Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 158 of 444
Found at i:43249511 original size:26 final size:27
Alignment explanation
Indices: 43249482--43249539 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
43249472 ACATATTTTT
*
43249482 TCAAAAATT-TA-CTAGGAGTAAAATCA
1 TCAAAAATTCTATCT-GGAATAAAATCA
43249508 TCAAAAATTCTATCTGGAATAAAATCA
1 TCAAAAATTCTATCTGGAATAAAATCA
43249535 TCAAA
1 TCAAA
43249540 TTTTATTGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.31
27 18 0.62
28 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.28
Consensus pattern (27 bp):
TCAAAAATTCTATCTGGAATAAAATCA
Found at i:43252957 original size:141 final size:141
Alignment explanation
Indices: 43252703--43252985 Score: 557
Period size: 141 Copynumber: 2.0 Consensus size: 141
43252693 ATGTATACAT
43252703 AGCCTACATGGCTGATGATACCAAATCATGTAAATGTCATTATACATTCAACTATAATTCCACTC
1 AGCCTACATGGCTGATGATACCAAATCATGTAAATGTCATTATACATTCAACTATAATTCCACTC
43252768 ATTTATGCAAGATCACAAGACAAGATTTAACTTCATATACAAGCATCACTTAATTGGCCAAAAAA
66 ATTTATGCAAGATCACAAGACAAGATTTAACTTCATATACAAGCATCACTTAATTGGCCAAAAAA
43252833 TACAATTGGGA
131 TACAATTGGGA
43252844 AGCCTACATGGCTGATGATACCAAATCATGTAAATGTCATTATACATTCAACTATAATTCCACTC
1 AGCCTACATGGCTGATGATACCAAATCATGTAAATGTCATTATACATTCAACTATAATTCCACTC
*
43252909 ATTTATGCAAGCTCACAAGACAAGATTTAACTTCATATACAAGCATCACTTAATTGGCCAAAAAA
66 ATTTATGCAAGATCACAAGACAAGATTTAACTTCATATACAAGCATCACTTAATTGGCCAAAAAA
43252974 TACAATTGGGA
131 TACAATTGGGA
43252985 A
1 A
43252986 CATACTTTAT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (141 bp):
AGCCTACATGGCTGATGATACCAAATCATGTAAATGTCATTATACATTCAACTATAATTCCACTC
ATTTATGCAAGATCACAAGACAAGATTTAACTTCATATACAAGCATCACTTAATTGGCCAAAAAA
TACAATTGGGA
Found at i:43254311 original size:26 final size:26
Alignment explanation
Indices: 43254243--43254443 Score: 172
Period size: 27 Copynumber: 7.6 Consensus size: 26
43254233 ATAACTGATT
* *
43254243 TCGCACACTTAGTGCTCAGAAAT-TAAT
1 TCGCACACTTAGTGCTC--AAATCCAAC
* * * *
43254270 TCACATACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAAATCCAAC
* * *
43254296 TCGCACACTTAGTGCTCAGTATCAAAT
1 TCGCACACTTAGTGCTCA-AATCCAAC
* *
43254323 TCGCACACTTAGTGCTCAGAAAT-TAAT
1 TCGCACACTTAGTGCTC--AAATCCAAC
* * *
43254350 TCACACACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAAATCCAAC
43254376 TCGCACACTTAGTGCTCAAATCCAAC
1 TCGCACACTTAGTGCTCAAATCCAAC
* * * *
43254402 TCTCACACTTAGTGCTCAGTATCAAAT
1 TCGCACACTTAGTGCTCA-AATCCAAC
43254429 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
43254444 ATTCCTCAAA
Statistics
Matches: 140, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
25 8 0.06
26 58 0.41
27 71 0.51
28 2 0.01
29 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (26 bp):
TCGCACACTTAGTGCTCAAATCCAAC
Found at i:43254324 original size:53 final size:53
Alignment explanation
Indices: 43254243--43254443 Score: 219
Period size: 53 Copynumber: 3.8 Consensus size: 53
43254233 ATAACTGATT
* * * * *
43254243 TCGCACACTTAGTGCTCAGAAAT-TAATTCACATACATAGTGCTTAAATCCAAC
1 TCGCACACTTAGTGCTCAG-AATCAAATTCGCACACTTAGTGCTCAAATCCAAC
* * *
43254296 TCGCACACTTAGTGCTCAGTATCAAATTCGCACACTTAGTGCTCAGAAAT-TAAT
1 TCGCACACTTAGTGCTCAGAATCAAATTCGCACACTTAGTGCTC--AAATCCAAC
* * * * *
43254350 TCACACACATAGTGCTTA-AATCCAACTCGCACACTTAGTGCTCAAATCCAAC
1 TCGCACACTTAGTGCTCAGAATCAAATTCGCACACTTAGTGCTCAAATCCAAC
* *
43254402 TCTCACACTTAGTGCTCAGTATCAAATTCGCACACTTAGTGC
1 TCGCACACTTAGTGCTCAGAATCAAATTCGCACACTTAGTGC
43254444 ATTCCTCAAA
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
51 4 0.03
52 19 0.16
53 77 0.64
54 17 0.14
55 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (53 bp):
TCGCACACTTAGTGCTCAGAATCAAATTCGCACACTTAGTGCTCAAATCCAAC
Found at i:43254375 original size:80 final size:79
Alignment explanation
Indices: 43254242--43254420 Score: 304
Period size: 80 Copynumber: 2.3 Consensus size: 79
43254232 AATAACTGAT
*
43254242 TTCGCACACTTAGTGCTCAGAAATTAATTCACATACATAGTGCTTAAATCCAACTCGCACACTTA
1 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGCACACTTA
*
43254307 GTGCTCAGTATCAAA
66 GTGCTCA-AATCAAA
43254322 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGCACACTTA
1 TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGCACACTTA
*
43254387 GTGCTCAAATCCAA
66 GTGCTCAAATCAAA
* *
43254401 CTCTCACACTTAGTGCTCAG
1 TTCGCACACTTAGTGCTCAG
43254421 TATCAAATTC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 23 0.24
80 71 0.76
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (79 bp):
TTCGCACACTTAGTGCTCAGAAATTAATTCACACACATAGTGCTTAAATCCAACTCGCACACTTA
GTGCTCAAATCAAA
Found at i:43254617 original size:32 final size:33
Alignment explanation
Indices: 43254581--43254670 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 33
43254571 CTCAATCGGC
* * *
43254581 TATATCAAACTACACCTAGATACACATTCAA-T
1 TATATCCAACTACACATATATACACATTCAACT
43254613 TATATCCAA-TCACACATATATACACATTCAACT
1 TATATCCAACT-ACACATATATACACATTCAACT
*
43254646 T-TGTCCAACTACACATATATACACA
1 TATATCCAACTACACATATATACACA
43254671 CTTAGTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
31 1 0.02
32 47 0.92
33 3 0.06
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (33 bp):
TATATCCAACTACACATATATACACATTCAACT
Found at i:43254796 original size:2 final size:2
Alignment explanation
Indices: 43254789--43254836 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
43254779 TAATAGCCTT
43254789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43254831 TA TA TA
1 TA TA TA
43254837 CTTTCAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43260510 original size:20 final size:20
Alignment explanation
Indices: 43260485--43260529 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
43260475 AGGGAATAAA
* *
43260485 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
43260505 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
43260525 ATGAA
1 ATGAA
43260530 TATATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:43261863 original size:18 final size:18
Alignment explanation
Indices: 43261840--43261881 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
43261830 TTAAGTGGGT
43261840 TGTGATAATATAT-TCATA
1 TGTGATAATATATGT-ATA
*
43261858 TGTGATAATTTATGTATA
1 TGTGATAATATATGTATA
43261876 TGTGAT
1 TGTGAT
43261882 TAAATGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (18 bp):
TGTGATAATATATGTATA
Found at i:43266084 original size:59 final size:59
Alignment explanation
Indices: 43266017--43266136 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
43266007 AATCGGTTTG
43266017 GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
1 GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
43266076 GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
1 GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
43266135 GT
1 GT
43266137 TCTTTGTCTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (59 bp):
GTGGTGATAAAAATTACAAGGTGTAGTAGGTTTTGAAATGAGCACTACTTGGAGATCAT
Found at i:43268997 original size:24 final size:26
Alignment explanation
Indices: 43268953--43269001 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
43268943 TGAGGTATGT
43268953 TTGTATGTTAAATAAGCTTTAATATAA
1 TTGTATGTTAAAT-AGCTTTAATATAA
43268980 TTGTAT-TTAAAT-GCTTTAATAT
1 TTGTATGTTAAATAGCTTTAATAT
43269002 TGCATGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (26 bp):
TTGTATGTTAAATAGCTTTAATATAA
Found at i:43273073 original size:28 final size:28
Alignment explanation
Indices: 43273027--43273095 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
43273017 TTTAAAACCC
*
43273027 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
43273054 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
43273082 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
43273096 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:43274747 original size:20 final size:20
Alignment explanation
Indices: 43274724--43274761 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43274714 CACATCCAAA
*
43274724 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
43274744 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
43274762 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:43281066 original size:28 final size:28
Alignment explanation
Indices: 43281020--43281088 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
43281010 TTTAAAACCC
*
43281020 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
43281047 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
43281075 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
43281089 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:43285237 original size:40 final size:40
Alignment explanation
Indices: 43285007--43285230 Score: 269
Period size: 40 Copynumber: 5.6 Consensus size: 40
43284997 CGAATGATGC
* * *
43285007 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* *
43285047 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
43285087 CTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
43285127 CCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
43285166 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
43285206 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43285231 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:43285252 original size:79 final size:79
Alignment explanation
Indices: 43285013--43285253 Score: 260
Period size: 79 Copynumber: 3.0 Consensus size: 79
43285003 ATGCCCGGGC
* * * *
43285013 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
43285076 AGTTACTAAATCTGGAC
64 AGTTACTAAATCCGG-T
* *
43285093 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCTGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
43285155 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
43285172 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
43285237 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
43285251 TAA
1 TAA
43285254 ATTTCGAAGG
Statistics
Matches: 137, Mismatches: 15, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 74 0.54
80 54 0.39
81 8 0.06
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:43286742 original size:48 final size:48
Alignment explanation
Indices: 43286621--43286743 Score: 219
Period size: 48 Copynumber: 2.6 Consensus size: 48
43286611 ATGCCATACA
* * *
43286621 CCAGATATGATCTTACATGGGATCAAATATCAATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTC
