Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 151 of 378
Found at i:43432271 original size:44 final size:44
Alignment explanation
Indices: 43432215--43432317 Score: 161
Period size: 44 Copynumber: 2.3 Consensus size: 44
43432205 AATACGATTT
*
43432215 GCACAAAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTG
* * *
43432259 GTAGAGAGCCATAATCAACATAGCACGGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTG
*
43432303 GCACAGAGGCATAAT
1 GCACAGAGCCATAAT
43432318 TAGATTAAGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (44 bp):
GCACAGAGCCATAATCAACATAGCACAGAGCCATATTTAGGTTG
Found at i:43432306 original size:22 final size:22
Alignment explanation
Indices: 43432237--43432320 Score: 69
Period size: 22 Copynumber: 3.8 Consensus size: 22
43432227 AATCAACATA
*
43432237 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATTAGGTTG
* * * *** *
43432259 GTAGAGAGCCATAATCAACATA
1 GCACAGAGCCATAATTAGGTTG
* *
43432281 GCACGGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATTAGGTTG
*
43432303 GCACAGAGGCATAATTAG
1 GCACAGAGCCATAATTAG
43432321 ATTAAGTAGC
Statistics
Matches: 42, Mismatches: 20, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (22 bp):
GCACAGAGCCATAATTAGGTTG
Found at i:43432700 original size:27 final size:26
Alignment explanation
Indices: 43432670--43432783 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
43432660 CAAAATAGTC
43432670 ATTTTATCCTACAGGGGTATTTTGGTA
1 ATTTTA-CCTACAGGGGTATTTTGGTA
* *
43432697 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTAC-CTACAGGGGTATTTTGGTA
** *
43432724 ATTTTACAAACTGGGGTATTTCT-GTA
1 ATTTTACCTACAGGGGTATTT-TGGTA
** * * *
43432750 ATTTTACAAACTGGGGACATTTCGGTA
1 ATTTTACCTACAGGGG-TATTTTGGTA
43432777 ATTTTAC
1 ATTTTAC
43432784 AAATCGGGGG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 29 0.39
27 45 0.61
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (26 bp):
ATTTTACCTACAGGGGTATTTTGGTA
Found at i:43432784 original size:27 final size:27
Alignment explanation
Indices: 43432722--43432886 Score: 153
Period size: 27 Copynumber: 6.1 Consensus size: 27
43432712 GGTATTTTGA
*
43432722 TAATTTTACAAACTGGGG-TATTTCTG
1 TAATTTTACAAACTGGGGATATTTCAG
* *
43432748 TAATTTTACAAACTGGGGACATTTCGG
1 TAATTTTACAAACTGGGGATATTTCAG
* *
43432775 TAATTTTACAAA-TCGGGGGTATTTCAA
1 TAATTTTACAAACT-GGGGATATTTCAG
*
43432802 TAATTTTATAAACT-GGGAGTATTTCAG
1 TAATTTTACAAACTGGGGA-TATTTCAG
*
43432829 TAATTTTACAAAAC-GGGGGTATTTC-G
1 TAATTTTAC-AAACTGGGGATATTTCAG
** *
43432855 CTAATTCCACAAATCAGGGG-TATTTCAG
1 -TAATTTTACAAA-CTGGGGATATTTCAG
43432883 TAAT
1 TAAT
43432887 CTAAACAGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
26 26 0.22
27 77 0.66
28 13 0.11
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (27 bp):
TAATTTTACAAACTGGGGATATTTCAG
Found at i:43432860 original size:54 final size:52
Alignment explanation
Indices: 43432722--43432886 Score: 188
Period size: 54 Copynumber: 3.1 Consensus size: 52
43432712 GGTATTTTGA
* * *
43432722 TAATTTTAC-AAACTGGGGTATTTCTGTAATTTTACAAACTGGGGACATTTCGG
1 TAATTTTACAAAACGGGGGTATTTC-GTAATTTTACAAACTGGGG-TATTTCAG
* * *
43432775 TAATTTTACAAATCGGGGGTATTTCAATAATTTTATAAACTGGGAGTATTTCAG
1 TAATTTTACAAAACGGGGGTATTTC-GTAATTTTACAAACTGGG-GTATTTCAG
** *
43432829 TAATTTTACAAAACGGGGGTATTTCGCTAATTCCACAAATCAGGGGTATTTCAG
1 TAATTTTACAAAACGGGGGTATTTCG-TAATTTTACAAA-CTGGGGTATTTCAG
43432883 TAAT
1 TAAT
43432887 CTAAACAGTT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 9 0.09
54 81 0.85
55 5 0.05
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (52 bp):
TAATTTTACAAAACGGGGGTATTTCGTAATTTTACAAACTGGGGTATTTCAG
Found at i:43432867 original size:81 final size:80
Alignment explanation
Indices: 43432711--43432886 Score: 228
Period size: 81 Copynumber: 2.2 Consensus size: 80
43432701 TACACTACAA
** * *
43432711 GGGTATTTTGATAATTTTACAAACTGGGGTATTTCTGTAATTTTACAAACTGGGGACATTTCGGT
1 GGGTATTTCAATAATTTTACAAACTGGGGTATTTCAGTAATTTTACAAACTGGGGACATTTCGCT
** *
43432776 AATTTTACAAATCGG
66 AATTCCACAAATCAG
* **
43432791 GGGTATTTCAATAATTTTATAAACTGGGAGTATTTCAGTAATTTTACAAAAC-GGGGGTATTTCG
1 GGGTATTTCAATAATTTTACAAACTGGG-GTATTTCAGTAATTTTAC-AAACTGGGGACATTTCG
43432855 CTAATTCCACAAATCAG
64 CTAATTCCACAAATCAG
*
43432872 GGGTATTTCAGTAAT
1 GGGTATTTCAATAAT
43432887 CTAAACAGTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 25 0.30
81 54 0.65
82 4 0.05
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (80 bp):
GGGTATTTCAATAATTTTACAAACTGGGGTATTTCAGTAATTTTACAAACTGGGGACATTTCGCT
AATTCCACAAATCAG
Found at i:43440898 original size:3 final size:3
Alignment explanation
Indices: 43440890--43440920 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
43440880 GAGGATCTCA
43440890 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
43440921 TCCCACAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43444837 original size:17 final size:17
Alignment explanation
Indices: 43444798--43444838 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
43444788 AAAATATATT
*
43444798 TGATAAAGCCCGATCAA
1 TGATAAAGCCCGATAAA
* *
43444815 TAATAATGCCCGATAAA
1 TGATAAAGCCCGATAAA
43444832 TGATAAA
1 TGATAAA
43444839 TGATAAAAGT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (17 bp):
TGATAAAGCCCGATAAA
Found at i:43450493 original size:38 final size:38
Alignment explanation
Indices: 43450451--43450526 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
43450441 TAAAGAAGAT
*
43450451 AAATTAATTAAATAGAAATAAAAGTCATTTATATCATC
1 AAATTAATTAAATAGAAATAAAAGGCATTTATATCATC
43450489 AAATTAATTAAATAGAAATAAAAGGCATTTATATCATC
1 AAATTAATTAAATAGAAATAAAAGGCATTTATATCATC
43450527 TTCTTCCCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.33
Consensus pattern (38 bp):
AAATTAATTAAATAGAAATAAAAGGCATTTATATCATC
Found at i:43451192 original size:16 final size:16
Alignment explanation
Indices: 43451171--43451202 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
43451161 TCTGTAACGC
43451171 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
43451187 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
43451203 TCCTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:43455141 original size:39 final size:39
Alignment explanation
Indices: 43455098--43455206 Score: 184
Period size: 38 Copynumber: 2.8 Consensus size: 39
43455088 TCAATCATGC
* *
43455098 ACTGGGCCGTAGCCCTTTCCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
43455137 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
*
43455175 ACTGGGCCGAAGCACTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCCTTTTCATATTTCATATT
43455207 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 37 0.56
39 29 0.44
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (39 bp):
ACTGGGCCGAAGCCCTTTTCATATTTCATATTTCATAAT
Found at i:43455200 original size:32 final size:31
Alignment explanation
Indices: 43455159--43455223 Score: 112
Period size: 32 Copynumber: 2.1 Consensus size: 31
43455149 CCTTTTCATA
43455159 TTTCATATTTCATAATACTGGGCCGAAGCACT
1 TTTCATATTTCATAATACTGGGCCGAAGC-CT
*
43455191 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
43455222 TT
1 TT
43455224 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:43455460 original size:24 final size:24
Alignment explanation
Indices: 43455414--43455532 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
43455404 GCTTTATCAT
*
43455414 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
43455439 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
43455463 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
43455486 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43455510 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43455533 TCACTTCCTC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 24 0.29
24 47 0.56
25 13 0.15
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43455493 original size:47 final size:48
Alignment explanation
Indices: 43455414--43455532 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 48
43455404 GCTTTATCAT
*
43455414 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
43455463 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43455510 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43455533 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 2 0.03
47 42 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43455608 original size:20 final size:20
Alignment explanation
Indices: 43455583--43455642 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
43455573 TATGATTACC
43455583 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
43455603 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
*
43455623 TCATGTGCGTATCATACATA
1 TCATGTGCATATCATACATA
43455643 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:43455716 original size:25 final size:25
Alignment explanation
Indices: 43455684--43455731 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43455674 CATACATAAC
* * *
43455684 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43455709 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43455732 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43458298 original size:16 final size:16
Alignment explanation
Indices: 43458277--43458315 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43458267 TTACCAGCCG
*
43458277 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATGACA
*
43458293 AAAAGCTGAAATGACA
1 AAAAGCCGAAATGACA
43458309 AAAAGCC
1 AAAAGCC
43458316 AAAAGTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.21, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATGACA
Found at i:43458636 original size:28 final size:28
Alignment explanation
Indices: 43458563--43458639 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
