACTTATGAAAAGTGATTTTAAA
67422882 AAA
1 AAA
67422885 CTTGATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (27 bp):
AAAATACTTATGAAAAGTGATTTTAAA
Found at i:67424093 original size:72 final size:73
Alignment explanation
Indices: 67424004--67424160 Score: 199
Period size: 72 Copynumber: 2.2 Consensus size: 73
67423994 TGCAAAACTG
* * * * *
67424004 TTCATTGATGATATAAAATGCAAGAAGTATAGATCGTCTGTTGACAATACAAAATG-GAAGAAGT
1 TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTGACAATACAAAATGAAAAAAAGT
*
67424068 GTAAATCA
66 GTAAACCA
* * * * *
67424076 TTCATTGGTTATATAAAATGTAAGAAGTGTAGATCATCCGTTGACGATATAAAATGAAAAAAAGT
1 TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTGACAATACAAAATGAAAAAAAGT
67424141 GTAAACCA
66 GTAAACCA
*
67424149 TTAATTGGTGAT
1 TTCATTGGTGAT
67424161 GTGAAATGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 48 0.68
73 23 0.32
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (73 bp):
TTCATTGGTGATATAAAATGCAAGAAGTATAGATCATCCGTTGACAATACAAAATGAAAAAAAGT
GTAAACCA
Found at i:67424094 original size:36 final size:36
Alignment explanation
Indices: 67424054--67424160 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
67424044 TTGACAATAC
* *
67424054 AAAATGGAAGAAGTGTAAATCATTCATTGGTTATAT
1 AAAATGAAAGAAGTGTAAATCATTCATTGGTGATAT
* * * * **
67424090 AAAATGTAAGAAGTGTAGATCATCCGTTGACGATAT
1 AAAATGAAAGAAGTGTAAATCATTCATTGGTGATAT
* * *
67424126 AAAATGAAAAAAAGTGTAAACCATTAATTGGTGAT
1 AAAATG-AAAGAAGTGTAAATCATTCATTGGTGAT
67424161 GTGAAATGTA
Statistics
Matches: 54, Mismatches: 16, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
36 35 0.65
37 19 0.35
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (36 bp):
AAAATGAAAGAAGTGTAAATCATTCATTGGTGATAT
Found at i:67424683 original size:49 final size:49
Alignment explanation
Indices: 67424613--67424725 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 49
67424603 ACAACTCGGT
67424613 AAGTAATAAAGTGACCTTACTCCCAT-ACGCATAGGAGGAGACTTACAAA
1 AAGTAATAAAGTGACCTTACTCCC-TGACGCATAGGAGGAGACTTACAAA
* * ***
67424662 AAGTAATACAA-TGA-CTCTACTCTCTGACGCATGGGAGGAGACTTATGGA
1 AAGTAATA-AAGTGACCT-TACTCCCTGACGCATAGGAGGAGACTTACAAA
67424711 AAGTAATAAAGTGAC
1 AAGTAATAAAGTGAC
67424726 ATTGCTCCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
48 5 0.09
49 47 0.87
50 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (49 bp):
AAGTAATAAAGTGACCTTACTCCCTGACGCATAGGAGGAGACTTACAAA
Found at i:67425372 original size:82 final size:81
Alignment explanation
Indices: 67425149--67425406 Score: 252
Period size: 81 Copynumber: 3.2 Consensus size: 81
67425139 ATATGTCAAG
* * * * * *
67425149 GGATATAACCA-CTCGCAGGAACCCCTCGTGGGCTCCCTTTGTCTCACAATATTCATTATACAAA
1 GGATATAACCATC-CGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-AA
* *
67425213 TAGACAAACGTGCAAAG-
64 TATACAAACATGCAAAGA
* * * * * * * * *
67425230 GGGTATAACCACCCACGAGAACCCTTCACGCGCTCTTTTTATCCCACAATATCCATTATACGAAT
1 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATAC-AAT
67425295 ATACAAACATGCAAAGA
65 ATACAAACATGCAAAGA
* * * *
67425312 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTCTCTAACAATGTACAATATACAGAT
1 GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACA-AT
*
67425377 CTACAAACATGCAAAGA
65 ATACAAACATGCAAAGA
*
67425394 GGA-AAAACCATCC
1 GGATATAACCATCC
67425407 TTTTTGAGAT
Statistics
Matches: 143, Mismatches: 31, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
81 73 0.51
82 70 0.49
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (81 bp):
GGATATAACCATCCGCAAGAACCCTTCGCGGGCTCCTTTTATCTCACAATATACATTATACAATA
TACAAACATGCAAAGA
Done.