43286669 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTC
43286717 CCAGACATGGTCTTACATGGGATCACA
1 CCAGACATGGTCTTACATGGGATCACA
43286744 CATAACCCTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (48 bp):
CCAGACATGGTCTTACATGGGATCACATATCAATGCCAATGCCATGTC
Found at i:43300728 original size:27 final size:27
Alignment explanation
Indices: 43300689--43300874 Score: 228
Period size: 27 Copynumber: 6.9 Consensus size: 27
43300679 TAATTTGATG
* *
43300689 AAATGACTATTTTGCCCCTAAGTGGTA
1 AAATGACTGTTTTGCCCCTATGTGGTA
*
43300716 AAATAACTGTTTTGCCCCTATGTGGTA
1 AAATGACTGTTTTGCCCCTATGTGGTA
* *
43300743 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCCTATGTGGTA
*
43300770 AAATGACTGTTTTGCCTCTATGTGGTA
1 AAATGACTGTTTTGCCCCTATGTGGTA
* *
43300797 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTGTTTTGCCCCTATGTGGTA
*** ** **
43300824 AAATGACTGAAATGCCCCTACATGCCA
1 AAATGACTGTTTTGCCCCTATGTGGTA
*
43300851 AATTGACTGTTTTGCCCCTATGTG
1 AAATGACTGTTTTGCCCCTATGTG
43300875 AGGTATTTAT
Statistics
Matches: 132, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCCTATGTGGTA
Found at i:43303127 original size:42 final size:42
Alignment explanation
Indices: 43303077--43303188 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
43303067 AATGCCTCTT
* * *
43303077 TCCCAGACAGGGTCTTATACGAAATC-AAATACGATGCTGATG
1 TCCCAGACATGGTCTTATACGAAATCTAAAT-CGAGGCAGATG
* * * * *
43303119 TCCCAGACATAGTCTTATATGTAAATCTCAATGGAGGCAGGTG
1 TCCCAGACATGGTCTTATACG-AAATCTAAATCGAGGCAGATG
*
43303162 TCCCAGACATGGTCTTATACGATATCT
1 TCCCAGACATGGTCTTATACGAAATCT
43303189 CAGATAGTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 23 0.40
43 31 0.54
44 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTATACGAAATCTAAATCGAGGCAGATG
Found at i:43307360 original size:6 final size:6
Alignment explanation
Indices: 43307342--43307425 Score: 66
Period size: 6 Copynumber: 13.7 Consensus size: 6
43307332 AAGAAACATT
* *
43307342 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
43307391 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAAA ATCA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCA
43307426 AAATGTGAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
5 5 0.08
6 49 0.78
7 6 0.10
8 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:43307384 original size:25 final size:24
Alignment explanation
Indices: 43307354--43307425 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 24
43307344 CAGAACTAGA
43307354 ATCAGAATCAGAATCAAAATCAGGT
1 ATCAGAATCAGAATCAAAATCA-GT
*
43307379 GA-CAGAATCAGAATCAGAATCAGT
1 -ATCAGAATCAGAATCAAAATCAGT
43307403 ATCAGGTAAT-AGAATCAAAATCA
1 ATCA-G-AATCAGAATCAAAATCA
43307426 AAATGTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 32 0.78
26 4 0.10
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (24 bp):
ATCAGAATCAGAATCAAAATCAGT
Found at i:43307389 original size:31 final size:31
Alignment explanation
Indices: 43307351--43307425 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
43307341 TATCAGAACT
*
43307351 AGAATCAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
** *
43307382 AGAATCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
43307413 AGAATCAAAATCA
1 AGAATCAGAATCA
43307426 AAATGTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:43307596 original size:27 final size:26
Alignment explanation
Indices: 43307548--43307607 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
43307538 GCGAGGCTGC
*
43307548 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
43307575 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
43307601 CAGATAT
1 CAGATAT
43307608 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:43307611 original size:2 final size:2
Alignment explanation
Indices: 43307604--43307629 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43307594 ACCAGAACAG
43307604 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
43307630 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43308023 original size:81 final size:81
Alignment explanation
Indices: 43307882--43308167 Score: 419
Period size: 81 Copynumber: 3.5 Consensus size: 81
43307872 AACACCCTAT
* * * * * * *
43307882 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAATAATTCTGTAAATCGAGTGTAAAATAA
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
43307947 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * *
43307963 GTGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTCAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
43308028 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * *
43308044 GGGTAAAATAGTAATTTTGTAAATCGAAGGTAAAAAAGTAATTTTGTAAATCGATGGTAAAACAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
*
43308109 TAATTCTGTCAATCGA
66 TAATTCTGTAAATCGA
* *
43308125 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATT
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATT
43308168 CTATAAATTA
Statistics
Matches: 183, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 183 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:43308183 original size:27 final size:27
Alignment explanation
Indices: 43307882--43308167 Score: 374
Period size: 27 Copynumber: 10.6 Consensus size: 27
43307872 AACACCCTAT
** *
43307882 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
43307909 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * *
43307936 GTGTAAAATAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
43307963 GTGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
43307990 GGGTAAAACAGTAATTTTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
43308017 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
43308044 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
43308071 AGGTAAAAAAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
43308098 TGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
43308125 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
43308152 GGGTAAAATAGTAATT
1 GGGTAAAACAGTAATT
43308168 CTATAAATTA
Statistics
Matches: 230, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 230 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:43308209 original size:27 final size:26
Alignment explanation
Indices: 43308179--43308371 Score: 92
Period size: 27 Copynumber: 7.2 Consensus size: 26
43308169 TATAAATTAG
43308179 GGGTACTTTGGTAATTGTACAAGTCGA
1 GGGTA-TTTGGTAATTGTACAAGTCGA
** * *
43308206 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTT-GGTAATTGTACAAGTCGA
* * * *
43308233 AGGTATTTCTGTAATT-TCACAAATCAA
1 GGGTATTT-GGTAATTGT-ACAAGTCGA
* *
43308260 GGGTATTTTGGTAATTTTGTA-AA-CCAA
1 GGGTA-TTTGGTAA--TTGTACAAGTCGA
*
43308287 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTGGTAATTGTACAAGTCGA
* * *
43308314 TGGTATTTCAGTAATT-TCACAAATCCG-
1 GGGTATTT-GGTAATTGT-ACAAGT-CGA
*
43308341 GGATATTTTGGTAA-TGTTACAAGTCGA
1 GGGTA-TTTGGTAATTG-TACAAGTCGA
43308368 GGGT
1 GGGT
43308372 TTCAGTAATT
Statistics
Matches: 127, Mismatches: 24, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
25 4 0.03
26 13 0.10
27 95 0.75
28 11 0.09
29 3 0.02
30 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (26 bp):
GGGTATTTGGTAATTGTACAAGTCGA
Found at i:43308247 original size:81 final size:81
Alignment explanation
Indices: 43308172--43308441 Score: 248
Period size: 81 Copynumber: 3.4 Consensus size: 81
43308162 GTAATTCTAT
* * *
43308172 AAATTAGGGGTACTTTGGTAATTGTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAAGGT
1 AAATCAGGGGTATTTTGGTAATTGTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAGGT
*
43308237 ATTTCTGTAATTTCAC
66 ATTTCAGTAATTTCAC
* * * *** *
43308253 AAATCAAGGGTATTTTGGTAATTTTGTA-AA-CCAAGGGTATTTTGGTAATTTTACAAGTCGATG
1 AAATCAGGGGTATTTTGGTAA--TTGTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAG
43308316 GTATTTCAGTAATTTCAC
64 GTATTTCAGTAATTTCAC
* * * * * * *
43308334 AAATCCGGGATATTTTGGTAA-TGTTACAAGTCGAGGG--TTTCAGTAATTTCACAAAT-TAGGG
1 AAATCAGGGGTATTTTGGTAATTG-TACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGA-AG
**
43308395 GTATTTTGGTAATTTCAC
64 GTATTTCAGTAATTTCAC
* *
43308413 AAA-CTAGGGGTATATTGGTAATTTTACAA
1 AAATC-AGGGGTATTTTGGTAATTGTACAA
43308442 ACCAGGGGTA
Statistics
Matches: 153, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
78 4 0.03
79 55 0.36
80 3 0.02
81 84 0.55
82 2 0.01
83 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTGTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAAGGT
ATTTCAGTAATTTCAC
Found at i:43308400 original size:52 final size:54
Alignment explanation
Indices: 43308172--43308468 Score: 191
Period size: 54 Copynumber: 5.5 Consensus size: 54
43308162 GTAATTCTAT
* * * * *
43308172 AAATTAGGGGTACTTTGGTAAT-TGTACAAGTCGAGGGTATTTCAATAATTTTAC
1 AAATCAGGGGTATTTTGGTAATGT-TACAAGTCGATGGTATTTCAGTAATTTCAC
** * * * * ** ***
43308226 AGGTC-GAAGGTATTTCT-GTAAT-TTCACAAATCAAGGGTATTTTGGTAATTTTGT
1 AAATCAG-GGGTATTT-TGGTAATGTT-ACAAGTCGATGGTATTTCAGTAATTTCAC
* * *
43308280 AAACCAAGGGTATTTTGGTAATTTTACAAGTCGATGGTATTTCAGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATGTTACAAGTCGATGGTATTTCAGTAATTTCAC
* * *
43308334 AAATCCGGGATATTTTGGTAATGTTACAAGTCGA-GG-GTTTCAGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATGTTACAAGTCGATGGTATTTCAGTAATTTCAC
* * * * * *
43308386 AAATTAGGGGTATTTTGGTAAT-TTCACAA-ACTAGGGGTATATT-GGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATGTT-ACAAGTCGA-TGGTAT-TTCAGTAATTTCAC
*
43308440 AAACCAGGGGTATTTTGGTAACT-TTACAA
1 AAATCAGGGGTATTTTGGTAA-TGTTACAA
43308469 ACCAGGGGTC
Statistics
Matches: 190, Mismatches: 41, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
51 4 0.02
52 38 0.20
53 7 0.04
54 133 0.70
55 8 0.04
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.37
Consensus pattern (54 bp):
AAATCAGGGGTATTTTGGTAATGTTACAAGTCGATGGTATTTCAGTAATTTCAC
Found at i:43308410 original size:27 final size:27
Alignment explanation
Indices: 43308234--43308490 Score: 188
Period size: 27 Copynumber: 9.6 Consensus size: 27
43308224 ACAGGTCGAA
* *
43308234 GGTATTTCT-GTAATTTCACAAATCAAG
1 GGTATTT-TGGTAATTTCACAAACCAGG
*** *
43308261 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTCACAAACCAGG
* ** *
43308288 GGTATTTTGGTAATTTTACAAGTC-GAT
1 GGTATTTTGGTAATTTCACAAACCAG-G
**
43308315 GGTATTTCAGTAATTTCACAAATCC-GG
1 GGTATTTTGGTAATTTCACAAA-CCAGG
* **