43458553 TGAATATGAT
* * *
43458563 TTGGGCCTAATGGGCCACATAAATGTGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
*
43458591 ATGGGCCTAATGGGCCATATAAAAGAGA
1 TTGGGCCTAATGGGCCATATAAAAGAGA
*
43458619 TTGGGCCTAGTGGGCCATATA
1 TTGGGCCTAATGGGCCATATA
43458640 TATATAGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAAAGAGA
Found at i:43465192 original size:48 final size:48
Alignment explanation
Indices: 43465121--43465216 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
43465111 GTGCCATTTA
43465121 ACTGGACTGATGCACAGCAAAAGAGATTTGAGAAGCGCAAGATTGTAC
1 ACTGGACTGATGCACAGCAAAAGAGATTTGAGAAGCGCAAGATTGTAC
43465169 ACTGGACTGATGCACAGCAAAAGAGATTTGAGAAGCGCAAGATTGTAC
1 ACTGGACTGATGCACAGCAAAAGAGATTTGAGAAGCGCAAGATTGTAC
43465217 TGACTGAGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (48 bp):
ACTGGACTGATGCACAGCAAAAGAGATTTGAGAAGCGCAAGATTGTAC
Found at i:43467863 original size:17 final size:18
Alignment explanation
Indices: 43467837--43467881 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
43467827 TAGACTGGTG
*
43467837 TGGGCCTGTGGG-CCACA
1 TGGGCGTGTGGGCCCACA
*
43467854 TGGGTGTGTGGGCCCACA
1 TGGGCGTGTGGGCCCACA
43467872 TGGGCGTGTG
1 TGGGCGTGTG
43467882 ATCCACACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.09, C:0.22, G:0.47, T:0.22
Consensus pattern (18 bp):
TGGGCGTGTGGGCCCACA
Found at i:43469272 original size:13 final size:13
Alignment explanation
Indices: 43469254--43469280 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43469244 AAATCATACC
43469254 ATTTTCATAACTA
1 ATTTTCATAACTA
43469267 ATTTTCATAACTA
1 ATTTTCATAACTA
43469280 A
1 A
43469281 CTTACCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTCATAACTA
Found at i:43474039 original size:40 final size:40
Alignment explanation
Indices: 43473973--43474139 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43473963 AAATTGAATG
* * *
43473973 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43474012 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43474052 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43474092 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43474132 ATATCCGG
1 ATATCCGG
43474140 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43492766 original size:239 final size:232
Alignment explanation
Indices: 43492352--43492777 Score: 565
Period size: 239 Copynumber: 1.8 Consensus size: 232
43492342 GCCGTGTAAG
*
43492352 TTGGAAAAATTTTAAAATTTCACTAAAAATTTTTAGAGTTTCGATTTAAGTCCCGATTCGATTCA
1 TTGGAAAAATTTTAAAATTTCAC-AAAAATTCTTAGAGTTTCGATTTAAGTCCCGATTCGATTCA
* * * *
43492417 AAAGCTCATATTGCGAGGGTCTATTTAAGGGACGTTACGAATAATCTTGGTTAATGAATAGTAAT
65 AAAGCTCATATTGCGAGGGTCCATTTAAGGGACGTTACAAACAATCTTGGTAAATGAATAGTAAT
43492482 TGTTGAAATTATTTGAAAATGTTCTGAAAGTTCTAGTAATGCTCTGTAAACCTATTCTGGCGACG
130 TGTTGAAATTATTTGAAAATGTTCTGAAAGTTCTAGTAATGCTCTGTAAACCTATTCTGGCGACG
43492547 GATACGGATTAGGGGTGTTACAGTGTGAGCACTGCACC
195 GATACGGATTAGGGGTGTTACAGTGTGAGCACTGCACC
* * * *
43492585 TTGGAAAAATTTTGAAATTATCA-AAAAATTCTTAGAGTTTTCGA-TTAAGTCTCGATTTGGTTG
1 TTGGAAAAATTTTAAAATT-TCACAAAAATTCTTAGAG-TTTCGATTTAAGTCCCGATTCGATT-
* * *
43492648 TAAAA-CTCATATTGGGCCTCGAGGGTCCATTTAAGGGATGTTACAAACAATTTTCGG-AAAGTG
63 CAAAAGCTCATATT--G---CGAGGGTCCATTTAAGGGACGTTACAAACAATCTT-GGTAAA-TG
* * *
43492711 AATAGTAATTGTTGTAACTT-TTATGAAAATGTTTTGAAAGTTCTAGTAATGCTCTGTAACCCTA
121 AATAGTAATTGTTG-AAATTATT-TGAAAATGTTCTGAAAGTTCTAGTAATGCTCTGTAAACCTA
43492775 TTC
184 TTC
43492778 CAAAGACAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
232 36 0.22
233 28 0.17
234 4 0.02
237 32 0.19
238 20 0.12
239 46 0.28
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (232 bp):
TTGGAAAAATTTTAAAATTTCACAAAAATTCTTAGAGTTTCGATTTAAGTCCCGATTCGATTCAA
AAGCTCATATTGCGAGGGTCCATTTAAGGGACGTTACAAACAATCTTGGTAAATGAATAGTAATT
GTTGAAATTATTTGAAAATGTTCTGAAAGTTCTAGTAATGCTCTGTAAACCTATTCTGGCGACGG
ATACGGATTAGGGGTGTTACAGTGTGAGCACTGCACC
Found at i:43493586 original size:13 final size:13
Alignment explanation
Indices: 43493564--43493593 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43493554 TTTTTACCTT
43493564 TTAATCTTCTTAG
1 TTAATCTTCTTAG
*
43493577 TTAATTTTCTTAG
1 TTAATCTTCTTAG
43493590 TTAA
1 TTAA
43493594 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATCTTCTTAG
Found at i:43498515 original size:23 final size:23
Alignment explanation
Indices: 43498489--43498532 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
43498479 TAGACAATGA
*
43498489 AAGAGAGGAAGAG-ATTCAGCTTC
1 AAGAGAAGAAG-GTATTCAGCTTC
43498512 AAGAGAAGAAGGTATTCAGCT
1 AAGAGAAGAAGGTATTCAGCT
43498533 ATAACAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.18
Consensus pattern (23 bp):
AAGAGAAGAAGGTATTCAGCTTC
Found at i:43501380 original size:39 final size:38
Alignment explanation
Indices: 43501293--43501419 Score: 173
Period size: 39 Copynumber: 3.3 Consensus size: 38
43501283 TGAGACTTTA
* *
43501293 AGCCCGGATATAATACCAGCACAAAGCCTTCGGGACTT
1 AGCCCAGATATAACACCAGCACAAAGCCTTCGGGACTT
* * *
43501331 AACCCAGATATAACACCAGCACGAATGCCTTCAGGACTT
1 AGCCCAGATATAACACCAGCAC-AAAGCCTTCGGGACTT
* *
43501370 AGCCCGGATATAACACCAGCACAAACGCCTTCGGGAATT
1 AGCCCAGATATAACACCAGCACAAA-GCCTTCGGGACTT
43501409 AGCCCAGATAT
1 AGCCCAGATAT
43501420 TATCTCACAC
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
38 21 0.28
39 55 0.72
ACGTcount: A:0.34, C:0.30, G:0.19, T:0.17
Consensus pattern (38 bp):
AGCCCAGATATAACACCAGCACAAAGCCTTCGGGACTT
Found at i:43515335 original size:71 final size:71
Alignment explanation
Indices: 43515251--43515414 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43515241 CGATTTGTCT
43515251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43515316 CTTTCA
66 CTTTCA
43515322 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
43515387 CTTTCA
66 CTTTCA
43515393 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43515415 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:43515452 original size:71 final size:70
Alignment explanation
Indices: 43515251--43515448 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
43515241 CGATTTGTCT
* * * *
43515251 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43515316 CTTTCA
65 CTTTCA
* * * *
43515322 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43515387 CTTTCA
65 CTTTCA
* *
43515393 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
43515449 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:43516778 original size:28 final size:28
Alignment explanation
Indices: 43516738--43516891 Score: 114
Period size: 28 Copynumber: 5.5 Consensus size: 28
43516728 GAGTTATGAG
*
43516738 GCACTATGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
* * ** * *
43516766 GCACTATGTGTGCCAGATAGT-AGTTGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
*
43516793 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCAAGTTCTTCAATCGA
** ** *
43516822 GCACTATGTGTGTGAGATTGGT-AATTGA
1 GCACTATGTGTGCAAG-TTCTTCAATCGA
* * *
43516850 GGCACTATGTGTGCGAGTTCTTTAATCAA
1 -GCACTATGTGTGCAAGTTCTTCAATCGA
*
43516879 GCGCTATGTGTGC
1 GCACTATGTGTGC
43516892 GAAATCAGTC
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
27 3 0.03
28 69 0.70
29 26 0.27
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTTCAATCGA
Found at i:43516823 original size:56 final size:56
Alignment explanation
Indices: 43516734--43516921 Score: 236
Period size: 56 Copynumber: 3.3 Consensus size: 56
43516724 GCTGGAGTTA
* * *
43516734 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATAGTAGT
* * *
43516790 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGTGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGA-TAGTAGT
* * * *
43516847 TGAGGCACTATGTGTGCGAGTTCTTTAATCAAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGAT-AGT-AGT
*
43516904 TG-GGCACTATGTATGCGA
1 TGAGGCACTATGTGTGCGA
43516922 AGTGTGTTTC
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
56 61 0.53
57 53 0.46
58 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (56 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATAGTAGT
Found at i:43516870 original size:57 final size:56
Alignment explanation
Indices: 43516734--43516891 Score: 226
Period size: 57 Copynumber: 2.8 Consensus size: 56
43516724 GCTGGAGTTA
* * *
43516734 TGAGGCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATAGTAAT
** *
43516790 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGTGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGA-TAGTAAT
* * *
43516847 TGAGGCACTATGTGTGCGAGTTCTTTAATCAAGCGCTATGTGTGC
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGC
43516892 GAAATCAGTC
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 45 0.49
57 46 0.51
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (56 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCCAGATAGTAAT
Found at i:43520504 original size:48 final size:48
Alignment explanation
Indices: 43520442--43520994 Score: 886
Period size: 48 Copynumber: 11.9 Consensus size: 48
43520432 TATTTATATG
43520442 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
43520490 TGTGGTAAAGCCGAA----TA---TG---TATG-A-GATATGT--ATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
43520524 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGT-TGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
43520571 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
43520619 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
43520667 TGTGGTAAAGGCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
43520715 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
43520763 TGTGGTAAAGACGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
43520811 TGTGTTAAAGCCGAATGGCTAGTGTGAAATATG-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
