Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 106 of 344
Found at i:35702661 original size:22 final size:22
Alignment explanation
Indices: 35702596--35702665 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
35702586 TAAAACATAA
* *
35702596 AAACCATAATTTAATAAACACT
1 AAACCCTAATTTAATAAACCCT
* *
35702618 AAGCCCTAA-TT-A-AAACCAT
1 AAACCCTAATTTAATAAACCCT
35702637 AAACCCTAATTTAATAAACCCT
1 AAACCCTAATTTAATAAACCCT
35702659 AAACCCT
1 AAACCCT
35702666 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 3 0.08
22 20 0.51
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAATTTAATAAACCCT
Found at i:35703121 original size:19 final size:19
Alignment explanation
Indices: 35703097--35703142 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
35703087 GAAATTCCTC
35703097 TAATATATTAT-TATATACA
1 TAATATATTATGTATATA-A
35703116 TAATATATTATGTATATAA
1 TAATATATTATGTATATAA
35703135 TAATATAT
1 TAATATAT
35703143 AAATACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATATTATGTATATAA
Found at i:35703487 original size:41 final size:42
Alignment explanation
Indices: 35703439--35703517 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
35703429 TTCATCAACC
* *
35703439 AATTTTAAATGAGAT-AATATTGTTAACAATAAAAATACCAA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
* * *
35703480 AATTTTAAATTAAATCAATTTTATTAGCAATAAAAATA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATA
35703518 TTCAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (42 bp):
AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
Found at i:35707078 original size:6 final size:6
Alignment explanation
Indices: 35707068--35707100 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
35707058 TTTTTTTTTA
*
35707068 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
35707101 GCACAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35709989 original size:19 final size:19
Alignment explanation
Indices: 35709965--35710012 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
35709955 AAAAATTAGC
*
35709965 AAAAAATTACAGTAGGAGA
1 AAAAAATTACAGAAGGAGA
* * *
35709984 AAAAAAGTAGAGAAGGGGA
1 AAAAAATTACAGAAGGAGA
35710003 AAAACAATTA
1 AAAA-AATTA
35710013 AAAGAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.23, T:0.12
Consensus pattern (19 bp):
AAAAAATTACAGAAGGAGA
Found at i:35710626 original size:200 final size:201
Alignment explanation
Indices: 35710283--35710692 Score: 734
Period size: 200 Copynumber: 2.0 Consensus size: 201
35710273 CTTTTTTGCT
*
35710283 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAGAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
*
35710348 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGCCCAAAATGCATTGGC
66 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
35710413 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGA-CTTCATTTTTCATGAAGTACCCGTATCTGAC
131 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
35710477 ACACGG
196 ACACGG
35710483 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
35710548 GGCTTCACCACTTCAATCAAGCTAG-CTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
66 GGCTTCACCACTTCAATCAAGCT-GTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
* * *
35710612 CGCGAGGGCCCATTTAGAATCTATGTTGCTTAGACTCTTCATTTTTCATGAAGTGCCTGTATCTG
130 CGCGAGGGCCCATTTAAAATCTATGTTGCTTAGAC-CTTCATTTTTCATGAAGTACCCGTATCTG
35710677 ACACACGG
194 ACACACGG
*
35710685 ATATGTGG
1 ATAAGTGG
35710693 ATATGACCTC
Statistics
Matches: 201, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
200 158 0.79
201 1 0.00
202 42 0.21
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (201 bp):
ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
ACACGG
Found at i:35720538 original size:23 final size:24
Alignment explanation
Indices: 35720498--35720542 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
35720488 GAAATACTTG
35720498 AGGATTCAATAAGTAATTAAACTA
1 AGGATTCAATAAGTAATTAAACTA
35720522 AGGATCTCAA-AA-TAATTAAAC
1 AGGAT-TCAATAAGTAATTAAAC
35720543 CATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 7 0.35
25 4 0.20
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (24 bp):
AGGATTCAATAAGTAATTAAACTA
Found at i:35722908 original size:20 final size:20
Alignment explanation
Indices: 35722880--35722917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35722870 CTAGGAACTA
35722880 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
35722900 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
35722918 TATATGTTAC
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:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:35727184 original size:21 final size:21
Alignment explanation
Indices: 35727153--35727212 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
35727143 AATGTAAACA
35727153 AGGGC-ACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
35727173 AGGGCAACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
35727194 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCGTGTG
35727213 TCCTCTTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 5 0.13
21 34 0.87
ACGTcount: A:0.18, C:0.25, G:0.42, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGG
Found at i:35728504 original size:48 final size:48