43308342 GATATTTTGGTAATGTT-ACAAGTC-GAG
1 GGTATTTTGGTAAT-TTCACAAACCAG-G
** **
43308369 GG--TTTCAGTAATTTCACAAATTAGG
1 GGTATTTTGGTAATTTCACAAACCAGG
*
43308394 GGTATTTTGGTAATTTCACAAACTAGG
1 GGTATTTTGGTAATTTCACAAACCAGG
* *
43308421 GGTATATTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTCACAAACCAGG
43308448 GGTATTTTGGTAACTTT-ACAAACCAGG
1 GGTATTTTGGTAA-TTTCACAAACCAGG
* *
43308475 GGTCTTTTAGTAATTT
1 GGTATTTTGGTAATTT
43308491 GGTAAACTAA
Statistics
Matches: 185, Mismatches: 35, Indels: 21
0.77 0.15 0.09
Matches are distributed among these distances:
24 2 0.01
25 16 0.09
26 7 0.04
27 153 0.83
28 7 0.04
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTCACAAACCAGG
Found at i:43308488 original size:133 final size:133
Alignment explanation
Indices: 43308238--43308488 Score: 301
Period size: 133 Copynumber: 1.9 Consensus size: 133
43308228 GTCGAAGGTA
* *** *
43308238 TTTCTGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATT
1 TTTCAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAGGGTATATTGGTAATT
** * *
43308303 TTACAAGTCGATGGTATTTCAGTAATTTCACAAATCCGGGATATTTTGGTAATGTTACAAGTCGA
66 TTACAAACCGAGGGTATTTCAGTAATTTCACAAATCCGGGATATTTTAGTAATGTTACAAGTCGA
43308368 GGG
131 GGG
* * * *
43308371 TTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATATTGGTAATT
1 TTTCAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAGGGTATATTGGTAATT
** * *
43308436 TTACAAACC-AGGGGTATTTTGGTAACTTT-ACAAA-CCAGGGGTCTTTTAGTAAT
66 TTACAAACCGA-GGGTATTTCAGTAA-TTTCACAAATCC-GGGATATTTTAGTAAT
43308489 TTGGTAAACT
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
132 3 0.03
133 92 0.94
134 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (133 bp):
TTTCAGTAATTTCACAAATCAAGGGTATTTTGGTAATTTCACAAACCAAGGGTATATTGGTAATT
TTACAAACCGAGGGTATTTCAGTAATTTCACAAATCCGGGATATTTTAGTAATGTTACAAGTCGA
GGG
Found at i:43311199 original size:40 final size:40
Alignment explanation
Indices: 43311119--43311276 Score: 167
Period size: 40 Copynumber: 4.0 Consensus size: 40
43311109 ATATCCAGTT
* * * *
43311119 TAAGACCCGAAGGCCATT-GTGCTAGT-GACTACATCCGGGC
1 TAAGACCCGAAGG-CATTCGTGCAAGTCG-TTATATCTGGGC
* * *
43311159 TAGGACCCGAAGGCATTCGTGCAAGTTGTTAAATCTGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTCGTTATATCTGGGC
* * * *
43311199 TAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTCGTTATATCTGGGC
* *
43311239 TAAGACCCGAAGGCATTCGTGCATGTGGTTATATCTGG
1 TAAGACCCGAAGGCATTCGTGCAAGTCGTTATATCTGG
43311277 TTGTATTCCG
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 4 0.04
40 93 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCAAGTCGTTATATCTGGGC
Found at i:43311219 original size:80 final size:80
Alignment explanation
Indices: 43311123--43311276 Score: 206
Period size: 80 Copynumber: 1.9 Consensus size: 80
43311113 CCAGTTTAAG
* * *
43311123 ACCCGAAGGCCATTGTGCTAGT-G-ACTACATCCGGGCTAGGACCCGAAGGCATTCGTGCAAGTT
1 ACCCGAAGGCCATTGTGCAAGTCGTACT--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTG
43311186 GTTAAATCTGGGCTAAT
64 GTTAAATCTGGGCTAAT
* *
43311203 ACCCGAAGG-CATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGG
1 ACCCGAAGGCCA-TTGTGCAAGTCGTACTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGG
*
43311267 TTATATCTGG
65 TTAAATCTGG
43311277 TTGTATTCCG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 2 0.03
80 60 0.92
81 1 0.02
82 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ACCCGAAGGCCATTGTGCAAGTCGTACTATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGT
TAAATCTGGGCTAAT
Found at i:43314279 original size:27 final size:27
Alignment explanation
Indices: 43314249--43314542 Score: 363
Period size: 27 Copynumber: 10.9 Consensus size: 27
43314239 AACACCCTAT
** * *
43314249 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
43314276 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
** *
43314303 ATGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314330 GTGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314357 GGGTAAAACAGTAATTTTGTCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314384 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314411 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314438 AGGTAAAAAAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314465 TGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
43314492 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
43314519 GGGTAAAATAGTAATTCTATAAAT
1 GGGTAAAACAGTAATTCTGTAAAT
43314543 TAGGGGTACT
Statistics
Matches: 234, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 234 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:43314573 original size:81 final size:80
Alignment explanation
Indices: 43314249--43314577 Score: 326
Period size: 81 Copynumber: 4.1 Consensus size: 80
43314239 AACACCCTAT
* * * ** *
43314249 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAA-TAATTCTGTAAATCGAATGTAAAACA
1 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAA-AAGTAATTCTGTAAATCGAGGGTAAAACG
*
43314313 ATAATTCTGTA-AATCGA
65 GTAA-T-TGTACAATCGA
* * * * * *
43314330 GTGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTCAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAAAGTAATTCTGTAAATCGAGGGTAAAACGG
* *
43314395 TAATTCTATAAATCGA
66 TAATTGTA-CAATCGA
* *
43314411 GGGTAAAATAGTAATTTTGTAAATCGAA-GGTAAAAAAGTAATTCTGTAAATCGATGGTAAAACA
1 GGGTAAAATAGTAATTTTGTAAATC-AAGGGTAAAAAAGTAATTCTGTAAATCGAGGGTAAAACG
43314475 GTAATTCTGT-CAATCGA
65 GTAA-T-TGTACAATCGA
* * * ****
43314492 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAAT-TAGGGGTACTTTG
1 GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAAAGTAATTCTGTAAATCGA-GGGTAAAACG
43314556 GTAATTGTACAAGTCGA
65 GTAATTGTACAA-TCGA
43314573 GGGTA
1 GGGTA
43314578 TTTCAATAAT
Statistics
Matches: 207, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
79 6 0.03
80 9 0.04
81 188 0.91
82 2 0.01
83 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (80 bp):
GGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAAAAGTAATTCTGTAAATCGAGGGTAAAACGG
TAATTGTACAATCGA
Found at i:43314614 original size:81 final size:81
Alignment explanation
Indices: 43314539--43314808 Score: 293
Period size: 81 Copynumber: 3.4 Consensus size: 81
43314529 GTAATTCTAT
* * *
43314539 AAATTAGGGGTACTTTGGTAATTGTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGT
1 AAATTAGGGGTATTTTGGTAATTGTACAAGTCAAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
43314604 ATTTCTGTAATTTCAC
66 ATTTCTGTAATTTCAC
* **
43314620 AAATTAGGGGTATTTTGGTAATTTTGTA-AA-CCAAGGGTATTTTGGTAATTTTAC-GAGTCGAG
1 AAATTAGGGGTATTTTGGTAA--TTGTACAAGTCAAGGGTATTTCAGTAATTTTACAG-GTCGAG
*
43314682 GGTATTTCAGTAATTTCAC
63 GGTATTTCTGTAATTTCAC
** * * ** **
43314701 AAATCCGGGGTATTTTGATAA-TGTTACAAGTCAAGGG--TTTCAGTAATTTCACAAATTAAGGG
1 AAATTAGGGGTATTTTGGTAATTG-TACAAGTCAAGGGTATTTCAGTAATTTTACAGGTCGAGGG
43314763 TATTT-TGGTAATTTCAC
65 TATTTCT-GTAATTTCAC
* *
43314780 AAACTAGGGGTATTTTGGTAATTTTACAA
1 AAATTAGGGGTATTTTGGTAATTGTACAA
43314809 ACCAGGGGCA
Statistics
Matches: 156, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
78 2 0.01
79 56 0.36
80 4 0.03
81 87 0.56
82 2 0.01
83 5 0.03
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (81 bp):
AAATTAGGGGTATTTTGGTAATTGTACAAGTCAAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
ATTTCTGTAATTTCAC
Found at i:43314694 original size:27 final size:27
Alignment explanation
Indices: 43314556--43314808 Score: 131
Period size: 27 Copynumber: 9.4 Consensus size: 27
43314546 GGGTACTTTG
*
43314556 GTAATTGTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * *
43314583 ATAATTTTACAGGTCGAGGGTATTTCT
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * * **
43314610 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
** ** * **
43314637 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGTATTTCA
*
43314664 GTAATTTTACGAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * *
43314691 GTAATTTCACAAATCCG-GGGTATTT-T
1 GTAATTTTACAAGT-CGAGGGTATTTCA
* *
43314717 GATAATGTTACAAGTCAAGGG--TTTCA
1 G-TAATTTTACAAGTCGAGGGTATTTCA
* * ** **
43314743 GTAATTTCACAAATTAAGGGTATTTTG
1 GTAATTTTACAAGTCGAGGGTATTTCA
* * * **
43314770 GTAATTTCACAA-ACTAGGGGTATTTTG
1 GTAATTTTACAAGTCGA-GGGTATTTCA
43314797 GTAATTTTACAA
1 GTAATTTTACAA
43314809 ACCAGGGGCA
Statistics
Matches: 174, Mismatches: 43, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
25 18 0.10
26 5 0.03
27 148 0.85
28 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:43314752 original size:52 final size:53
Alignment explanation
Indices: 43314546--43314774 Score: 169
Period size: 54 Copynumber: 4.3 Consensus size: 53
43314536 TATAAATTAG
* * * * ** *
43314546 GGGTACTTTGGTAAT-TGTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATGT-TACAAGTCAAGGG-ATTTCAGTAATTTCACAAATCAA
* * * ** *** *
43314600 GGGTATTTCT-GTAAT-TTCACAAATTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTT-TGGTAATGTT-ACAAGTCAAGGG-ATTTCAGTAATTTCACAAATCAA
* * * **
43314654 GGGTATTTTGGTAATTTTACGAGTCGAGGGTATTTCAGTAATTTCACAAATCCG
1 GGGTATTTTGGTAATGTTACAAGTCAAGGG-ATTTCAGTAATTTCACAAATCAA
* *
43314708 GGGTATTTTGATAATGTTACAAGTCAAGGG-TTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATGTTACAAGTCAAGGGATTTCAGTAATTTCACAAATCAA
43314760 GGGTATTTTGGTAAT
1 GGGTATTTTGGTAAT
43314775 TTCACAAACT
Statistics
Matches: 136, Mismatches: 35, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
52 33 0.24
53 2 0.01
54 98 0.72
55 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (53 bp):
GGGTATTTTGGTAATGTTACAAGTCAAGGGATTTCAGTAATTTCACAAATCAA
Found at i:43314809 original size:27 final size:27
Alignment explanation
Indices: 43314600--43314857 Score: 186
Period size: 27 Copynumber: 9.6 Consensus size: 27
43314590 TACAGGTCGA
* *
43314600 GGGTATTTCT-GTAATTTCACAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
** * *
43314627 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
43314654 GGGTATTTTGGTAATTTTAC-GAGTCG
1 GGGTATTTTGGTAATTTTACAAACTAG
** * *
43314680 AGGGTATTTCAGTAATTTCACAAA-TCCG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
* * * *
43314708 GGGTATTTTGATAATGTTAC-AAGTCAA
1 GGGTATTTTGGTAATTTTACAAACT-AG
** * * *
43314735 GGG--TTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
*
43314760 GGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
43314787 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
43314814 GGGCATTTTTGTAACTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
43314841 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
43314858 GGTAAACTAA
Statistics
Matches: 180, Mismatches: 43, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
25 15 0.08
26 7 0.04
27 155 0.86
28 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:43319926 original size:19 final size:18
Alignment explanation
Indices: 43319891--43319929 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
43319881 CGTACATGAG
* *
43319891 AGAAACAAAAACAAAGAA
1 AGAAAAAAAAAAAAAGAA
43319909 AGAAAAAAAAAAAGAAGAA
1 AGAAAAAAAAAAA-AAGAA
43319928 AG
1 AG
43319930 GAAGAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAAAGAA
Found at i:43321226 original size:40 final size:40
Alignment explanation
Indices: 43321167--43321313 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 40
43321157 CAATTGAATG
* * * *
43321167 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
43321207 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* ** * ****
43321247 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
43321287 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
43321314 CGTGCACGTG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:43321314 original size:40 final size:39
Alignment explanation
Indices: 43321208--43321334 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
43321198 CTGGAAATTA
* * *
43321208 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
43321246 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* *
43321288 TATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
43321328 TATCCGG
1 TATCCGG
43321335 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 71 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:43327976 original size:20 final size:21
Alignment explanation
Indices: 43327929--43327976 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
43327919 TTGCCGTGAG
43327929 AGAAACAAAAACAAAGAAAGAA
1 AGAAA-AAAAACAAAGAAAGAA
* *
43327951 A-AAAAAAAAAAAAGAAAGGA
1 AGAAAAAAAACAAAGAAAGAA
43327971 AGAAAA
1 AGAAAA
43327977 GTGTTCATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 15 0.65
21 7 0.30
22 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAACAAAGAAAGAA
Found at i:43329242 original size:40 final size:40
Alignment explanation
Indices: 43329183--43329329 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 40
43329173 CAATTGAATG
* * * *
43329183 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* * * **
43329223 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
* ** * ****
43329263 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
*
43329303 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
43329330 CGTGCACGTG
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGAAACT
Found at i:43329330 original size:40 final size:39
Alignment explanation
Indices: 43329224--43329350 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
43329214 CTGGAAATTA
* * *
43329224 TATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTG-AC
1 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGTTC
43329262 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
* *
43329304 TATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTTC
43329344 TATCCGG
1 TATCCGG
43329351 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 71 0.91
41 1 0.01
42 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTTC
Found at i:43344424 original size:30 final size:30
Alignment explanation
Indices: 43344388--43344518 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
43344378 GACAAGATTG
* * * * *
43344388 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
43344418 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
43344446 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43344476 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43344505 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43344519 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:43344479 original size:58 final size:58
Alignment explanation
Indices: 43344388--43344518 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
43344378 GACAAGATTG
* * * * * *
43344388 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
43344446 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
43344505 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43344519 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:43353495 original size:30 final size:30
Alignment explanation
Indices: 43353459--43353589 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
43353449 GACAAGATTG
* * * * *
43353459 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
43353489 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
43353517 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43353547 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43353576 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43353590 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:43353550 original size:58 final size:58
Alignment explanation
Indices: 43353459--43353589 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
43353449 GACAAGATTG
* * * * * *
43353459 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
43353517 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
43353576 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43353590 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:43361977 original size:40 final size:39
Alignment explanation
Indices: 43361893--43362077 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
43361883 TCGAATGATG
* * * *
43361893 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
43361933 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
43361973 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
43362012 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
43362053 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
43362078 AACTAGTGGC
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43362099 original size:79 final size:79
Alignment explanation
Indices: 43361894--43362113 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 79
43361884 CGAATGATGT
* *
43361894 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATATCCGG-TTAAG-TCCCGAAGGCATT
*
43361957 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * * *
43361974 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGTTAAGTCCCGAAGGCATTTG
43362038 TGCGAGTTACT-ATAA
65 TGCGAGTTACTAAT-A
* ** * *
43362053 CCGGGCTATGTCCCGAAGGCATTTGAACTAGTGGCTATATCCGGTTAA-ACTCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGTTAAGTC-CCGAAGGCAT
43362114 GTGATTCGGG
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.03
79 72 0.61
80 42 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:43367064 original size:49 final size:49
Alignment explanation
Indices: 43366938--43367112 Score: 259
Period size: 49 Copynumber: 3.7 Consensus size: 49
43366928 CCCTTCGGGA
* * * * *
43366938 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43366985 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43367032 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43367081 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
43367113 TGCGTAAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 1 0.01
47 45 0.39
49 70 0.60
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43375117 original size:11 final size:11
Alignment explanation
Indices: 43375101--43375127 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
43375091 TCAAGAATCA
43375101 TAAGTACATTT
1 TAAGTACATTT
43375112 TAAGTACATTT
1 TAAGTACATTT
43375123 TAAGT
1 TAAGT
43375128 GATGTCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (11 bp):
TAAGTACATTT
Found at i:43376967 original size:28 final size:28
Alignment explanation
Indices: 43376935--43377033 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
43376925 GCAATAAGCC
*
43376935 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
43376963 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
43376991 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
43377020 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43377034 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:43379732 original size:80 final size:80
Alignment explanation
Indices: 43379648--43379796 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43379638 TATGGTAACC
* * * *
43379648 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43379712 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43379728 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43379793 CCGG
66 CCGG
43379797 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:43379738 original size:40 final size:38
Alignment explanation
Indices: 43379689--43379796 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43379679 ATCACGATTT
*
43379689 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43379729 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43379769 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43379797 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:43386287 original size:39 final size:40
Alignment explanation
Indices: 43386233--43386405 Score: 255
Period size: 40 Copynumber: 4.4 Consensus size: 40
43386223 GATGATAACC
*
43386233 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
43386272 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
43386312 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
43386352 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
43386390 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
43386406 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
38 15 0.12
39 43 0.35
40 66 0.53
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:43386378 original size:79 final size:78
Alignment explanation
Indices: 43386231--43386405 Score: 255
Period size: 79 Copynumber: 2.2 Consensus size: 78
43386221 TGGATGATAA
* * *
43386231 CCGGCTAAGTCCCGAAGGCATTTGTGCGAGTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CCGGCTAAGTCCCGAAGGCATTGGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAG
43386296 CGAGTTA-CTATAT
66 CGAG-TAGCTATAT
*