43520858 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
43520906 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
43520954 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
43520995 GTGTGTATAT
Statistics
Matches: 471, Mismatches: 18, Indels: 32
0.90 0.03 0.06
Matches are distributed among these distances:
34 18 0.04
36 5 0.01
37 1 0.00
38 6 0.01
41 4 0.01
44 6 0.01
45 5 0.01
47 82 0.17
48 344 0.73
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:43520512 original size:34 final size:34
Alignment explanation
Indices: 43520469--43520539 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
43520459 GCTAGTGTGA
43520469 AATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATATGTATGAGATATGTATATGTGGTAAAGCCG
43520503 AATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATATGTATGAGATATGTATATGTGGTAAAGCCG
43520537 AAT
1 AAT
43520540 GGCTAATGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (34 bp):
AATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:43521190 original size:37 final size:37
Alignment explanation
Indices: 43521135--43521274 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
43521125 GGAAATATAT
43521135 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43521172 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
43521209 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
43521246 TCCGAGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
43521275 GGACTATTCG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:43527753 original size:28 final size:28
Alignment explanation
Indices: 43527712--43527802 Score: 132
Period size: 28 Copynumber: 3.2 Consensus size: 28
43527702 AGGAAGCGTC
43527712 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
43527740 CTGGTGGTC-CTGCCACAAATTATCTGTT
1 CTGGTGG-CACTGCCACAAATTATCTGTT
*
43527768 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
43527797 CTGGTG
1 CTGGTG
43527803 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 49 0.84
29 8 0.14
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:43527813 original size:29 final size:27
Alignment explanation
Indices: 43527712--43527813 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 27
43527702 AGGAAGCGTC
*
43527712 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGT-GCTCTGCCACAAATTATCTGTT
*
43527740 CTGGTGGTCCTGCCACAAATTATCTGTT
1 CTGGTGCT-CTGCCACAAATTATCTGTT
* *
43527768 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGT-GCTCTGCCACAAATTATCTGT-T
*
43527797 CTGGTGACTCTGTCACA
1 CTGGTG-CTCTGCCACA
43527814 TTTTCTGTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 46 0.73
29 15 0.24
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGCTCTGCCACAAATTATCTGTT
Found at i:43527827 original size:56 final size:55
Alignment explanation
Indices: 43527712--43527827 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 55
43527702 AGGAAGCGTC
* *
43527712 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGTCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGCTCCTGCCAC-AATTATCTGTT
* *
43527768 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACT-CTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTG-CTCCTGCCACAATTATCTGT-T
43527824 CTGG
1 CTGG
43527828 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 13 0.25
58 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGCTCCTGCCACAATTATCTGTT
Found at i:43528290 original size:19 final size:19
Alignment explanation
Indices: 43528266--43528304 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43528256 TTTTAATTAT
* *
43528266 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
43528285 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
43528304 T
1 T
43528305 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:43535753 original size:2 final size:2
Alignment explanation
Indices: 43535746--43535770 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43535736 TATCAATTTC
43535746 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
43535771 GACATTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43536254 original size:41 final size:41
Alignment explanation
Indices: 43536150--43536281 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
43536140 ACATAAAATT
** * *
43536150 TGCTAGGC-ATAAAGCCTAGTATAATACACCAGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTAAAATAATACACCAGCATAAAGCC
* * * *
43536191 TGCTAGGTAGTAGGCCTAAAATAATACACCGGCATAAAGCC
1 TGCTAGGCAATAAGCCTAAAATAATACACCAGCATAAAGCC
* * **
43536232 TGCTAGGCAATAAGCCTGAAATAATATACTTGCATAAAGCC
1 TGCTAGGCAATAAGCCTAAAATAATACACCAGCATAAAGCC
43536273 TGCTAGGCA
1 TGCTAGGCA
43536282 TAAAGCTGAA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 74 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTAAAATAATACACCAGCATAAAGCC
Found at i:43549325 original size:54 final size:54
Alignment explanation
Indices: 43549241--43549390 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 54
43549231 AACTGTTTAG
* ** * *
43549241 ATTACTGAAATAC-CCTTGATTTGTGGAATTAGCGAAATACCCCCGTTTTGTAAA
1 ATTACTGAAATACTCCTAG-TTTGTAAAATTACCGAAATACCCCCGATTTGTAAA
* *
43549295 ATTACTGAAATACTCCTAGTTTGTAAAATTATCGAAATACCCTCGATTTGTAAA
1 ATTACTGAAATACTCCTAGTTTGTAAAATTACCGAAATACCCCCGATTTGTAAA
** * *
43549349 ATTACCT-AAATGTTCCCAGTTTGTAAAATTACCAAAATACCC
1 ATTA-CTGAAATACTCCTAGTTTGTAAAATTACCGAAATACCC
43549391 TTGTAGTGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 77 0.93
55 6 0.07
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (54 bp):
ATTACTGAAATACTCCTAGTTTGTAAAATTACCGAAATACCCCCGATTTGTAAA
Found at i:43549359 original size:27 final size:27
Alignment explanation
Indices: 43549248--43549417 Score: 123
Period size: 27 Copynumber: 6.3 Consensus size: 27
43549238 TAGATTACTG
* ** * *
43549248 AAATACCCTTGATTTGTGGAATTAGCG
1 AAATACCCTCGATTTGTAAAATTACCA
* * **
43549275 AAATACCCCCGTTTTGTAAAATTACTG
1 AAATACCCTCGATTTGTAAAATTACCA
* * *
43549302 AAATACTCCTAG-TTTGTAAAATTATCG
1 AAATAC-CCTCGATTTGTAAAATTACCA
*
43549329 AAATACCCTCGATTTGTAAAATTACCT
1 AAATACCCTCGATTTGTAAAATTACCA
**
43549356 AAATGTTCC-C-AGTTTGTAAAATTACCA
1 AAAT-ACCCTCGA-TTTGTAAAATTACCA
* *
43549383 AAATACCCTTG-TAGTGTAAAATTACCA
1 AAATACCCTCGAT-TTGTAAAATTACCA
43549410 AAATACCC
1 AAATACCC
43549418 CTGTAGGATA
Statistics
Matches: 115, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
26 8 0.07
27 102 0.89
28 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCA
Found at i:43549391 original size:54 final size:53
Alignment explanation
Indices: 43549275--43549415 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 53
43549265 GGAATTAGCG
* * * *
43549275 AAATACCCCCGTTTTGTAAAATTA-CTGAAATACTCCTAGTTTGTAAAATTATCG
1 AAATACCCTCG-TTTGTAAAATTACCT-AAATACTCCCAGTTTGTAAAATTACCA
**
43549329 AAATACCCTCGATTTGTAAAATTACCTAAATGTTCCCAGTTTGTAAAATTACCA
1 AAATACCCTCG-TTTGTAAAATTACCTAAATACTCCCAGTTTGTAAAATTACCA
* * *
43549383 AAATACCCTTGTAGTGTAAAATTACCAAAATAC
1 AAATACCCTCGT-TTGTAAAATTACCTAAATAC
43549416 CCCTGTAGGA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 1 0.01
54 70 0.96
55 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (53 bp):
AAATACCCTCGTTTGTAAAATTACCTAAATACTCCCAGTTTGTAAAATTACCA
Found at i:43549422 original size:27 final size:27
Alignment explanation
Indices: 43549370--43549431 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
43549360 GTTCCCAGTT
*
43549370 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
43549397 TGTAAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
43549424 -GATAAAAT
1 TG-TAAAAT
43549432 GACTATTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:43549817 original size:22 final size:22
Alignment explanation
Indices: 43549783--43549861 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
43549773 TTAATCTGAT
*
43549783 TATGCCTCTGTGCCAACCTATA
1 TATGGCTCTGTGCCAACCTATA
* * ***
43549805 TATGGCTCCGTGCTATGTTGAT-
1 TATGGCTCTGTGCCAACCT-ATA
*
43549827 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTATA
43549849 TATGGCTCTGTGC
1 TATGGCTCTGTGC
43549862 TATGTTGATT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 1 0.02
22 40 0.93
23 2 0.05
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTATA
Found at i:43549829 original size:44 final size:44
Alignment explanation
Indices: 43549779--43549883 Score: 174
Period size: 44 Copynumber: 2.4 Consensus size: 44
43549769 CTGCTTAATC
* *
43549779 TGATTATGCCTCTGTGCCAACCTATATATGGCTCCGTGCTATGT
1 TGATTATGGCTCTGTGCCAACCTAAATATGGCTCCGTGCTATGT
*
43549823 TGATTATGGCTCTGTGCCAACCTAAATATGGCTCTGTGCTATGT
1 TGATTATGGCTCTGTGCCAACCTAAATATGGCTCCGTGCTATGT
*
43549867 TGATTATGGCTTTGTGC
1 TGATTATGGCTCTGTGC
43549884 AAATCGTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (44 bp):
TGATTATGGCTCTGTGCCAACCTAAATATGGCTCCGTGCTATGT
Found at i:43549874 original size:22 final size:22
Alignment explanation
Indices: 43549805--43549883 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
43549795 CCAACCTATA
*
43549805 TATGGCTCCGTGCTATGTTGAT
1 TATGGCTCTGTGCTATGTTGAT
* *** * *
43549827 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCTATGTTGAT
43549849 TATGGCTCTGTGCTATGTTGAT
1 TATGGCTCTGTGCTATGTTGAT
*
43549871 TATGGCTTTGTGC
1 TATGGCTCTGTGC
43549884 AAATCGTATT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.39
Consensus pattern (22 bp):
TATGGCTCTGTGCTATGTTGAT
Found at i:43561331 original size:31 final size:31
Alignment explanation
Indices: 43561290--43561466 Score: 311
Period size: 31 Copynumber: 5.7 Consensus size: 31
43561280 TTAGTCTTGA
43561290 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
43561320 CATATAACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
43561351 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