Alignment explanation
Indices: 35728447--35728854 Score: 503
Period size: 48 Copynumber: 8.5 Consensus size: 48
35728437 CGTGTCTCAG
*
35728447 ACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* *
35728495 ACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
35728543 ATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * ** * * *
35728591 ACATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
35728639 ACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * *
35728687 ACATGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* **
35728734 ACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * * ** * *
35728782 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATTTCATGTCCCAT
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
*
35728830 ACATGGTCTTACATTGGCTCTCATA
1 ACATGGTCTTACACTGGCTCTCATA
35728855 ACCCTAGTAT
Statistics
Matches: 307, Mismatches: 52, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 40 0.13
48 267 0.87
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
Found at i:35728596 original size:96 final size:96
Alignment explanation
Indices: 35728433--35728854 Score: 585
Period size: 96 Copynumber: 4.4 Consensus size: 96
35728423 TAAGATGCTA
* * * * *
35728433 ATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
* * ** * *
35728498 TGGTCTTACACTAGCTCTCATATAAATGCCA
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* * * * *
35728529 ATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
*
35728594 TGGTCTTACATTGGCTCACATATCGAGGCCG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* * *
35728625 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
35728690 TGGTCTTACACTGGC-CACATATCGAGGCCG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* *
35728720 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
* *
35728785 TGGTCTTACACTGGCTCACATATTGAGGCTG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
** * *
35728816 ATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA
35728855 ACCCTAGTAT
Statistics
Matches: 290, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
95 90 0.31
96 200 0.69
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:35728802 original size:191 final size:192
Alignment explanation
Indices: 35728433--35728854 Score: 612
Period size: 191 Copynumber: 2.2 Consensus size: 192
35728423 TAAGATGCTA
* * * * * *
35728433 ATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
* * * *
35728498 TGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAATATGGTCTTACACTAGCTC
66 TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
* * * *
35728563 TCATATAAATGCCGATGCTATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCCG
131 TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
35728625 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
* ** * *
35728690 TGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
66 TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
* * *
35728754 TCATATAAATACTAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTG
131 TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
** *
35728816 ATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA
35728855 ACCCTAGTAT
Statistics
Matches: 205, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
191 132 0.64
192 73 0.36
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (192 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:35730263 original size:57 final size:57
Alignment explanation
Indices: 35730201--35730327 Score: 245
Period size: 57 Copynumber: 2.2 Consensus size: 57
35730191 ACAAATGCTC
35730201 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
1 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
*
35730258 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGATAAGTTTG
1 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
35730315 CTGTTGTGTTTAT
1 CTGTTGTGTTTAT
35730328 TGATGATATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (57 bp):
CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
Found at i:35734405 original size:27 final size:27
Alignment explanation
Indices: 35734375--35734552 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35734365 ATATTGAGTC
* * *
35734375 CGCACACTCAGTGCTATATAATCGACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35734402 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35734429 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
35734457 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35734484 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35734511 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35734538 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35734553 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35734514 original size:82 final size:81
Alignment explanation
Indices: 35734401--35734551 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
35734391 TATAATCGAC
* *
35734401 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
35734466 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* **
35734483 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
35734547 AGTGC
65 AGTGC
35734552 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:35735052 original size:12 final size:12