43386309 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CC-GGCTAAGTCCCGAAGGCATTGGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
43386373 AGCGAGTAGCTATAT
64 AGCGAGTAGCTATAT
* *
43386388 CCGGTTAAATCCCGAAGG
1 CCGGCTAAGTCCCGAAGG
43386406 TACTTGGCTT
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 18 0.20
79 43 0.49
80 27 0.31
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGGCTAAGTCCCGAAGGCATTGGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTAGCTATAT
Found at i:43394357 original size:40 final size:40
Alignment explanation
Indices: 43394302--43394478 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
43394292 TGGATGATAA
*
43394302 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43394342 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43394382 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43394422 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43394461 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43394479 TACTTGGCTT
Statistics
Matches: 128, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 15 0.12
39 15 0.12
40 98 0.77
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43398189 original size:40 final size:40
Alignment explanation
Indices: 43398134--43398301 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
43398124 TGAATGATAC
* *
43398134 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
43398174 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
43398214 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
43398254 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
43398294 CC-GGCTAA
1 CCGGGCTAA
43398302 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:43401367 original size:40 final size:40
Alignment explanation
Indices: 43401308--43401490 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
43401298 ATTCGAATGT
*
43401308 TATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACTA
1 TATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACTA
* * * **
43401348 TATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTTCTA
1 TATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACTA
* * *
43401388 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTA
1 TATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACTA
*
43401428 TATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACCA
1 TATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACTA
* *
43401468 TATCCGGGATAAGACCCGAAGGC
1 TATCCGGGCTAAGATCCGAAGGC
43401491 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 121 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACTA
Found at i:43401447 original size:80 final size:80
Alignment explanation
Indices: 43401308--43401490 Score: 251
Period size: 80 Copynumber: 2.3 Consensus size: 80
43401298 ATTCGAATGT
* * *
43401308 TATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCAT
* ** *
43401373 TTGTGCGAGTTTCTA
66 TTATGCGAGTGACCA
* *
43401388 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGAT-CCGAAGGCA
*
43401452 TTTATGCTAGTGACCA
65 TTTATGCGAGTGACCA
*
43401468 TATCCGGGATAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGAAGGC
43401491 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
79 1 0.01
80 90 0.99
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCAT
TTATGCGAGTGACCA
Found at i:43403291 original size:7 final size:7
Alignment explanation
Indices: 43403279--43403304 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
43403269 ACATCATAGC
43403279 ATCAAAT
1 ATCAAAT
43403286 ATCAAAT
1 ATCAAAT
43403293 ATCAAAT
1 ATCAAAT
43403300 ATCAA
1 ATCAA
43403305 TACAAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
ATCAAAT
Found at i:43412616 original size:29 final size:29
Alignment explanation
Indices: 43412582--43412796 Score: 172
Period size: 29 Copynumber: 7.4 Consensus size: 29
43412572 TTATCGACCA
43412582 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
43412611 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * ** *
43412640 ATGAAAAGGGAT-GGTGACAACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
43412669 ATGAAAAGGGAT-GGTGAT-GACCATCAAAT
1 ATGAAAAGGGATAGCT--TCGGCTATCGAAT
* * *
43412698 ATGAAATGGGATAGCTTTGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
43412727 ATGAAAAGGGATAGCTTTGGCTATCG-AT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
43412755 AATGAAAAAGGATAGCTTTGGCAATCG-AT
1 -ATGAAAAGGGATAGCTTCGGCTATCGAAT
43412784 AATGAAAAGGGAT
1 -ATGAAAAGGGAT
43412797 GGTGAAGACC
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
28 6 0.04
29 146 0.94
30 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:43412701 original size:58 final size:57
Alignment explanation
Indices: 43412639--43412955 Score: 146
Period size: 58 Copynumber: 5.5 Consensus size: 57
43412629 GGCTATTGAT
43412639 TATGAAAAGGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGATGACCATCAAA
1 TATGAAAAGGGATGGTGACAACCATCAA-TATGAAAAGGGATGGTGATGACCATCAAA
* * * * * * * * * * *
43412697 TATGAAATGGGATAGCTTTGGCTA--TTGAATATGAAAAGGGATAGCT-TTGGCTATC-GA
1 TATGAAAAGGGAT-G--GTGACAACCATCAATATGAAAAGGGAT-GGTGATGACCATCAAA
* * * * * *
43412754 TAATGAAAAAGGATAGCTTTGGC-A--ATCGATAATGAAAAGGGATGGTGAAGACCATCAAC
1 T-ATGAAAAGGGAT-G--GTGACAACCATCAAT-ATGAAAAGGGATGGTGATGACCATCAAA
* * *** * *
43412813 TATGAAAAGGGATGGTGACAACCATAAACCATGAAAAGGGATGGTGGCAACCATCGAT
1 TATGAAAAGGGATGGTGACAACCATCAA-TATGAAAAGGGATGGTGATGACCATCAAA
* ** * * * *
43412871 TAATTAAAAGGGATGGTTTCAACCATCAAATATGAAAATGGATGGT-TTCAACCATCGAA
1 T-ATGAAAAGGGATGGTGACAACCATC-AATATGAAAAGGGATGGTGAT-GACCATCAAA
* * *
43412930 TATGAAAAGGGACGGTTACGACCATC
1 TATGAAAAGGGATGGTGACAACCATC
43412956 GTTTAGCACA
Statistics
Matches: 197, Mismatches: 47, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
55 3 0.02
56 1 0.01
57 9 0.05
58 126 0.64
59 52 0.26
60 2 0.01
61 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (57 bp):
TATGAAAAGGGATGGTGACAACCATCAATATGAAAAGGGATGGTGATGACCATCAAA
Found at i:43412789 original size:116 final size:114
Alignment explanation
Indices: 43412582--43412825 Score: 312
Period size: 116 Copynumber: 2.1 Consensus size: 114
43412572 TTATCGACCA
* *
43412582 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATAATGAAAA
* *
43412647 GGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGATGACCATCAAAT
66 AGGATGGTGACAACCAT-AAC-ATGAAAAGGGATGGTGAAGACCATCAAAT
* * * *
43412698 ATGAAATGGGATAGCTTTGGCTATTGAATATGAAAAGGGATAGCTTTGGCTATCGATAATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATAATGAAAA
* * * *
43412763 AGGATAGCTTTGGCAATCGAT-A-ATGAAAAGGGATGGTGAAGACCATCAACT
66 AGGAT-G--GTGACAA-CCATAACATGAAAAGGGATGGTGAAGACCATCAAAT
43412814 ATGAAAAGGGAT
1 ATGAAAAGGGAT
43412826 GGTGACAACC
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
116 101 0.91
117 1 0.01
118 1 0.01
119 5 0.05
120 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (114 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATAATGAAAA
AGGATGGTGACAACCATAACATGAAAAGGGATGGTGAAGACCATCAAAT
Found at i:43412847 original size:145 final size:145
Alignment explanation
Indices: 43412582--43412854 Score: 408
Period size: 145 Copynumber: 1.9 Consensus size: 145
43412572 TTATCGACCA
* * * *
43412582 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAAGGATAGCTTCGGCAATCGATAATGAAAA
** * *
43412647 GGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGATGACCATCAAATATGAAATGGGATAG
66 GGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACAACCATCAAACATGAAAAGGGATAG
43412712 CTTTGGCTATTGAAT
131 CTTTGGCTATTGAAT
* *
43412727 ATGAAAAGGGATAGCTTTGGCTATCG-ATAATGAAAAAGGATAGCTTTGGCAATCGATAATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT-ATGAAAAAGGATAGCTTCGGCAATCGATAATGAAA
43412791 AGGGATGGTGA-AGACCATCAACTATGAAAAGGGATGGTGACAACCAT-AAACCATGAAAAGGGA
65 AGGGATGGTGACA-ACCATCAACTATGAAAAGGGATGGTGACAACCATCAAA-CATGAAAAGGGA
43412854 T
128 T
43412855 GGTGGCAACC
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
144 6 0.05
145 109 0.95
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (145 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAAGGATAGCTTCGGCAATCGATAATGAAAA
GGGATGGTGACAACCATCAACTATGAAAAGGGATGGTGACAACCATCAAACATGAAAAGGGATAG
CTTTGGCTATTGAAT
Found at i:43412906 original size:59 final size:58
Alignment explanation
Indices: 43412785--43412955 Score: 186
Period size: 59 Copynumber: 2.9 Consensus size: 58
43412775 GCAATCGATA
* *
43412785 ATGAAAAGGGATGGTGAAGACCATC-AACTATGAAAAGGGATGGTGACAACCAT-AAACC
1 ATGAAAAGGGATGGTGCA-ACCATCGAA-TATGAAAAGGGATGGTTACAACCATCAAACC
* * * *
43412843 ATGAAAAGGGATGGTGGCAACCATCGATTAATTAAAAGGGATGGTTTCAACCATCAAA-T
1 ATGAAAAGGGATGGT-GCAACCATCGAAT-ATGAAAAGGGATGGTTACAACCATCAAACC
* * * *
43412902 ATGAAAATGGATGGTTTCAACCATCGAATATGAAAAGGGACGGTTACGACCATC
1 ATGAAAAGGGATGG-TGCAACCATCGAATATGAAAAGGGATGGTTACAACCATC
43412956 GTTTAGCACA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
58 43 0.45
59 48 0.51
60 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGCAACCATCGAATATGAAAAGGGATGGTTACAACCATCAAACC
Found at i:43412946 original size:29 final size:29
Alignment explanation
Indices: 43412785--43412956 Score: 161
Period size: 29 Copynumber: 5.9 Consensus size: 29
43412775 GCAATCGATA
*
43412785 ATGAAAAGGGATGGTGA-AGACCATC-AACT
1 ATGAAAAGGGATGGTTACA-ACCATCGAA-T
* * *
43412814 ATGAAAAGGGATGGTGACAACCAT-AAACC
1 ATGAAAAGGGATGGTTACAACCATCGAA-T
** *
43412843 ATGAAAAGGGATGGTGGCAACCATCGATT
1 ATGAAAAGGGATGGTTACAACCATCGAAT
* * *
43412872 AATTAAAAGGGATGGTTTCAACCATCAAAT
1 -ATGAAAAGGGATGGTTACAACCATCGAAT
* *
43412902 ATGAAAATGGATGGTTTCAACCATCGAAT
1 ATGAAAAGGGATGGTTACAACCATCGAAT
* *
43412931 ATGAAAAGGGACGGTTACGACCATCG
1 ATGAAAAGGGATGGTTACAACCATCG
43412957 TTTAGCACAT
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
29 96 0.79
30 26 0.21
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTACAACCATCGAAT
Found at i:43412954 original size:88 final size:87
Alignment explanation
Indices: 43412778--43412956 Score: 200
Period size: 88 Copynumber: 2.0 Consensus size: 87
43412768 AGCTTTGGCA
*
43412778 ATCGATAATGAAAAGGGATGGTGAAGACCATCAACTATGAAAAGGGATGGTGACAACCATAAACC
1 ATCGATAATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAGGGATGGTGACAACCATAAACC
* *
43412843 ATGAAAAGGGATGGTGGCAACC
66 ATGAAAAGGGACGGTGACAACC
* ** * ** *
43412865 ATCGATTAATTAAAAGGGATGGTTTCA-ACCATCAAATATGAAAATGGATGGTTTCAACCATCGA
1 ATCGA-TAATGAAAAGGGATGG-TGAAGACCATCAAATATGAAAAGGGATGGTGACAACCAT-AA