43561382 CATTTCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
43561413 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
43561444 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
43561467 ACTGTAAATG
Statistics
Matches: 140, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.04
31 135 0.96
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:43561761 original size:26 final size:26
Alignment explanation
Indices: 43561684--43561909 Score: 289
Period size: 26 Copynumber: 8.8 Consensus size: 26
43561674 CCTCTTTAAT
*
43561684 AACTAGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43561709 AACTGGGGCA-AAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
43561734 AACTAGGGCATAAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43561760 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43561786 AACTGGGGCATAAACCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43561812 AACTGGGGCA-AAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43561837 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43561863 AACTAGGGCATAAGCCCTTTGT-GATA
1 AACTGGGGCATAAGCCCTTT-TCGATA
43561889 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43561910 GCACTTCCTC
Statistics
Matches: 171, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 52 0.30
26 118 0.69
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:43561795 original size:52 final size:51
Alignment explanation
Indices: 43561684--43561909 Score: 321
Period size: 52 Copynumber: 4.4 Consensus size: 51
43561674 CCTCTTTAAT
* * *
43561684 AACTAGGGCA-AAGCCCTTTTCGATAAACTGGGGCAAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* *
43561734 AACTAGGGCATAAACCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
* *
43561786 AACTGGGGCATAAACCCTTTTCGGTAAACTGGGGCAAAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
* * *
43561837 AATTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTGT-GATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTT-TCAATA
43561889 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43561910 GCACTTCCTC
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
50 10 0.06
51 70 0.43
52 80 0.50
53 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (51 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATA
Found at i:43561825 original size:103 final size:103
Alignment explanation
Indices: 43561680--43561909 Score: 349
Period size: 103 Copynumber: 2.3 Consensus size: 103
43561670 CTAGCCTCTT
*
43561680 TAAT-AACTAGGGCA-AAGCCCTTTTCGATAAACTGGGGCAAAGCCATTTTCAATAAACTAGGGC
1 TAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCATTTTCAATAAACTAGGGC
*
43561743 ATAAACCCTTTTCGGTAAACTGGGGCATAAGCCCTTT-
66 ATAAACCCTTTTCGGTAAACTAGGGCATAAGCCCTTTG
* * * * *
43561780 TCAATAAACTGGGGCATAAACCCTTTTCGGTAAACTGGGGCAAAGCCGTTTTCAATAAATTGGGG
1 T-AATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCATTTTCAATAAACTAGGG
*
43561845 CATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTG
65 CATAAACCCTTTTCGGTAAACTAGGGCATAAGCCCTTTG
*
43561884 TGATAAACTGGGGCATAAGCCCTTTT
1 TAATAAACTGGGGCATAAGCCCTTTT
43561910 GCACTTCCTC
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
100 1 0.01
101 3 0.03
102 9 0.08
103 102 0.88
104 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (103 bp):
TAATAAACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCAAAGCCATTTTCAATAAACTAGGGC
ATAAACCCTTTTCGGTAAACTAGGGCATAAGCCCTTTG
Found at i:43561984 original size:20 final size:20
Alignment explanation
Indices: 43561959--43562065 Score: 162
Period size: 20 Copynumber: 5.3 Consensus size: 20
43561949 TTATGAATAC
43561959 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
43561979 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
43561999 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43562019 TTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43562039 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
43562059 ATCATGT
1 ATCATGT
43562066 ATATCATATC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 77 0.97
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43562005 original size:40 final size:40
Alignment explanation
Indices: 43561959--43562065 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
43561949 TTATGAATAC
43561959 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
*
43561999 ATCATGTGCATTTCATACATTTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
*
43562039 ATCATGTGCATATCATATCA-ATCATGT
1 ATCATGTGCATTTCATA-CATATCATGT
43562066 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 61 0.97
41 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
Found at i:43562982 original size:27 final size:27
Alignment explanation
Indices: 43562890--43563023 Score: 110
Period size: 27 Copynumber: 4.9 Consensus size: 27
43562880 GTAAATCTAC
*
43562890 AAATCAAGGGTATTTCAGTAATTTTGT
1 AAATCAAGGGTATTTCTGTAATTTTGT
* ** * *
43562917 AAACCAATAGTATTTTTATAATTTT-T
1 AAATCAAGGGTATTTCTGTAATTTTGT
*
43562943 AGAAAGTCAAGGGTGTTTCTGTAATTTTGT
1 --AAA-TCAAGGGTATTTCTGTAATTTTGT
**
43562973 AAATCAAGGGTATTT-TGGTAATTTTAC
1 AAATCAAGGGTATTTCT-GTAATTTTGT
** *
43563000 AAATTGAGGGTATTTCGGTAATTT
1 AAATCAAGGGTATTTCTGTAATTT
43563024 AACAAACCAG
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
26 2 0.02
27 58 0.70
28 6 0.07
29 16 0.19
30 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
AAATCAAGGGTATTTCTGTAATTTTGT
Found at i:43563089 original size:27 final size:27
Alignment explanation
Indices: 43562980--43563103 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
43562970 TGTAAATCAA
* *
43562980 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTCTACAAACTAG
* *
43563006 AGGGTATTTCGGTAATT-TAACAAACCAG
1 -GGGTATTTTGGTAATTCT-ACAAACTAG
* *
43563034 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTCTACAAACTAG
**
43563061 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTCTA-CAAACTAG
*
43563088 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
43563104 TCACAATCGA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 76 0.93
28 5 0.06
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTACAAACTAG
Found at i:43563093 original size:54 final size:54
Alignment explanation
Indices: 43562980--43563118 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
43562970 TGTAAATCAA
*
43562980 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTAACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTAACAAACCAG
* * * **
43563034 TGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTCTATCCTA-CAG
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCGGTAATT-TAACAAACCAG
* * *
43563088 GGGTATTTTAGTAATTTCAC-AATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTA
43563119 AAACGATAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.03
53 7 0.10
54 57 0.79
55 6 0.08
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGGTAATTTAACAAACCAG
Found at i:43563138 original size:27 final size:27
Alignment explanation
Indices: 43563108--43563251 Score: 216
Period size: 27 Copynumber: 5.3 Consensus size: 27
43563098 GTAATTTCAC
* * *
43563108 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
43563135 AATCGAGGGTAAAATGGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTATA
43563162 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
43563189 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
43563216 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
43563243 AATCGAGGG
1 AATCGAGGG
43563252 CATTTTAGTA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:43563263 original size:81 final size:80
Alignment explanation
Indices: 43563092--43563265 Score: 206
Period size: 81 Copynumber: 2.2 Consensus size: 80
43563082 CTACAGGGGT
* * *
43563092 ATTTTAGTAATTTCACAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTAATT
1 ATTTTAGTAATTTCAAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATT
** *
43563157 CTTTAAATCGAGGGT
66 CTACAAATCGAGGGC
***** * *
43563172 AAAACGGTAA-TTCTATAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAA
1 ATTTTAGTAATTTC-A-AAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAA
43563236 TTCTACAAATCGAGGGC
64 TTCTACAAATCGAGGGC
43563253 ATTTTAGTAATTT
1 ATTTTAGTAATTT
43563266 GGTAAACTAA
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
79 3 0.04
80 6 0.08
81 62 0.85
82 2 0.03
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (80 bp):
ATTTTAGTAATTTCAAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATT
CTACAAATCGAGGGC
Found at i:43566780 original size:28 final size:28
Alignment explanation
Indices: 43566715--43566813 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
43566705 TCATGAATTG
* * *
43566715 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
43566744 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
43566772 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
43566800 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43566814 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:43574607 original size:31 final size:31
Alignment explanation
Indices: 43574569--43574740 Score: 308
Period size: 31 Copynumber: 5.5 Consensus size: 31
43574559 TTTAACGGTT
43574569 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
43574600 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
43574631 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43574662 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
43574693 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
43574724 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43574741 ACTATAAACG
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43575029 original size:26 final size:26
Alignment explanation
Indices: 43574958--43575157 Score: 280