Alignment explanation
Indices: 35735035--35735060 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35735025 ATGGCATACT
35735035 TATGTATATATA
1 TATGTATATATA
35735047 TATGTATATATA
1 TATGTATATATA
35735059 TA
1 TA
35735061 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:35744310 original size:50 final size:49
Alignment explanation
Indices: 35744247--35744392 Score: 154
Period size: 50 Copynumber: 2.9 Consensus size: 49
35744237 TCTTTAGAAA
*
35744247 ATTGTCTCTATAGTCGCAACATTCCATTGA-TGAAGTCACGACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATTCC-TT-ATTGAAGTCACGACATCAAGCT
* * *
35744297 GTTGTCTCCATAGTCGCGACATTCCCCTATTGAAGCTGCA--ACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATT-CCTTATTGAAG-T-CACGACATCAAGCT
* * *
35744347 ACTGTCTCCATAGTTGCAACATTTCCTTATTGAACTCACGACATCA
1 ATTGTCTCCATAGTCGCAACA-TTCCTTATTGAAGTCACGACATCA
35744393 TGATATTGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
48 2 0.03
49 2 0.03
50 68 0.86
51 5 0.06
52 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (49 bp):
ATTGTCTCCATAGTCGCAACATTCCTTATTGAAGTCACGACATCAAGCT
Found at i:35745688 original size:17 final size:18
Alignment explanation
Indices: 35745666--35745700 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35745656 TTACATTGAA
35745666 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
35745683 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
35745701 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:35746792 original size:29 final size:29
Alignment explanation
Indices: 35746755--35746842 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 29
35746745 CCCAATCCCG
35746755 TTCATATGGCCCATCTGGCCTAGTTCATA
1 TTCATATGGCCCATCTGGCCTAGTTCATA
* * * *
35746784 TTCTTATGG-CCA-CTAGGCCCAATTCACA
1 TTCATATGGCCCATCT-GGCCTAGTTCATA
*
35746812 TTCATATGGCCCATTTGGCCTAAG-TCATA
1 TTCATATGGCCCATCTGGCCT-AGTTCATA
35746841 TT
1 TT
35746843 ATACTCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.04
28 21 0.46
29 21 0.46
30 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (29 bp):
TTCATATGGCCCATCTGGCCTAGTTCATA
Found at i:35746817 original size:57 final size:57
Alignment explanation
Indices: 35746731--35746842 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
35746721 CATACATGCA
* * *
35746731 TATGGCCCACTGGGCCCAATCCCGTTCATATGGCCCATCTGGCCT-AGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAG-TCATATTCT
*
35746788 TATGG-CCACTAGGCCCAATTCACATTCATATGGCCCATTTGGCCTAAGTCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATCTGGCCTAAGTCATATT
35746843 ATACTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 12 0.24
57 35 0.71
58 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAGTCATATTCT
Found at i:35754244 original size:15 final size:17
Alignment explanation
Indices: 35754214--35754245 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
35754204 GATTATGGGT
35754214 TGCATGCTACTGATTCA
1 TGCATGCTACTGATTCA
35754231 TGCATGC-A-TGATTCA
1 TGCATGCTACTGATTCA
35754246 ATAGTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (17 bp):
TGCATGCTACTGATTCA
Found at i:35757488 original size:16 final size:16
Alignment explanation
Indices: 35757467--35757498 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35757457 GGTGTAATGC
35757467 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
35757483 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
35757499 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:35761478 original size:30 final size:30
Alignment explanation
Indices: 35761436--35761492 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
35761426 ACTATAGATG
35761436 ATTAGACTTTTTGAATGGTTT-TTAATATGA
1 ATTAGACTTTTTG-ATGGTTTCTTAATATGA
*
35761466 ATTA-ACTGTTTTGATGTTTTCTTAATA
1 ATTAGACT-TTTTGATGGTTTCTTAATA
35761493 AGATCCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
ATTAGACTTTTTGATGGTTTCTTAATATGA
Found at i:35762534 original size:26 final size:25
Alignment explanation
Indices: 35762502--35762555 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
35762492 TCAGCAAATT
*
35762502 TTTGATGACTTTACCCTTGGTACAAA
1 TTTGATGACTTTACCCTTGATA-AAA
* *
35762528 TTTGATGATTTTGCCCTTGATAAAA
1 TTTGATGACTTTACCCTTGATAAAA
35762553 TTT
1 TTT
35762556 CAAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTGATGACTTTACCCTTGATAAAA
Found at i:35763796 original size:24 final size:24
Alignment explanation
Indices: 35763769--35763894 Score: 103
Period size: 24 Copynumber: 5.3 Consensus size: 24
35763759 CTATCCAGAC
* *
35763769 CTTCCCGATATAGTTTTTTGTGAA
1 CTTCCCGATATAGTTCTTTATGAA
* *
35763793 CTTCCCAATATGGTTCTTTATGAA
1 CTTCCCGATATAGTTCTTTATGAA
* * *
35763817 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGA-TATAGTTCTTTATGAA
* * *
35763841 CTTCCCGATA-GGCTCTTTATGAG
1 CTTCCCGATATAGTTCTTTATGAA
* * * *
35763864 CTTCCCAAAATAGTTCTGTGTGAA
1 CTTCCCGATATAGTTCTTTATGAA
35763888 CTTCCCG
1 CTTCCCG
35763895 TTACAAGGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 5 0.06
23 17 0.20
24 55 0.65
25 7 0.08
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (24 bp):
CTTCCCGATATAGTTCTTTATGAA
Found at i:35763864 original size:23 final size:24
Alignment explanation
Indices: 35763769--35763869 Score: 107