* * *
43412929 A-TATGAAAAGGGACGGTTACGACC
63 ACCATGAAAAGGGACGGTGACAACC
43412953 ATCG
1 ATCG
43412957 TTTAGCACAT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
87 5 0.07
88 67 0.88
89 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (87 bp):
ATCGATAATGAAAAGGGATGGTGAAGACCATCAAATATGAAAAGGGATGGTGACAACCATAAACC
ATGAAAAGGGACGGTGACAACC
Found at i:43415408 original size:46 final size:46
Alignment explanation
Indices: 43415351--43415523 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
43415341 TGGTTGAGCA
43415351 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * *
43415397 TCCAAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-AATGCGAA-T--G
* *
43415442 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
* * *
43415490 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43415524 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 56 0.53
47 25 0.24
48 2 0.02
50 3 0.03
51 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
Found at i:43415507 original size:93 final size:93
Alignment explanation
Indices: 43415348--43415517 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
43415338 GGATGGTTGA
* * *
43415348 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCAAACTCATTGAGT
43415413 TGAGTCCGAGTTTGTGAAATGTAACTAG
66 TGAGTCCGAGTTTGTGAAATGTAACTAG
* * *
43415441 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCAAACTCATTGAGT
43415506 TGAGTCCGAGTT
66 TGAGTCCGAGTT
43415518 CACTTAGGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTTGTGAAATGTAACTAG
Found at i:43418476 original size:42 final size:46
Alignment explanation
Indices: 43418414--43418534 Score: 135
Period size: 48 Copynumber: 2.7 Consensus size: 46
43418404 TATGTGTTAT
*
43418414 CATGTAAGACCATATCTGGGATATGGCGTTG-AT-A-T-GAGATCC
1 CATGTAAGACCATATTTGGGATATGGCGTTGTATCAGTGGAGATCC
* * * *
43418456 CGTGTAAGACCA-AGTTTGGGACATGGCATTGGTATCGAGTGGTGATCC
1 CATGTAAGACCATA-TTTGGGATATGGCGTT-GTATC-AGTGGAGATCC
43418504 CATGTAAGACCATATTTGGGATATGGCGTTG
1 CATGTAAGACCATATTTGGGATATGGCGTTG
43418535 GCATCTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.02
42 24 0.38
43 1 0.02
44 2 0.03
46 1 0.02
47 2 0.03
48 31 0.49
49 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (46 bp):
CATGTAAGACCATATTTGGGATATGGCGTTGTATCAGTGGAGATCC
Found at i:43425456 original size:40 final size:39
Alignment explanation
Indices: 43425411--43425597 Score: 137
Period size: 40 Copynumber: 4.7 Consensus size: 39
43425401 ATAACCACAA
* * ** * *
43425411 GCACAATTGCCTTCGGGTCTTAACCCGAATTTGGTATCTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGAATATGACAACTC
*
43425451 GCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGAATATGACAACTC
* * *
43425491 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGAATATGA-CAACTC
* * * *
43425531 GCATAAATGCCTTCGGGACTTAGCCCGGATATAT-TC-ACTA
1 GCA-CAATGCCTTCGGGTCTTAGCCC-GA-ATATGACAACTC
* *
43425571 GCATAAATGCCTTCGGGACTTAGCCCG
1 GCA-CAATGCCTTCGGGTCTTAGCCCG
43425598 GGTATCATTC
Statistics
Matches: 128, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 119 0.93
41 4 0.03
42 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGAATATGACAACTC
Found at i:43425598 original size:40 final size:41
Alignment explanation
Indices: 43425455--43425608 Score: 199
Period size: 40 Copynumber: 3.8 Consensus size: 41
43425445 TATCTTGCAC
* * * *
43425455 AAATGCCTTCGGGTCTTAGCCCGGATATGA--CAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATATCATTC-ACTAGCAT
* * *
43425495 GAATGCCTTCGGGTCTTAGCCCGGATAT-AATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATCATTCACTAGCAT
43425535 AAATGCCTTCGGGACTTAGCCCGGATAT-ATTCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATATCATTCACTAGCAT
*
43425575 AAATGCCTTCGGGACTTAGCCCGGGTATCATTCA
1 AAATGCCTTCGGGACTTAGCCCGGATATCATTCA
43425609 AATGCTCATG
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.93
41 6 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
AAATGCCTTCGGGACTTAGCCCGGATATCATTCACTAGCAT
Found at i:43428167 original size:10 final size:10
Alignment explanation
Indices: 43428154--43428178 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
43428144 TTGGTGATAG
43428154 TTTTTGATGT
1 TTTTTGATGT
43428164 TTTTTGATGT
1 TTTTTGATGT
43428174 TTTTT
1 TTTTT
43428179 ATATCCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (10 bp):
TTTTTGATGT
Found at i:43436813 original size:20 final size:21
Alignment explanation
Indices: 43436790--43436830 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
43436780 ATAAGAATGT
*
43436790 ATTTTGATGATTT-ATGATAG
1 ATTTTGAAGATTTGATGATAG
*
43436810 ATTTTGAAGGTTTGATGATAG
1 ATTTTGAAGATTTGATGATAG
43436831 TTATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (21 bp):
ATTTTGAAGATTTGATGATAG
Found at i:43440511 original size:31 final size:31
Alignment explanation
Indices: 43440473--43440533 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
43440463 TTTCACATTT
*
43440473 CATATTTCATAACACTGGGCCGTAGCCTTTC
1 CATATTTCATAACACTGGGCCGAAGCCTTTC
**
43440504 CATATTTCATATTACTGGGCCGAAGCCTTT
1 CATATTTCATAACACTGGGCCGAAGCCTTT
43440534 ACTGTAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (31 bp):
CATATTTCATAACACTGGGCCGAAGCCTTTC
Found at i:43440893 original size:24 final size:24
Alignment explanation
Indices: 43440727--43440893 Score: 214
Period size: 24 Copynumber: 7.0 Consensus size: 24
43440717 GCTTTTTCAT
* *
43440727 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
43440752 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
43440775 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
* *
43440798 ATAACTGGGGCGTAAGCCTTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
43440822 ATAAATGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
43440846 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
43440870 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
43440894 CACTTCCTCC
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
23 39 0.30
24 83 0.64
25 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:43440967 original size:20 final size:20
Alignment explanation
Indices: 43440942--43441008 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
43440932 TCATAAATAC
*
43440942 ATCATGTGCATGTCATACAT
1 ATCATGTGCATATCATACAT
43440962 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43440982 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
43441002 ACCATGT
1 ATCATGT
43441009 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:43441073 original size:25 final size:25
Alignment explanation
Indices: 43441045--43441092 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43441035 ATGTATAAAC
* *
43441045 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
43441070 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
43441093 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:43442842 original size:39 final size:38
Alignment explanation
Indices: 43442697--43442886 Score: 193
Period size: 39 Copynumber: 4.8 Consensus size: 38
43442687 CAGGTTATAT
* *
43442697 TAACTCGCAGAAATGCCTTCGGGACTTAACCCGAATTTAG
1 TAACTCGCACAAATGCCTTC-GGACTTAGCCCGAA-TTAG
* * **
43442737 TAACTCACACCAATGCCTTCGTCCTTAGCCCGAAATTAG
1 TAACTCGCACAAATGCCTTCGGACTTAGCCCG-AATTAG
* * *
43442776 TAACTTGCACCAATGCCTTCGGGCTTAGCCCGAATTAG
1 TAACTCGCACAAATGCCTTCGGACTTAGCCCGAATTAG
* *
43442814 TAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
1 TAACTCGCACAAATGCCTTCGGA-CTTAGCCCGAAT-TAG
* *
43442854 TCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 TAAC-TCGCACAAATGCCTTC-GGACTTAGCCCG
43442887 GACATCATTC
Statistics
Matches: 127, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.20
39 51 0.40
40 39 0.31
41 11 0.09
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (38 bp):
TAACTCGCACAAATGCCTTCGGACTTAGCCCGAATTAG
Found at i:43442874 original size:78 final size:79
Alignment explanation
Indices: 43442711--43442886 Score: 218
Period size: 78 Copynumber: 2.2 Consensus size: 79
43442701 TCGCAGAAAT
* *
43442711 GCCTTCGGGACTTAACCCGAATTTAGTAACTCACACCAATGCCTTCGTCCTTAGCCCGAAATTAG
1 GCCTTCGGGACTTAGCCCGAATTTAGTAACTCACACAAATGCCTTCGTCCTTAGCCCGAAATTAG
*
43442776 TAACTTGCACCAAT
66 TAACTTGCACCAAA
* * *
43442790 GCCTTCGGG-CTTAGCCCGAA-TTAGTAACTCGCACAAATGCCTTCGGAT-CTTAGTCCG-GATA
1 GCCTTCGGGACTTAGCCCGAATTTAGTAACTCACACAAATGCCTTC-G-TCCTTAGCCCGAAAT-
*
43442851 TAGTCACTTAGCA-CAAA
63 TAGTAACTT-GCACCAAA
43442868 GCCTTCGGGACTTAGCCCG
1 GCCTTCGGGACTTAGCCCG
43442887 GACATCATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
77 24 0.28
78 39 0.46
79 22 0.26
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (79 bp):
GCCTTCGGGACTTAGCCCGAATTTAGTAACTCACACAAATGCCTTCGTCCTTAGCCCGAAATTAG
TAACTTGCACCAAA
Found at i:43450792 original size:39 final size:40
Alignment explanation
Indices: 43450728--43450965 Score: 264
Period size: 39 Copynumber: 6.1 Consensus size: 40
43450718 TCGAATTTAA
** *
43450728 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
43450768 CCGGTTATAGTAACTCACA-AAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43450807 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
43450846 CCGGA-ATTAGTAACTCGCAC-AATGCCTTC-GG-CTTAG-
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43450882 CCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
43450921 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43450961 CCGGA
1 CCGGA
43450966 CATCATTCGA
Statistics
Matches: 171, Mismatches: 16, Indels: 22
0.82 0.08 0.11
Matches are distributed among these distances:
35 13 0.08
36 15 0.09
37 7 0.04
38 14 0.08
39 63 0.37
40 48 0.28
41 11 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43458862 original size:19 final size:21
Alignment explanation
Indices: 43458839--43458893 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
43458829 CTTTCTTTTG
* *
43458839 TTTCTTTTTCTTTTTTTC-TC
1 TTTCTTTTTCTTTTTTACAAC
43458859 -TTCTTTTAT-TTTTTTACAAC
1 TTTCTTTT-TCTTTTTTACAAC
43458879 TTTCTTTTTCTTTTT
1 TTTCTTTTTCTTTTT
43458894 CTTTCATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTTTTTCTTTTTTACAAC
Found at i:43462468 original size:16 final size:18
Alignment explanation
Indices: 43462447--43462479 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
43462437 CATACTAGCT
43462447 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