Period size: 26 Copynumber: 7.8 Consensus size: 26
43574948 CCTCTTTAAT
* *
43574958 AACTGGGCCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43574983 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
43575008 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43575034 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43575060 AACTGGGGCATAAACCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
43575086 AACTGGGGTA-AAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
43575111 AATTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
43575137 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
43575158 GCACTTCCTC
Statistics
Matches: 153, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
25 51 0.33
26 102 0.67
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:43575029 original size:51 final size:52
Alignment explanation
Indices: 43574958--43575157 Score: 307
Period size: 51 Copynumber: 3.9 Consensus size: 52
43574948 CCTCTTTAAT
* *
43574958 AACTGGGCCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATA
* *
43575008 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATA
* * *
43575060 AACTGGGGCATAAACCCTTTTCGATAAACTGGGGTA-AAGCCGTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATA
*
43575111 AATTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTT
43575158 GCACTTCCTC
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
50 8 0.06
51 72 0.53
52 56 0.41
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:43575062 original size:77 final size:77
Alignment explanation
Indices: 43574958--43575157 Score: 278
Period size: 77 Copynumber: 2.6 Consensus size: 77
43574948 CCTCTTTAAT
* *
43574958 AACTGGGCCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAAACTAGGGCATAA
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCA-AA
**
43575021 GCCCTTTTCGGTA
65 GCCCTTTTCAATA
* * * * *
43575034 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAACCCTTTTCGATAAACTGGGGTAAAG
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCAAAG
*
43575099 CCGTTTTCAATA
66 CCCTTTTCAATA
*
43575111 AATTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTT
43575158 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
76 9 0.08
77 79 0.72
78 21 0.19
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (77 bp):
AACTGGGGCATAAGCCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATAAACTAGGGCAAAG
CCCTTTTCAATA
Found at i:43575236 original size:20 final size:20
Alignment explanation
Indices: 43575207--43575313 Score: 153
Period size: 20 Copynumber: 5.3 Consensus size: 20
43575197 TTATGAATAC
43575207 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43575227 ATCGTGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
43575247 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43575267 TTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43575287 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
43575307 ATCATGT
1 ATCATGT
43575314 ATATCATATC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
20 75 0.97
21 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43575253 original size:40 final size:40
Alignment explanation
Indices: 43575207--43575313 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
43575197 TTATGAATAC
*
43575207 ATCATGTGCATTTCATACATATCGTGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
*
43575247 ATCATGTGCATTTCATACATTTCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
*
43575287 ATCATGTGCATATCATATCA-ATCATGT
1 ATCATGTGCATTTCATA-CATATCATGT
43575314 ATATCATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 60 0.97
41 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (40 bp):
ATCATGTGCATTTCATACATATCATGTGCATTTTATACAT
Found at i:43577003 original size:93 final size:93
Alignment explanation
Indices: 43576842--43577012 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
43576832 GGATGGTTGA
* * * * * *
43576842 GCATCTGAGCTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCAAACTCGTTGAGT
43576907 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** * *
43576935 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGTGAACGCCCGAGA-TCGTTGAT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCC-AAACTCGTTGAG
43576999 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
43577013 ACTTATGCGG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 64 0.97
94 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43579628 original size:15 final size:15
Alignment explanation
Indices: 43579608--43579675 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
43579598 GTATCTTGGG
43579608 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
43579623 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
*
43579638 TTTCTTTATTCTGG-
1 TTTCTTTATCCTGGA
* *
43579652 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
43579667 TTTCTTTAT
1 TTTCTTTAT
43579676 TCGTTTTCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 11 0.24
15 34 0.76
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:43579671 original size:29 final size:30
Alignment explanation
Indices: 43579599--43579677 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
43579589 CATAGTATCG
* * *
43579599 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
*
43579629 TAT-TCTGGATTTCTTTATTCTGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
43579658 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
43579678 GTTTTCTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 23 0.53
30 20 0.47
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:43582095 original size:46 final size:46
Alignment explanation
Indices: 43582045--43582212 Score: 209
Period size: 46 Copynumber: 3.6 Consensus size: 46
43582035 TGGTTGGGCA
43582045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43582091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43582136 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43582184 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
43582213 TTATGGGCGG
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43582200 original size:93 final size:93
Alignment explanation
Indices: 43582041--43582212 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43582031 AGGATGGTTG
* *
43582041 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43582106 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43582134 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43582199 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43582213 TTATGGGCGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43584169 original size:29 final size:28
Alignment explanation
Indices: 43584092--43584198 Score: 89
Period size: 27 Copynumber: 3.9 Consensus size: 28
43584082 GTAAATCTAC
*
43584092 AAATCAAGGGTATTTCAGTAA-TTTTGT
1 AAATCAAGGGTATTTCTGTAATTTTTGT
* ** * *
43584119 AAACCAATAGTATTTTTATAATTTTTAG-
1 AAATCAAGGGTATTTCTGTAATTTTT-GT
43584147 AAAGTCAAGGGTATTTCTGTAA-TTTTGT
1 AAA-TCAAGGGTATTTCTGTAATTTTTGT
*
43584175 AAAT-TAGGGTATTT-TGGTAATTTT
1 AAATCAAGGGTATTTCT-GTAATTTT
43584199 ACAAATTGAG
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
25 1 0.02
26 13 0.21
27 20 0.32
28 14 0.23
29 14 0.23
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (28 bp):
AAATCAAGGGTATTTCTGTAATTTTTGT
Found at i:43584194 original size:26 final size:26
Alignment explanation
Indices: 43584154--43584275 Score: 138
Period size: 26 Copynumber: 4.7 Consensus size: 26
43584144 TAGAAAGTCA
** *
43584154 AGGGTATTTCT-GTAATTTTGTAAATT
1 AGGGTATTT-TGGTAATTTTACAAACT
*
43584180 AGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
* * * *
43584206 GAGGGTATTTCGATAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACT
*
43584233 AGTGTATTTTGGTAATTTTACAAACT
1 AGGGTATTTTGGTAATTTTACAAACT
43584259 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
43584276 CTATCCTATA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.01
26 59 0.73
27 21 0.26
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:43584223 original size:53 final size:52
Alignment explanation
Indices: 43584154--43584275 Score: 140
Period size: 53 Copynumber: 2.3 Consensus size: 52
43584144 TAGAAAGTCA
*** ** *
43584154 AGGGTATTTCTGTAATTTTGTAAATTAGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCTGTAATTTCACAAACCAGGGTATTTTGGTAATTTTACAAACT
*
43584206 GAGGGTATTTC-GATAATTTCACAAACCAGTGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCTG-TAATTTCACAAACCAGGGTATTTTGGTAATTTTACAAACT
43584259 AGGGTATTT-TGGTAATT
1 AGGGTATTTCT-GTAATT
43584276 CTATCCTATA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
52 15 0.25
53 44 0.75
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (52 bp):
AGGGTATTTCTGTAATTTCACAAACCAGGGTATTTTGGTAATTTTACAAACT
Found at i:43584287 original size:26 final size:27
Alignment explanation
Indices: 43584181--43584302 Score: 92
Period size: 26 Copynumber: 4.6 Consensus size: 27
43584171 TTGTAAATTA
* *
43584181 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTCTACAAACTAG
* * *
43584207 AGGGTATTTCGATAATT-TCACAAACCA-
1 -GGGTATTTTGGTAATTCT-ACAAACTAG
* *
43584234 GTGTATTTTGGTAATTTTACAAACTA-
1 GGGTATTTTGGTAATTCTACAAACTAG
**
43584260 GGGTATTTTGGTAATTCTATCCTA-TAG
1 GGGTATTTTGGTAATTCTA-CAAACTAG
*
43584287 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
43584303 TCACAATCGA
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
26 40 0.52
27 37 0.48
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTACAAACTAG
Found at i:43584291 original size:79 final size:79
Alignment explanation
Indices: 43584157--43584308 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
43584147 AAAGTCAAGG
** * * *
43584157 GTATTTCTGTAATTTTGTAAATTAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGA-TA