Period size: 24 Copynumber: 4.2 Consensus size: 24
35763759 CTATCCAGAC
* * * * *
35763769 CTTCCCGATATAGTTTTTTGTGAA
1 CTTCCCGATATGGCTCTTTATGAG
* * *
35763793 CTTCCCAATATGGTTCTTTATGAA
1 CTTCCCGATATGGCTCTTTATGAG
35763817 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGA-TATGGCTCTTTATGAG
35763841 CTTCCCGATA-GGCTCTTTATGAG
1 CTTCCCGATATGGCTCTTTATGAG
35763864 CTTCCC
1 CTTCCC
35763870 AAAATAGTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.07
23 15 0.22
24 41 0.60
25 7 0.10
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (24 bp):
CTTCCCGATATGGCTCTTTATGAG
Found at i:35763892 original size:47 final size:47
Alignment explanation
Indices: 35763769--35763894 Score: 119
Period size: 47 Copynumber: 2.6 Consensus size: 47
35763759 CTATCCAGAC
* * * *
35763769 CTTCCCGATATAGTTTTTTGTGAACTTCCCAATATGGTTCTTTATGAA
1 CTTCCCAATATAG-TTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
* * * * * *
35763817 CTTCCCGATTATGGCTCTTATGAGCTTCCCGATA-GGCTCTTTATGAG
1 CTTCCC-AATATAGTTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
*
35763864 CTTCCCAAAATAGTTCTGTGTGAACTTCCCG
1 CTTCCCAATATAGTTCT-TGTGAACTTCCCG
35763895 TTACAAGGCT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
46 7 0.12
47 28 0.47
48 21 0.35
49 4 0.07
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (47 bp):
CTTCCCAATATAGTTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
Found at i:35765314 original size:28 final size:29
Alignment explanation
Indices: 35765293--35765386 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
35765283 GCCCATTCAT
35765293 ATTCATATGGCCCATTAGGCCCAAATCAGC
1 ATTCATATGGCCCATTAGGCCCAAATCA-C
*
35765323 -TGT-ATATGGCCCATTAGACCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
35765351 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
35765379 ATTCATAT
1 ATTCATAT
35765387 TCATGCTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 14 0.25
29 41 0.73
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:35767036 original size:30 final size:30
Alignment explanation
Indices: 35767000--35767062 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
35766990 TCTTCTGTTA
* *
35767000 TTGTTAAGTTTGTTATTCTTTTAAAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
* *
35767030 TTGTTAATTTTGGTATTATTTTAGAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
35767060 TTG
1 TTG
35767063 CTTGTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAAGTTTGGTATTATTTTAAAGACAT
Found at i:35767216 original size:12 final size:12
Alignment explanation
Indices: 35767186--35767218 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
35767176 TTTATTTTGT
35767186 AAAATT-ATATA
1 AAAATTAATATA
35767197 AAAA-TAATATA
1 AAAATTAATATA
35767208 AAAATTAATAT
1 AAAATTAATAT
35767219 GGGCGGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:35769305 original size:28 final size:29
Alignment explanation
Indices: 35769216--35769340 Score: 164
Period size: 29 Copynumber: 4.4 Consensus size: 29
35769206 TGAAAGCATG
*
35769216 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
35769245 CGTATGAATGTGATTTGGGCCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* *
35769274 CATACGAATGTGATTT-GGTCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* * *
35769302 CATATGAATGAGA-TTGGGCCTAGTGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
35769330 CATATGCATGT
1 CATATGAATGT
35769341 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 2 0.02
28 40 0.48
29 41 0.49
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (29 bp):
CATATGAATGTGATTTGGGCCTAATGGGT
Found at i:35769310 original size:57 final size:57
Alignment explanation
Indices: 35769216--35769333 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
35769206 TGAAAGCATG
* * * *
35769216 CATATGAATGTGATTTGGGCCTAATGGGCCGTATGAATGTGATTTGGGCCTAATGGGT
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGA-TTGGGCCTAATGGGC
* * *
35769274 CATACGAATGTGATTT-GGTCTAATGGGTCATATGAATGAGATTGGGCCTAGTGGGC
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
35769330 CATA
1 CATA
35769334 TGCATGTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 17 0.32
57 21 0.40
58 15 0.28
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (57 bp):
CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
Found at i:35777740 original size:13 final size:13
Alignment explanation
Indices: 35777724--35777757 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
35777714 ATGATTTTTT
35777724 GAAAATTTCATTC
1 GAAAATTTCATTC
35777737 GAAAATTTCATTC
1 GAAAATTTCATTC
35777750 GAAAATTT
1 GAAAATTT
35777758 TGACGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (13 bp):
GAAAATTTCATTC
Found at i:35780902 original size:79 final size:80
Alignment explanation
Indices: 35780763--35780984 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 80
35780753 TATTCGAATG
* * * * ** *
35780763 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACTATATCCGGGTTAAGTTCCGAAGGC
35780828 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
35780844 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGC
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGC
35780907 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * *
35780923 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGGTTAAGTTCCGAAGG
35780985 TATGTGATTC
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
79 69 0.56
80 42 0.34
81 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:35780965 original size:40 final size:40
Alignment explanation
Indices: 35780763--35780970 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
35780753 TATTCGAATG
* * *
35780763 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
35780804 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
* *
35780844 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35780883 AAATCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35780923 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
35780963 ATATCCGG
1 ATATCCGG
35780971 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
39 36 0.25
40 78 0.55
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35802817 original size:13 final size:13
Alignment explanation
Indices: 35802785--35802819 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
35802775 CCAGGTCTTT
*
35802785 GGACACAGGTTCG
1 GGACACGGGTTCG
35802798 GGACACGGGTTCG
1 GGACACGGGTTCG
35802811 GGACACGGG
1 GGACACGGG
35802820 CGTGTCCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.46, T:0.11
Consensus pattern (13 bp):
GGACACGGGTTCG
Found at i:35806062 original size:14 final size:14
Alignment explanation
Indices: 35806043--35806070 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35806033 TTAAATATCA
35806043 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
35806057 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
35806071 ATATGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:35806237 original size:15 final size:15
Alignment explanation
Indices: 35806217--35806250 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35806207 AATGGTTTAT
35806217 GTTTTAGGATTGAGG
1 GTTTTAGGATTGAGG
* *
35806232 GTTTTAGGGTTTAGG
1 GTTTTAGGATTGAGG
35806247 GTTT
1 GTTT
35806251 AAGGGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (15 bp):
GTTTTAGGATTGAGG
Found at i:35806246 original size:7 final size:7
Alignment explanation
Indices: 35806106--35806257 Score: 81
Period size: 7 Copynumber: 21.3 Consensus size: 7
35806096 GAGTTACTAT
*
35806106 TTTAAGG
1 TTTAGGG
*
35806113 TTTATGG
1 TTTAGGG
* *
35806120 ATTATGG
1 TTTAGGG
35806127 TTTAAGGG
1 TTT-AGGG
*
35806135 -TTGGGG
1 TTTAGGG
*
35806141 TTTAAGG
1 TTTAGGG
35806148 TTTAGGG
1 TTTAGGG
*
35806155 GTTAGGG
1 TTTAGGG
*
35806162 GTTAGTGG
1 TTTAG-GG
* *
35806170 TTAAAGG
1 TTTAGGG
* *
35806177 TTAAAGG
1 TTTAGGG
*
35806184 TTAAGGG
1 TTTAGGG
*
35806191 TTAAGGG
1 TTTAGGG
35806198 TTTAGGG
1 TTTAGGG
* *
35806205 TTAATGG
1 TTTAGGG
* *
35806212 TTTATGT
1 TTTAGGG
*
35806219 TTTAGGA
1 TTTAGGG
*
35806226 TTGAGGG
1 TTTAGGG
35806233 TTTTAGGG
1 -TTTAGGG
35806241 TTTAGGG
1 TTTAGGG
35806248 TTTAAGGG
1 TTT-AGGG
35806256 TT
1 TT
35806258 AATTGATTAA
Statistics
Matches: 117, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.03
7 95 0.81
8 19 0.16
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:35810220 original size:43 final size:43
Alignment explanation
Indices: 35810144--35810290 Score: 206
Period size: 43 Copynumber: 3.4 Consensus size: 43
35810134 AAATATTTTT
* * *
35810144 TAAAGGTCAT-ATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* * *
35810186 TAAAGGTCATGGTCTTTAGCGGCTTTTGCCAGAAAAGCGCTGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* * *
35810229 TAAAAGTCATGGTCTTTAGCGGCGTTTGCGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
35810272 TAAAGGTCATGGTCTTTAG
1 TAAAGGTCATGGTCTTTAG
35810291 TAGCATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 10 0.11
43 81 0.89
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
Found at i:35817938 original size:40 final size:40
Alignment explanation
Indices: 35817874--35818205 Score: 411
Period size: 40 Copynumber: 8.3 Consensus size: 40
35817864 TCTTCGGAAT
* * * *
35817874 TTAG-CCGGATATAACCACACGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35817913 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
35817953 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35817993 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35818033 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
35818073 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * * *
35818113 TTAGCCCAGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
35818153 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
35818193 TTAGCCCGGATAT
1 TTAGCCCGGATAT
35818206 CATTCAAATG
Statistics
Matches: 261, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
39 7 0.03
40 246 0.94
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:35818091 original size:120 final size:120
Alignment explanation
Indices: 35817894--35818205 Score: 509
Period size: 120 Copynumber: 2.6 Consensus size: 120
35817884 ATAACCACAC
35817894 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
35817959 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACTA
35818014 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
35818079 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACTA
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACTA
* * * * * * * * * *
35818134 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
35818198 CCGGATAT
65 CCGGATAT
35818206 CATTCAAATG
Statistics
Matches: 180, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
120 177 0.98
121 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACTA
Found at i:35824020 original size:40 final size:40
Alignment explanation
Indices: 35823956--35824287 Score: 420
Period size: 40 Copynumber: 8.3 Consensus size: 40
35823946 TCTTCGGAAT
* * * *
35823956 TTAG-CCGGATATAACCACACGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35823995 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
35824035 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35824075 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
* * *
35824115 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
35824155 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
35824195 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
* * * *
35824235 TTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
35824275 TTAGCCCGGATAT
1 TTAGCCCGGATAT
35824288 CATTCAAATG
Statistics
Matches: 263, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
39 7 0.03
40 248 0.94
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
Found at i:35824173 original size:120 final size:120
Alignment explanation
Indices: 35823976--35824287 Score: 518
Period size: 120 Copynumber: 2.6 Consensus size: 120
35823966 ATAACCACAC
35823976 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
35824041 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
35824096 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
35824161 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
* * * * * * * * * *
35824216 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
35824280 CCGGATAT
65 CCGGATAT
35824288 CATTCAAATG
Statistics
Matches: 181, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 178 0.98
121 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
Found at i:35825195 original size:28 final size:28
Alignment explanation
Indices: 35825163--35825290 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
35825153 ATAGTAAGTC
*
35825163 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
35825191 CGCACACTTAGTGCTTACATAATTAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
35825220 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
35825248 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
35825277 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35825291 CAATCTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:35825227 original size:57 final size:57
Alignment explanation
Indices: 35825162--35825290 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 57
35825152 CATAGTAAGT
*
35825162 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATTAAAC
* * * *
35825219 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
35825276 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
35825291 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
Found at i:35831634 original size:40 final size:40
Alignment explanation
Indices: 35831577--35831740 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
35831567 TGGATGATAA
* *
35831577 CCGGGCTAAGTCTCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA-TAT
* *
35831617 CCGGGCAAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATAT
* ** *
35831657 CCGGGCTAAGTCCCGAAGGCATTCGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATAT
** * *
35831697 CCGGGCTATCTCCCGAAGGCATTCGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGA-CTATAT
35831737 CCGG
1 CCGG
35831741 TTATGTGACA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.02
40 108 0.98
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATAT
Found at i:35834191 original size:47 final size:47
Alignment explanation
Indices: 35834139--35834341 Score: 325
Period size: 47 Copynumber: 4.3 Consensus size: 47
35834129 CAAGTATATA
* * *
35834139 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
35834186 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
35834233 TATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
35834280 TATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
35834327 TATAAATGTGATAAG
1 TATATATGTGATAAG
35834342 TCCCGAAGGG
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:35836831 original size:38 final size:38
Alignment explanation
Indices: 35836767--35836841 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
35836757 AATCCGAGTT
*
35836767 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
35836805 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
35836842 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:35836931 original size:23 final size:23
Alignment explanation
Indices: 35836899--35836963 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 23
35836889 CTCGACGATG
35836899 ATCCGGGCTAAGTCCCGAAGAGC
1 ATCCGGGCTAAGTCCCGAAGAGC
* * *
35836922 ATCCGTGCT-AGT---G-A-TGT
1 ATCCGGGCTAAGTCCCGAAGAGC
35836939 ATCCGGGCTAAGTCCCGAAGAGC
1 ATCCGGGCTAAGTCCCGAAGAGC
35836962 AT
1 AT
35836964 TCGTGCTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 9 0.30
18 4 0.13
19 1 0.03
21 1 0.03