43462463 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
43462480 GTGACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:43464420 original size:45 final size:40
Alignment explanation
Indices: 43464256--43464437 Score: 219
Period size: 40 Copynumber: 4.5 Consensus size: 40
43464246 AAGCCAAGTA
* * *
43464256 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43464294 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43464334 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43464374 CCTTCGGGACTTAGCCCGGATAATAACTAACT-GCAAATGCAAATG
1 CCTTCGGGACTTAGCCCGGAT-AT-AGTAACTCGC--A--CAAATG
43464419 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43464438 TTATCATCCA
Statistics
Matches: 128, Mismatches: 7, Indels: 11
0.88 0.05 0.08
Matches are distributed among these distances:
38 12 0.09
39 17 0.13
40 63 0.49
41 4 0.03
42 6 0.05
43 1 0.01
45 25 0.20
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43472425 original size:40 final size:40
Alignment explanation
Indices: 43472332--43472505 Score: 264
Period size: 40 Copynumber: 4.4 Consensus size: 40
43472322 AAGCCAAGTA
* * *
43472332 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43472370 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43472410 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43472450 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43472490 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
43472506 GGTTATCATC
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.10
39 17 0.13
40 97 0.77
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43481983 original size:50 final size:49
Alignment explanation
Indices: 43481864--43481993 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
43481854 CTGGTACGCA
* * **
43481864 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
43481913 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
*
43481963 TAGTAGCCTGCACTTTGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
43481994 TCACAATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 29 0.40
50 40 0.55
51 4 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:43484310 original size:43 final size:43
Alignment explanation
Indices: 43484171--43484311 Score: 144
Period size: 43 Copynumber: 3.3 Consensus size: 43
43484161 AGCACATCTA
* *
43484171 GGACGTTGGCATCAACT-TATGATTTTCGTGTAAGACCATGTCTG
1 GGACGTTGGCATCAA-TATTTGA-TTTCATGTAAGACCATGTCTG
* ** * * *
43484215 GGATGTTGGCAT-TGTACTTGATTTCCTGTAAGACCCTGTCTG
1 GGACGTTGGCATCAATATTTGATTTCATGTAAGACCATGTCTG
* *
43484257 AGACAG-TGGCATCAATATTTGATTACATGTAAGACCATGTCTG
1 GGAC-GTTGGCATCAATATTTGATTTCATGTAAGACCATGTCTG
43484300 GGACGTTGGCAT
1 GGACGTTGGCAT
43484312 TGTACAAGCT
Statistics
Matches: 77, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.38
43 37 0.48
44 11 0.14
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
GGACGTTGGCATCAATATTTGATTTCATGTAAGACCATGTCTG
Found at i:43489882 original size:29 final size:29
Alignment explanation
Indices: 43489843--43489921 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
43489833 CTTAATAATC
*
43489843 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
43489873 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
43489902 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43489922 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:43490580 original size:8 final size:8
Alignment explanation
Indices: 43490567--43490603 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
43490557 GCCGAATATG
43490567 TATATCTA
1 TATATCTA
43490575 TATATCTA
1 TATATCTA
43490583 TATATCTA
1 TATATCTA
*
43490591 TATATATA
1 TATATCTA
43490599 TATAT
1 TATAT
43490604 ATATCAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:43490586 original size:2 final size:2
Alignment explanation
Indices: 43490562--43490607 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
43490552 TGATGGCCGA
* * * *
43490562 AT AT GT AT AT CT AT AT AT CT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43490604 AT AT
1 AT AT
43490608 CAACTATACT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43490588 original size:16 final size:16
Alignment explanation
Indices: 43490562--43490603 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
43490552 TGATGGCCGA
*
43490562 ATATGTATATCTATAT
1 ATATATATATCTATAT
*
43490578 ATCTATATATCTATAT
1 ATATATATATCTATAT
43490594 ATATATATAT
1 ATATATATAT
43490604 ATATCAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATATATATCTATAT
Found at i:43496597 original size:29 final size:29
Alignment explanation
Indices: 43496558--43496636 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
43496548 CTTAATAATC
*
43496558 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
43496588 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
43496617 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
43496637 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:43500783 original size:40 final size:40
Alignment explanation
Indices: 43500738--43500867 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
43500728 CGGAATACAA
43500738 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
43500778 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
43500818 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
43500858 CCGGATATAA
1 CCGGATATAA
43500868 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:43505079 original size:49 final size:49
Alignment explanation
Indices: 43505026--43505192 Score: 271
Period size: 49 Copynumber: 3.4 Consensus size: 49
43505016 GATTCTACGC
* * * *
43505026 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
* *
43505075 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
43505124 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
*
43505173 GATGAATGTGAAAGTGTATA
1 GATGAATGTGAAAGCGTATA
43505193 GTGAAAGCAT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 112 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
Found at i:43505207 original size:62 final size:62
Alignment explanation
Indices: 43505131--43505254 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
43505121 TGTGATGAAT
* *
43505131 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 GTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
43505193 GTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
1 GTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
43505255 CATATGTGAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (62 bp):
GTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
Found at i:43505244 original size:31 final size:31
Alignment explanation
Indices: 43505147--43505245 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 31
43505137 GCGTATACAT
43505147 ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGA
** * *** * *
43505178 ATGTGA-AAGTGTATAGTGAAAGCATAT-A-CA
1 ATGTGATAAG-GCCTAATGGCCG-ATGTGATGA
43505208 TATGTGATAAGGCCTAATGGCCGATGTGATGA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGA
43505240 ATGTGA
1 ATGTGA
43505246 AAGCGTATAC
Statistics
Matches: 46, Mismatches: 16, Indels: 12
0.62 0.22 0.16
Matches are distributed among these distances:
30 7 0.15
31 32 0.70
32 7 0.15
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:43505255 original size:49 final size:49
Alignment explanation
Indices: 43505193--43505450 Score: 480
Period size: 49 Copynumber: 5.3 Consensus size: 49
43505183 AAAGTGTATA
*
43505193 GTGAAAGCATATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
43505242 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
43505291 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
43505340 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
43505389 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCAATGTGATGGAT
1 GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
43505438 GTGAAAGTGTATA
1 GTGAAAGCGTATA
43505451 AATGTGTTAA
Statistics
Matches: 205, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 205 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (49 bp):
GTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:43509108 original size:48 final size:49
Alignment explanation
Indices: 43509032--43509129 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 49
43509022 AAGGCTGTGA
* *
43509032 GGAGAAGATTTAGGAGTTGATAAGGGAG-AGAATTT-AGGAGCTGAT-AAG
1 GGAGAAGATTTAGGAGATGATAAAGGAGAAG-ATTTCA-GAGCTGATCAAG
*
43509080 GGAGAGGATTTAGGAGATGATAAAGGAGAAGATTTCAGAGCTGATCAAG
1 GGAGAAGATTTAGGAGATGATAAAGGAGAAGATTTCAGAGCTGATCAAG
43509129 G
1 G
43509130 AGCAGGAGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
48 37 0.84
49 7 0.16
ACGTcount: A:0.38, C:0.04, G:0.37, T:0.21
Consensus pattern (49 bp):
GGAGAAGATTTAGGAGATGATAAAGGAGAAGATTTCAGAGCTGATCAAG
Found at i:43509113 original size:24 final size:24
Alignment explanation
Indices: 43509031--43509131 Score: 116
Period size: 24 Copynumber: 4.2 Consensus size: 24
43509021 AAAGGCTGTG
*
43509031 AGGAGAAGATTTAGGAGTTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
*
43509055 GGGAG-AGAATTTAGGAGCTGATAA
1 AGGAGAAG-ATTTAGGAGCTGATAA
* * *
43509079 GGGAGAGGATTTAGGAGATGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
*
43509103 AGGAGAAGATTTCA-GAGCTGATCA
1 AGGAGAAGATTT-AGGAGCTGATAA
43509127 AGGAG
1 AGGAG
43509132 CAGGAGTTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.03
24 62 0.94
25 2 0.03
ACGTcount: A:0.39, C:0.04, G:0.37, T:0.21
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATAA
Found at i:43510841 original size:32 final size:32
Alignment explanation
Indices: 43510757--43510841 Score: 75
Period size: 32 Copynumber: 2.6 Consensus size: 32
43510747 ACACTATTAT
* *
43510757 CTGAATAAGGGGCTAAGGCCCAGTTTAATGTAAT
1 CTGAA-AA-GGGCTTAGGCCCAGTTTAATGTAAC
* *
43510791 CTGAAAAGGGCTCT-GGCCCAGTATTACTGTTAC
1 CTGAAAAGGGCT-TAGGCCCAGT-TTAATGTAAC
*
43510824 CTG-AATGGGCTTAGGCCC
1 CTGAAAAGGGCTTAGGCCC
43510842 GATGGGCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 1 0.02
32 25 0.58
33 12 0.28
34 5 0.12
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (32 bp):
CTGAAAAGGGCTTAGGCCCAGTTTAATGTAAC
Found at i:43517021 original size:24 final size:23
Alignment explanation
Indices: 43516925--43517022 Score: 126
Period size: 24 Copynumber: 4.1 Consensus size: 23
43516915 GGTTGTCAGA
43516925 AGAAGATTTAGGAGCTGATAAGG