1 GTATTTCTGTAATTTTACAAACTAGGGTATTTTGGTAATTCTACAAATAGAGGGTATTT-GAGTA
43584221 ATTTCACAAACCAGT
65 ATTTCACAAACCAGT
** *
43584236 GTATTT-TGGTAATTTTACAAACTAGGGTATTTTGGTAATTCTATCCTATAG-GGGTATTTTAGT
1 GTATTTCT-GTAATTTTACAAACTAGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTGAGT
43584299 AATTTCACAA
64 AATTTCACAA
43584309 TCGAGGGTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 56 0.90
80 4 0.06
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (79 bp):
GTATTTCTGTAATTTTACAAACTAGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTGAGTAA
TTTCACAAACCAGT
Found at i:43584327 original size:26 final size:25
Alignment explanation
Indices: 43584298--43584373 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 25
43584288 GGTATTTTAG
43584298 TAATTTCACAATCGAGGGTAAAACGA
1 TAATTTCA-AATCGAGGGTAAAACGA
* * *
43584324 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAA-TTT-CAAATCGAGGGTAAAACGA
43584351 TAA-TTCTATAATCGAGGGTAAAA
1 TAATTTC-A-AATCGAGGGTAAAA
43584374 TGGTATTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.40
27 21 0.50
28 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (25 bp):
TAATTTCAAATCGAGGGTAAAACGA
Found at i:43584374 original size:26 final size:27
Alignment explanation
Indices: 43584307--43584393 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
43584297 GTAATTTCAC
* * * *
43584307 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
43584334 AATCGAGGGTAAAATGGTAATTCTAT-
1 AATCGAGGGTAAAATGGTAATTCTATA
*
43584360 AATCGAGGGTAAAATGGT-ATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
43584386 AAT-GAGGG
1 AATCGAGGG
43584394 CATTTCAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 11 0.20
26 21 0.39
27 22 0.41
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:43584392 original size:25 final size:26
Alignment explanation
Indices: 43584307--43584393 Score: 97
Period size: 26 Copynumber: 3.3 Consensus size: 26
43584297 GTAATTTCAC
* * * *
43584307 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCT-AA
*
43584334 AATCGAGGGTAAAATGGTAATTCTAT
1 AATCGAGGGTAAAATGGTAATTCTAA
43584360 AATCGAGGGTAAAATGGT-ATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTA-A
43584386 AAT-GAGGG
1 AATCGAGGG
43584394 CATTTCAGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.21
26 21 0.40
27 21 0.40
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (26 bp):
AATCGAGGGTAAAATGGTAATTCTAA
Found at i:43590323 original size:41 final size:41
Alignment explanation
Indices: 43590278--43590395 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
43590268 TGAAAGATAA
43590278 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
43590319 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43590349 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
43590390 ATGTAG
1 ATGTAG
43590396 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:43590334 original size:71 final size:71
Alignment explanation
Indices: 43590246--43590409 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
43590236 GAGATGTATC
43590246 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43590311 AGGACA
66 AGGACA
43590317 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
43590382 AGGACA
66 AGGACA
43590388 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
43590410 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:43593845 original size:40 final size:40
Alignment explanation
Indices: 43593800--43593967 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43593790 CGGAATATAA
43593800 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43593840 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43593880 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
43593920 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43593960 CCGGATAT
1 CCGGATAT
43593968 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43601837 original size:40 final size:40
Alignment explanation
Indices: 43601792--43601958 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43601782 CGGAATATAA
43601792 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
43601832 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43601872 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43601912 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43601951 CCGGATAT
1 CCGGATAT
43601959 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43609826 original size:40 final size:40
Alignment explanation
Indices: 43609752--43609897 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
43609742 CCGCACCAAG
* * * * * *
43609752 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
43609792 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
43609832 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
43609872 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
43609898 TTTCAGCATA
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:43615548 original size:68 final size:68
Alignment explanation
Indices: 43615453--43615610 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
43615443 TTCACTTGGA
* * *
43615453 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTATATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
43615518 CGT
66 CGT
43615521 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
43615586 CGT
66 CGT
43615589 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
43615611 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:43615643 original size:68 final size:67
Alignment explanation
Indices: 43615453--43615636 Score: 246
Period size: 68 Copynumber: 2.7 Consensus size: 67
43615443 TTCACTTGGA
* * * * *
43615453 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTATATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
43615518 CGT
65 CGT
* *
43615521 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATATATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
43615586 CGT
65 CGT
43615589 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATATA-TATCTACGTAGCTC-TCTTGT
43615637 ACACATGATG
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 1 0.01
68 99 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATATATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:43625202 original size:27 final size:26
Alignment explanation
Indices: 43625146--43625202 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
43625136 CAACCTTAAC
* *
43625146 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
43625172 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
43625199 CCTA
1 CCTA
43625203 TAAAGGTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:43639547 original size:40 final size:40
Alignment explanation
Indices: 43639422--43639573 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
43639412 TCGAATGATG
* *
43639422 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
** * *
43639462 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
43639502 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
43639543 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
43639574 TCGCTATATC
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:43641829 original size:40 final size:38
Alignment explanation
Indices: 43641785--43641927 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 38
43641775 CTGAAAATTT
* *
43641785 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAG-TA
*
43641825 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAG-TA
* * * *
43641865 AATCCGGGCTAAGACCCGAAGGCGTTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGT-A
* * *
43641905 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
43641928 CTTGGTGCGG
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 4 0.05
40 82 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (38 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGTA
Found at i:43645785 original size:19 final size:19
Alignment explanation
Indices: 43645749--43645787 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43645739 TCCATTCATC
*
43645749 TTAGAAAAACTCCTTTGTT
1 TTAGAAAAACTACTTTGTT
43645768 TTAGCAAAAACTAC-TTGTT
1 TTAG-AAAAACTACTTTGTT
43645787 T
1 T
43645788 GTTGAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
TTAGAAAAACTACTTTGTT
Found at i:43658428 original size:13 final size:13
Alignment explanation
Indices: 43658410--43658436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
43658400 ATTTGGTAAG
43658410 TTAGTTATGAAAA
1 TTAGTTATGAAAA
43658423 TTAGTTATGAAAA
1 TTAGTTATGAAAA
43658436 T
1 T
43658437 GGTATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAGTTATGAAAA
Found at i:43669245 original size:28 final size:28
Alignment explanation
Indices: 43669199--43669294 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
43669189 ACCTATATAT
* * *
43669199 ATATGACCCACTAGACCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCTCTTTC
* *
43669227 ATATGGCCCATTAGGCCCATTCACATTT-
1 ATATGGCCCATTAGGCCCAATCTC-TTTC
* *
43669255 ATGTGGCCCATTAGGCCCAAATCAT-ATTC
1 ATATGGCCCATTAGGCCC-AATC-TCTTTC
43669284 ATATGGCCCAT
1 ATATGGCCCAT
43669295 ATCACCTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
28 38 0.70
29 16 0.30
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCTCTTTC
Found at i:43669545 original size:16 final size:16
Alignment explanation
Indices: 43669524--43669563 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
43669514 CAAACTTTTG
*
43669524 GCTTTTCGGTATTTCA
1 GCTTTTCGGCATTTCA
* *
43669540 GCTTTTTGGCATTTCG
1 GCTTTTCGGCATTTCA
43669556 GCTTTTCG
1 GCTTTTCG
43669564 ACTTTTGCCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.07, C:0.20, G:0.23, T:0.50
Consensus pattern (16 bp):
GCTTTTCGGCATTTCA
Found at i:43672551 original size:31 final size:31
Alignment explanation
Indices: 43672516--43672577 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43672506 CTTCATCAAA
43672516 CAACTGATAATTACGCAAATAGCATTTTTTT
1 CAACTGATAATTACGCAAATAGCATTTTTTT
43672547 CAACTGATAATTACGCAAATAGCATTTTTTT
1 CAACTGATAATTACGCAAATAGCATTTTTTT
43672578 TTCTTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (31 bp):
CAACTGATAATTACGCAAATAGCATTTTTTT
Found at i:43674691 original size:36 final size:37
Alignment explanation
Indices: 43674634--43674708 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
43674624 TATACAATTG
43674634 TACTAGTAAGGGGGTGGAGATCGTAAGCCTCAAAAAT
1 TACTAGTAAGGGGGTGGAGATCGTAAGCCTCAAAAAT
43674671 TACTAGTAA-GGGGTGGAGATCGTAAGCCTCAAAAAT
1 TACTAGTAAGGGGGTGGAGATCGTAAGCCTCAAAAAT
43674707 TA
1 TA
43674709 ACTTTCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 29 0.76
37 9 0.24
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (37 bp):
TACTAGTAAGGGGGTGGAGATCGTAAGCCTCAAAAAT
Found at i:43677725 original size:30 final size:30
Alignment explanation
Indices: 43677689--43677748 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
43677679 TAATTTTTAG
43677689 CATATGCATTCATTACCTAATTTCCATACT
1 CATATGCATTCATTACCTAATTTCCATACT
43677719 CATATGCATTCATTACCTAATTTCCATACT
1 CATATGCATTCATTACCTAATTTCCATACT
43677749 TTGACAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (30 bp):
CATATGCATTCATTACCTAATTTCCATACT
Found at i:43681035 original size:3 final size:3
Alignment explanation
Indices: 43681027--43681090 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
43681017 CTCTGTAGGA
43681027 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
43681075 TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT T
43681091 TGAGATCCTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:43690321 original size:27 final size:28
Alignment explanation
Indices: 43690286--43690340 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
43690276 TAAAAATATT
*
43690286 AAAATTTAA-TATGTTAATAATTTAAGTG
1 AAAATTTAATTAT-TTAATAATTAAAGTG
*
43690314 AAAA-TTAATTATTTTATAATTAAAGTG
1 AAAATTTAATTATTTAATAATTAAAGTG
43690341 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (28 bp):
AAAATTTAATTATTTAATAATTAAAGTG
Found at i:43690665 original size:31 final size:31
Alignment explanation
Indices: 43690627--43690689 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
43690617 GTAATGATTG
43690627 TTTTGATTGGGTATTGTATTCGGTAGTGCTA
1 TTTTGATTGGGTATTGTATTCGGTAGTGCTA
43690658 TTTTGATTGGGTATTGTATTCGGTAGTGCTA
1 TTTTGATTGGGTATTGTATTCGGTAGTGCTA
43690689 T
1 T
43690690 CTGAGTTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.06, G:0.29, T:0.49
Consensus pattern (31 bp):
TTTTGATTGGGTATTGTATTCGGTAGTGCTA
Found at i:43691180 original size:15 final size:14
Alignment explanation
Indices: 43691160--43691199 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
43691150 AAGGTAAATA
43691160 AAATAAAAATAATGT
1 AAATAAAAATAAT-T
43691175 AAATAAAAAT-ATT
1 AAATAAAAATAATT
*
43691188 AAACAAAAATAA
1 AAATAAAAATAA
43691200 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:43691389 original size:28 final size:28
Alignment explanation
Indices: 43691349--43691407 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
43691339 ATCGAGAATG
* *
43691349 TAAAAATTTCAAATAATATATATATAAT
1 TAAAAATTACAAATAAAATATATATAAT
*
43691377 TAAATATTACAAATAAAATATATATAAT
1 TAAAAATTACAAATAAAATATATATAAT
43691405 TAA
1 TAA
43691408 GTGTGGTATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAAAATTACAAATAAAATATATATAAT
Found at i:43692446 original size:25 final size:25
Alignment explanation
Indices: 43692412--43692468 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
43692402 TAGAAGATAG
43692412 CCCACCAGATGTTGTTGTGTGTCTT
1 CCCACCAGATGTTGTTGTGTGTCTT
*
43692437 CCCACTAGATGTTGTTGTGTGTCTT
1 CCCACCAGATGTTGTTGTGTGTCTT
*
43692462 TCCACCA
1 CCCACCA
43692469 AACTTTGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (25 bp):
CCCACCAGATGTTGTTGTGTGTCTT
Found at i:43695167 original size:96 final size:96
Alignment explanation
Indices: 43695034--43695421 Score: 390
Period size: 96 Copynumber: 4.2 Consensus size: 96
43695024 ATGCCAACAG
* * *** * *
43695034 CCCAGCTATGGTCTTACAC-GAAGTCTCATAACAATGCCGATGCCATGTCCCAGACATGGTCTTA
1 CCCAGATATGGTCTTACACGGGA-TCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTA
* * *
43695098 TACGGGACCTCATATCGATGCCAATGCCATAT
65 CACGGGATCTCATATCGATGCCGATGCCATAT
* * **
43695130 CCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATGCCATATCCTGGATATGGTCTT--
1 CCCAGATATGGTCTTACACGGGATCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTAC
* *
43695193 AC---A---C---TCGATGTCGATGCTATAT
66 ACGGGATCTCATATCGATGCCGATGCCATAT
* * *
43695215 CCCAGATATGGTCTTATACGGGATCTCATGTTGATGCCGATGTCATATCCCAGATATGGTCTTAC
1 CCCAGATATGGTCTTACACGGGATCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTAC
*
43695280 ATGGGATCTCATA-CTGATGCCGATGCCATAT
66 ACGGGATCTCATATC-GATGCCGATGCCATAT
* * * * * * *
43695311 CCCGGATATTGTCTTACACGAGATCTCATCTCGATGCCGATGCTATATCCTAGATATGGTCTTAC
1 CCCAGATATGGTCTTACACGGGATCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTAC
* *
43695376 ACTGGATCTCAT-TCCGATGCCGATGTCATAT
66 ACGGGATCTCATAT-CGATGCCGATGCCATAT
43695407 CCCAGATATGGTCTT
1 CCCAGATATGGTCTT
43695422 TTATGGGATC
Statistics
Matches: 239, Mismatches: 38, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
85 71 0.30
87 1 0.00
88 1 0.00
90 1 0.00
91 1 0.00
93 1 0.00
94 2 0.01
95 1 0.00
96 157 0.66
97 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (96 bp):
CCCAGATATGGTCTTACACGGGATCTCATATTGATGCCGATGCCATATCCCAGATATGGTCTTAC
ACGGGATCTCATATCGATGCCGATGCCATAT
Found at i:43695221 original size:85 final size:85
Alignment explanation
Indices: 43695112--43695378 Score: 264
Period size: 85 Copynumber: 3.0 Consensus size: 85
43695102 GGACCTCATA
*
43695112 TCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATGCCATA
1 TCGATGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATTGATGCCAATGCCATA
**
43695177 TCCTGGATATGGTCTTACAC
66 TCCCAGATATGGTCTTACAC
* * * * * * *
43695197 TCGATGTCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCATGTTGATGCCGATGTCATA
1 TCGATGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATTGATGCCAATGCCATA
43695262 TCCCAGATATGGTCTTACATGGGATCTC
66 TCCCAGATATGGTCTTAC-----A---C
* * * * * * * *
43695290 ATACTGATGCCGATGCCATATCCCGGATATTGTCTTACACGAGATCTCATCTCGATGCCGATGCT
1 -T-C-GATGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATTGATGCCAATGCC
*
43695355 ATATCCTAGATATGGTCTTACAC
63 ATATCCCAGATATGGTCTTACAC
43695378 T
1 T
43695379 GGATCTCATT
Statistics
Matches: 150, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
85 73 0.49
87 1 0.01
88 1 0.01
90 1 0.01
91 1 0.01
93 1 0.01
94 1 0.01
95 1 0.01
96 70 0.47
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (85 bp):
TCGATGCCAATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATTGATGCCAATGCCATA
TCCCAGATATGGTCTTACAC
Found at i:43695243 original size:133 final size:135
Alignment explanation
Indices: 43695067--43695439 Score: 464
Period size: 133 Copynumber: 2.7 Consensus size: 135
43695057 TCTCATAACA
* * * * * *
43695067 ATGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATATCC
1 ATGCCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCAT-TCGATGCCGATGTCATATCC
* *
43695132 CAGATATGGTCTTACATGGGATCTCATATTGATGCCAATGCCATATCCTGGATATGGTCTT-A-C
65 CAGATATGGTCTTACATGGGATCTCATACTGATGCCAATGCCATATCCCGGATATGGTCTTAATC
43695195 A-CTCG
130 ATCTCG
* *
43695200 ATGTCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCATGTTGATGCCGATGTCATATCC
1 ATGCCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCAT-TCGATGCCGATGTCATATCC
* *
43695265 CAGATATGGTCTTACATGGGATCTCATACTGATGCCGATGCCATATCCCGGATATTGTCTTACAC
65 CAGATATGGTCTTACATGGGATCTCATACTGATGCCAATGCCATATCCCGGATATGGTCTT----
43695330 GAGATCTCATCTCG
126 -A-A--TCATCTCG
* * *
43695344 ATGCCGATGCTATATCCTAGATATGGTCTTACACTGGATCTCATTCCGATGCCGATGTCATATCC
1 ATGCCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCATT-CGATGCCGATGTCATATCC
**
43695409 CAGATATGGTCTTTTATGGGATCTCAATACT
65 CAGATATGGTCTTACATGGGATCTC-ATACT
43695440 CACATGTCAT
Statistics
Matches: 207, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
133 113 0.55
140 1 0.00
143 3 0.01
144 85 0.41
145 5 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (135 bp):
ATGCCGATGCTATATCCCAGATATGGTCTTATACGGGATCTCATTCGATGCCGATGTCATATCCC
AGATATGGTCTTACATGGGATCTCATACTGATGCCAATGCCATATCCCGGATATGGTCTTAATCA
TCTCG
Found at i:43695275 original size:48 final size:47
Alignment explanation
Indices: 43695034--43695421 Score: 343
Period size: 48 Copynumber: 8.3 Consensus size: 47
43695024 ATGCCAACAG
* * * * * *
43695034 CCCAGCTATGGTCTTACAC-GAAGTCTCATAACAATGCCGATGCCATGT
1 CCCAGATATGGTCTTACACGGGA-TCTCAT-TCGATGCCGATGTCATAT
* * * * *
43695082 CCCAGACATGGTCTTATACGGGACCTCATATCGATGCCAATGCCATAT
1 CCCAGATATGGTCTTACACGGGATCTCAT-TCGATGCCGATGTCATAT
* * * *
43695130 CCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAATGCCATAT
1 CCCAGATATGGTCTTACACGGGATCTCAT-TCGATGCCGATGTCATAT
** *
43695178 CCTGGATATGGTCTT--AC---A---C--TCGATGTCGATG-CTATAT
1 CCCAGATATGGTCTTACACGGGATCTCATTCGATGCCGATGTC-ATAT
* *
43695215 CCCAGATATGGTCTTATACGGGATCTCATGTTGATGCCGATGTCATAT
1 CCCAGATATGGTCTTACACGGGATCTCAT-TCGATGCCGATGTCATAT
* * *
43695263 CCCAGATATGGTCTTACATGGGATCTCATACTGATGCCGATGCCATAT
1 CCCAGATATGGTCTTACACGGGATCTCATTC-GATGCCGATGTCATAT
* * *
43695311 CCCGGATATTGTCTTACACGAGATCTCATCTCGATGCCGATG-CTATAT
1 CCCAGATATGGTCTTACACGGGATCTCAT-TCGATGCCGATGTC-ATAT
* *
43695359 CCTAGATATGGTCTTACACTGGATCTCATTCCGATGCCGATGTCATAT
1 CCCAGATATGGTCTTACACGGGATCTCATT-CGATGCCGATGTCATAT
43695407 CCCAGATATGGTCTT
1 CCCAGATATGGTCTT
43695422 TTATGGGATC