1 AGAAGATTTAGGAGCTGATAAGG
*
43516948 -GAGGGAGTTTAGGAGCTGATAAGGG
1 AGA-AGA-TTTAGGAGCTGATAA-GG
*
43516973 AGAGGATTTAGGAGCTGATAAAGG
1 AGAAGATTTAGGAGCTGAT-AAGG
43516997 AGAAGATTTAGGAGCTGATCAAGG
1 AGAAGATTTAGGAGCTGAT-AAGG
43517021 AG
1 AG
43517023 CAGGAGTTGG
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 54 0.81
25 7 0.10
26 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (23 bp):
AGAAGATTTAGGAGCTGATAAGG
Found at i:43525236 original size:27 final size:27
Alignment explanation
Indices: 43525177--43525239 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
43525167 GTGGTTCACT
*
43525177 AGTTGGTTTGGCAAGCTGCAGTTCGCC
1 AGTTGGTTTGGCAAGCTGCACTTCGCC
* * * **
43525204 AATTGGTTTGGCAAGTTGCTCTTTTCC
1 AGTTGGTTTGGCAAGCTGCACTTCGCC
43525231 AGTTGGTTT
1 AGTTGGTTT
43525240 ACTGAATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.29, T:0.40
Consensus pattern (27 bp):
AGTTGGTTTGGCAAGCTGCACTTCGCC
Found at i:43530790 original size:28 final size:29
Alignment explanation
Indices: 43530692--43530790 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
43530682 CCACAAATTG
* *
43530692 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * * *
43530721 GCACTTAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
43530749 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
43530777 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43530791 GGCTTATTAC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 39 0.67
29 19 0.33
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:43538482 original size:28 final size:29
Alignment explanation
Indices: 43538384--43538482 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
43538374 TCACAAATTG
* *
43538384 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
43538413 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
43538441 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
43538469 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43538483 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:43542127 original size:40 final size:40
Alignment explanation
Indices: 43542062--43542305 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
43542052 CGGAATACAA
* ** * * *
43542062 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
43542102 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
43542142 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
43542182 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
43542222 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
43542262 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
43542302 CCGG
1 CCGG
43542306 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:43542460 original size:64 final size:64
Alignment explanation
Indices: 43542392--43542580 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
43542382 GAACACAAAC
43542392 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
43542456 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
43542513 AC
63 AT
43542515 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
43542579 AT
1 AT
43542581 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:43542493 original size:123 final size:123
Alignment explanation
Indices: 43542274--43542612 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
43542264 GGATATAATT
* * * * * * *
43542274 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
43542339 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
43542397 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
43542462 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
43542520 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
43542585 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
43542613 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:43549536 original size:40 final size:39
Alignment explanation
Indices: 43549471--43549712 Score: 288
Period size: 40 Copynumber: 6.1 Consensus size: 39
43549461 CGGAATACAA
** * *
43549471 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
*
43549511 CCGGATATAACGACTTGCACAAATGCCTTCGGGT-ATAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
*
43549550 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
*
43549590 CCGGATATAACACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
43549629 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43549669 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
43549709 CCGG
1 CCGG
43549713 GTATCATTCA
Statistics
Matches: 179, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 75 0.42
40 104 0.58
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43549589 original size:79 final size:78
Alignment explanation
Indices: 43549471--43549712 Score: 301
Period size: 79 Copynumber: 3.1 Consensus size: 78
43549461 CGGAATACAA
* *
43549471 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGCCCGGATATAACGACTTGCACAAAT
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATATAAC-ACTTGCACAAAT
43549535 GCCTTCGGGTA-TAGC
63 GCCTTCGGGTATTAGC
* *
43549550 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGCCCGGATATAACACTTGCACAAATGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAATGC
43549615 CTTCGGGTATTAGC
65 CTTCGGGTATTAGC
* * * * * *
43549629 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATG
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CACTTGCACAAATG
*
43549694 TCTTCGGG-ACTTAGC
64 CCTTCGGGTA-TTAGC
43549709 CCGG
1 CCGG
43549713 GTATCATTCA
Statistics
Matches: 144, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
78 24 0.17
79 92 0.64
80 28 0.19
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACACTTGCACAAATGCC
TTCGGGTATTAGC
Found at i:43549867 original size:64 final size:64
Alignment explanation
Indices: 43549799--43549987 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
43549789 GAACACAAAC
43549799 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
43549863 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
43549920 AC
63 AT
43549922 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
43549986 AT
1 AT
43549988 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:43549900 original size:123 final size:123
Alignment explanation
Indices: 43549681--43550019 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
43549671 GGATATAATT
* * * * * * *
43549681 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
43549746 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
43549804 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
43549869 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
43549927 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
43549992 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
43550020 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:43554821 original size:40 final size:40
Alignment explanation
Indices: 43554766--43554973 Score: 314
Period size: 40 Copynumber: 5.2 Consensus size: 40
43554756 CGGATGATAA
* *
43554766 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
**
43554806 CCGGGCTAAACCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43554846 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43554886 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43554926 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
43554966 CC-GGCTAA
1 CCGGGCTAA
43554974 ATCTTGAAGG
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 8 0.05
40 146 0.94
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43566673 original size:37 final size:37
Alignment explanation
Indices: 43566623--43566697 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
43566613 GCATCAGAAC
43566623 ATAGCCCAAACCATTTAAAGATGTATCATTATAGATA
1 ATAGCCCAAACCATTTAAAGATGTATCATTATAGATA
43566660 ATAGCCCAAACCATTTAAAGATGTATCATTATAGATA
1 ATAGCCCAAACCATTTAAAGATGTATCATTATAGATA
43566697 A
1 A
43566698 CAAATTCTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (37 bp):
ATAGCCCAAACCATTTAAAGATGTATCATTATAGATA
Found at i:43590982 original size:14 final size:14
Alignment explanation
Indices: 43590963--43590992 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43590953 TTGGGACACA
*
43590963 CCCATGTCCCTTAC
1 CCCATGTACCTTAC
43590977 CCCATGTACCTTAC
1 CCCATGTACCTTAC
43590991 CC
1 CC
43590993 GTGTGGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.50, G:0.07, T:0.27
Consensus pattern (14 bp):
CCCATGTACCTTAC
Found at i:43591239 original size:85 final size:85
Alignment explanation
Indices: 43591096--43591277 Score: 364
Period size: 85 Copynumber: 2.1 Consensus size: 85
43591086 TATGGCTTAG
43591096 ACACGCCCGTGTTATCGCCCATGCTCAAAAACTTGAGCATTTTGTTTATGGCGTCATCATGCATT
1 ACACGCCCGTGTTATCGCCCATGCTCAAAAACTTGAGCATTTTGTTTATGGCGTCATCATGCATT
43591161 TAGGGAAACACAGCCAAGAC
66 TAGGGAAACACAGCCAAGAC
43591181 ACACGCCCGTGTTATCGCCCATGCTCAAAAACTTGAGCATTTTGTTTATGGCGTCATCATGCATT
1 ACACGCCCGTGTTATCGCCCATGCTCAAAAACTTGAGCATTTTGTTTATGGCGTCATCATGCATT
43591246 TAGGGAAACACAGCCAAGAC
66 TAGGGAAACACAGCCAAGAC
43591266 ACACGCCCGTGT
1 ACACGCCCGTGT
43591278 GCTAGGCCGT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (85 bp):
ACACGCCCGTGTTATCGCCCATGCTCAAAAACTTGAGCATTTTGTTTATGGCGTCATCATGCATT
TAGGGAAACACAGCCAAGAC
Found at i:43591854 original size:21 final size:20
Alignment explanation
Indices: 43591816--43591854 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43591806 ACTTTGATAT
* *
43591816 AGGGCACACGTCCTTGTGCA
1 AGGGCACACGCCCGTGTGCA
43591836 AGGGCAACACGCCCGTGTG
1 AGGGC-ACACGCCCGTGTG
43591855 GCCATTTCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGCA
Found at i:43593115 original size:46 final size:45
Alignment explanation
Indices: 43593058--43593229 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
43593048 TTACGTAGCC
*
43593058 GATGCATGTCCCAGACATGTATTACACTAGCTTACGTCTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-CGTCTTGAGGCT
* * ** * *
43593104 GATGCCTGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTCGTCTTGAGGCT
* * ** *
43593150 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCGTCTTGAGGCT
*
43593198 GATGCATGTCTCAGACATGTCTTACACTAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCT
43593230 CACACAAGTG
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
46 54 0.53
47 27 0.26
48 21 0.21
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCGTCTTGAGGCT
Done.