Statistics
Matches: 281, Mismatches: 40, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
36 1 0.00
37 26 0.09
39 2 0.01
40 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 1 0.00
47 2 0.01
48 240 0.85
49 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (47 bp):
CCCAGATATGGTCTTACACGGGATCTCATTCGATGCCGATGTCATAT
Found at i:43704529 original size:37 final size:37
Alignment explanation
Indices: 43704476--43704566 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
43704466 TATAAAAGAA
43704476 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43704513 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
43704550 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
43704567 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:43704717 original size:49 final size:49
Alignment explanation
Indices: 43704662--43705014 Score: 571
Period size: 49 Copynumber: 7.4 Consensus size: 49
43704652 TTTTACATTA
43704662 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43704711 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43704760 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43704800 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
43704849 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43704898 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
43704947 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
43704996 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
43705015 CACATATGTA
Statistics
Matches: 285, Mismatches: 10, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
40 36 0.13
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 243 0.85
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:43704776 original size:89 final size:89
Alignment explanation
Indices: 43704683--43704960 Score: 439
Period size: 89 Copynumber: 3.0 Consensus size: 89
43704673 TTATCACATA
*
43704683 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43704748 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
43704772 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
43704837 TTCACCACATCGGCCATTAGGCCTTATCACAT
66 TTCACCACATCGGCCATTAGG------C-C-T
* *
43704869 ATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCAC
1 -TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCAC
*
43704934 ATTCATCACATCGGCCATTAGGCCT
65 ATTCACCACATCGGCCATTAGGCCT
43704959 TA
1 TA
43704961 TCACATATAC
Statistics
Matches: 176, Mismatches: 4, Indels: 18
0.89 0.02 0.09
Matches are distributed among these distances:
89 87 0.49
90 1 0.01
91 1 0.01
92 1 0.01
95 1 0.01
96 1 0.01
97 1 0.01
98 83 0.47
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:43704935 original size:138 final size:142
Alignment explanation
Indices: 43704662--43705014 Score: 518
Period size: 138 Copynumber: 2.5 Consensus size: 142
43704652 TTTTACATTA
43704662 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
43704727 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACAT--T
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTATCACATCCT
43704790 CAC--CACATCG
131 CACAACACATCG
43704800 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
43704865 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATAC-ATCCACT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT--T-ACATACACTAT-CACA
* * *
43704929 TTCACATTCATCACATCG
127 TCCTCA--CAACACATCG
* * * *
43704947 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
43705012 ACA
66 ACA
43705015 CACATATGTA
Statistics
Matches: 196, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
138 109 0.56
140 2 0.01
141 11 0.06
143 2 0.01
145 1 0.01
147 71 0.36
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (142 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTATCACATCCT
CACAACACATCG
Found at i:43709797 original size:29 final size:29
Alignment explanation
Indices: 43709764--43709837 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
43709754 GTGACGAGAT
43709764 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
43709793 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43709822 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43709838 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43709853 original size:29 final size:28
Alignment explanation
Indices: 43709821--43709895 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
43709811 CTGGAAATAT
* *
43709821 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
43709850 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
43709878 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
43709896 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:43709864 original size:58 final size:57
Alignment explanation
Indices: 43709764--43709895 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
43709754 GTGACGAGAT
* * * * * *
43709764 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
43709822 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
43709879 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
43709896 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:43717670 original size:29 final size:29
Alignment explanation
Indices: 43717637--43717710 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
43717627 GTGACGAGAT
43717637 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
43717666 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43717695 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43717711 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43717726 original size:29 final size:28
Alignment explanation
Indices: 43717694--43717768 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
43717684 CTGGAAATAT
* *
43717694 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
43717723 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
43717751 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
43717769 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:43717737 original size:58 final size:57
Alignment explanation
Indices: 43717637--43717768 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
43717627 GTGACGAGAT
* * * * * *
43717637 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
43717695 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
43717752 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
43717769 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:43719372 original size:29 final size:29
Alignment explanation
Indices: 43719336--43719528 Score: 332
Period size: 29 Copynumber: 6.7 Consensus size: 29
43719326 TGTTGAAAAA
**
43719336 CTCGCACACGCAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43719365 CTCGCACACGTAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43719394 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43719423 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
43719452 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
*
43719481 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCAATTACTGAT
43719510 CTCGCACACATAGTGCCTC
1 CTCGCACACATAGTGCCTC
43719529 TATTCATTCG
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 159 1.00
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACTGAT
Found at i:43719759 original size:40 final size:40
Alignment explanation
Indices: 43719702--43719946 Score: 346
Period size: 40 Copynumber: 6.1 Consensus size: 40
43719692 CGAATACACG
* *
43719702 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
43719742 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
43719782 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
43719822 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
43719862 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * *
43719902 TCACTAGCATGAATGCTCTTCGGAACTTAGTCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
43719942 TCACT
1 TCACT
43719947 CTCAATTCTC
Statistics
Matches: 195, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 195 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:43723199 original size:40 final size:40
Alignment explanation
Indices: 43723144--43723313 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
43723134 AACATTGGAA
43723144 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43723184 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
43723224 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
43723263 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
43723304 CTATATCCGG
1 ATATATCCGG
43723314 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:43727320 original size:40 final size:40
Alignment explanation
Indices: 43727265--43727434 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
43727255 AACATTGGAA
43727265 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43727305 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
43727345 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
43727384 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
43727425 CTATATCCGG
1 ATATATCCGG
43727435 TTAAATCCCG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.98
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:43735416 original size:40 final size:40
Alignment explanation
Indices: 43735361--43735570 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
43735351 AACATTGGAA
43735361 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43735401 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
43735441 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
43735481 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
43735520 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
43735561 CTATATCCGG
1 ATATATCCGG
43735571 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Done.