22 4 0.13
23 11 0.37
ACGTcount: A:0.25, C:0.26, G:0.29, T:0.20
Consensus pattern (23 bp):
ATCCGGGCTAAGTCCCGAAGAGC
Found at i:35837212 original size:40 final size:40
Alignment explanation
Indices: 35836895--35837200 Score: 483
Period size: 40 Copynumber: 7.7 Consensus size: 40
35836885 AGGTCTCGAC
*
35836895 GATG-ATCCGGGCTAAGTCCCGAAGAGCATCCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
35836934 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
35836974 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35837013 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
35837052 GATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35837092 GATGTATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* ** *
35837132 GATATATCCGGGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
35837172 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
35837201 ATCATGCTGG
Statistics
Matches: 249, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 81 0.33
40 168 0.67
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:35840629 original size:47 final size:47
Alignment explanation
Indices: 35840573--35840822 Score: 383
Period size: 47 Copynumber: 5.3 Consensus size: 47
35840563 TACAAGTATA
* * *
35840573 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
35840620 TATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
35840667 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
35840714 TATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
35840761 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
35840808 TATAAATGTGATAAG
1 TATATATGTGATAAG
35840823 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:35847559 original size:13 final size:14
Alignment explanation
Indices: 35847534--35847572 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
35847524 TTATTTTACT
35847534 GAAAATAACTTTCAA
1 GAAAATAA-TTTCAA
35847549 -AAAATAATTTCAA
1 GAAAATAATTTCAA
35847562 GAAAATAATTT
1 GAAAATAATTT
35847573 ACTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (14 bp):
GAAAATAATTTCAA
Found at i:35847924 original size:22 final size:23
Alignment explanation
Indices: 35847898--35847940 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
35847888 GACTTAATTT
35847898 TTAAATT-TTAAAAATAAAAAAA
1 TTAAATTCTTAAAAATAAAAAAA
35847920 TTAAATTCTTAAAAATAAAAA
1 TTAAATTCTTAAAAATAAAAA
35847941 TACAAAGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAATTCTTAAAAATAAAAAAA
Found at i:35848162 original size:22 final size:22
Alignment explanation
Indices: 35848118--35848177 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
35848108 TTAAAATAAA
* *
35848118 ATTAAAATATTAA-ATA-ATTT
1 ATTAAAATAATAATTTATATTT
35848138 ATTAAAATAATAATTTATATTT
1 ATTAAAATAATAATTTATATTT
* *
35848160 ATTATATTAATAATTTAT
1 ATTAAAATAATAATTTAT
35848178 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.35
21 2 0.06
22 20 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAAAATAATAATTTATATTT
Found at i:35852737 original size:11 final size:11
Alignment explanation
Indices: 35852723--35852767 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
35852713 ATATATAATT
35852723 TTTTTAAAATA
1 TTTTTAAAATA
35852734 TTTTTAAAATAA
1 TTTTTAAAAT-A
35852746 TTTTTATAAA-A
1 TTTTTA-AAATA
35852757 -TTTTAAAATA
1 TTTTTAAAATA
35852767 T
1 T
35852768 ATAATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.10
10 6 0.20
11 11 0.37
12 7 0.23
13 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:35852755 original size:14 final size:13
Alignment explanation
Indices: 35852717--35852757 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
35852707 TATGATATAT
35852717 ATAATTTTTTTAAA
1 ATAA-TTTTTTAAA
35852731 AT-A-TTTTTAAA
1 ATAATTTTTTAAA
35852742 ATAATTTTTATAAA
1 ATAATTTTT-TAAA
35852756 AT
1 AT
35852758 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 1 0.04
13 5 0.21
14 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATTTTTTAAA
Found at i:35852784 original size:21 final size:22
Alignment explanation
Indices: 35852735--35852786 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
35852725 TTTAAAATAT
**
35852735 TTTTAAAATAATTTTTATAAAA
1 TTTTAAAATAATAATTATAAAA
35852757 TTTTAAAATATATAATTAT-AAA
1 TTTTAAAATA-ATAATTATAAAA
*
35852779 TTTAAAAA
1 TTTTAAAA
35852787 ATTCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTTAAAATAATAATTATAAAA
Found at i:35853643 original size:13 final size:13
Alignment explanation
Indices: 35853625--35853658 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35853615 CCGTGCCCTT
*
35853625 CACACGGTTGAGA
1 CACACGGTTAAGA
*
35853638 CACACGGCTAAGA
1 CACACGGTTAAGA
35853651 CACACGGT
1 CACACGGT
35853659 CGTGTCTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.26, T:0.12
Consensus pattern (13 bp):
CACACGGTTAAGA
Found at i:35856824 original size:40 final size:40
Alignment explanation
Indices: 35856746--35856966 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
35856736 ACCCAAGTAT
* *
35856746 CTTCGGGATTTAG-CTGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* **
35856785 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35856825 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35856865 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * *
35856908 CTTCGGAACTTAGCCCGGATATAGTAACTTGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35856948 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
35856967 ACATACAAAG
Statistics
Matches: 155, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 13 0.08
40 107 0.69
41 1 0.01
43 34 0.22
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35856944 original size:83 final size:80
Alignment explanation
Indices: 35856761--35856966 Score: 254
Period size: 83 Copynumber: 2.5 Consensus size: 80
35856751 GGATTTAGCT
* * **
35856761 GGATATAGCAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 GGATATAGTAACT-AGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35856825 CTTTGGGACTTAGCCC
65 CTTCGGAACTTAGCCC
* * *
35856841 GGATATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAA
1 GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAA
35856905 TGCCTTCGGAACTTAGCCC
62 TGCCTTCGGAACTTAGCCC
* *
35856924 GGATATAGTAACTTGTACAAATGCCTTCGGGACTTAGCCCGGA
1 GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
35856967 ACATACAAAG
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 2 0.02
80 45 0.42
83 60 0.56
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCC
TTCGGAACTTAGCCC
Found at i:35858023 original size:16 final size:16
Alignment explanation
Indices: 35858002--35858036 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35857992 GCACTTTGAC
35858002 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
35858018 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
35858034 TAA
1 TAA
35858037 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:35863391 original size:17 final size:18
Alignment explanation
Indices: 35863357--35863402 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
35863347 CCGTTATGTC
35863357 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
35863372 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
35863389 CGCGACCGCGACCG
1 CGCGACCGCGACCG
35863403 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:35870558 original size:20 final size:20
Alignment explanation
Indices: 35870533--35870571 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
35870523 ATTATGTTAA
35870533 ACAACTTGTGCTACTCGGTG
1 ACAACTTGTGCTACTCGGTG
35870553 ACAACTTGTGCTACTCGGT
1 ACAACTTGTGCTACTCGGT
35870572 TTTGAGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.31
Consensus pattern (20 bp):
ACAACTTGTGCTACTCGGTG
Found at i:35876976 original size:74 final size:74
Alignment explanation
Indices: 35876876--35877035 Score: 257
Period size: 74 Copynumber: 2.2 Consensus size: 74
35876866 AGGAGGGGTA
* * *
35876876 ACACACCCGTGTGACCATTCCAACATGGTCGTGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
1 ACACGCCCGTGTGACCATTCCAACATGGCCATGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
35876941 AAAACAGGG
66 AAAACAGGG
* * * *
35876950 ACACGCCCGTGTGACCATTCTAACATGGCCATGCTAATGGCCCGTGTGTTTTACACGGCCTAAGC
1 ACACGCCCGTGTGACCATTCCAACATGGCCATGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
35877015 AAAACAGGG
66 AAAACAGGG
35877024 ACACGCCCGTGT
1 ACACGCCCGTGT
35877036 CCTCCACCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (74 bp):
ACACGCCCGTGTGACCATTCCAACATGGCCATGCTAATGGCCCATGTGTCTCACACGGCCTAAGC
AAAACAGGG
Found at i:35877305 original size:20 final size:20
Alignment explanation
Indices: 35877280--35877322 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
35877270 GCCGTGTCTC
35877280 TGCCCGTGTGTTTACTATCA
1 TGCCCGTGTGTTTACTATCA
35877300 TGCCCGTGTGTTTACTATCA
1 TGCCCGTGTGTTTACTATCA
35877320 TGC
1 TGC
35877323 TGGACAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.40
Consensus pattern (20 bp):
TGCCCGTGTGTTTACTATCA
Found at i:35878231 original size:46 final size:46
Alignment explanation
Indices: 35878181--35878301 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
35878171 CGTACCAACG
* *
35878181 CATGTCCTAGACATGTCTTACACTGGC-TTACGTCTCAAGGCCGATA
1 CATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAGGCCGATA
* * * *
35878227 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGTCGATG
1 CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATA
35878273 CTATGTCCTAGACATGATCTTACACTAGC
1 C-ATGTCCTAGACATG-TCTTACACTAGC
35878302 TCTCACAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 39 0.60
47 14 0.22
48 12 0.18
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATA
Found at i:35881530 original size:63 final size:63
Alignment explanation
Indices: 35881418--35881588 Score: 171
Period size: 63 Copynumber: 2.7 Consensus size: 63
35881408 GCAAGCCATG
* * * * * * * *
35881418 TAACTCACTGTTTTAGTTTTAGGGTTACACGGGCTAGGGAAATAGGCGTGTGTACAGGCCGTC
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
* * * * *
35881481 TAACTCACTATTTTGGCTTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATCCAGTCCGTG
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
* * * * * *
35881544 TAATTCAATGTTTTGGATTTAGAGTCATACAGACTAGAGATACAA
1 TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAA
35881589 CTATGTGTCC
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
63 88 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (63 bp):
TAACTCACTGTTTTGGATTTAGGGTCACACAGGCTAGGGATACAAGCGTGTATACAGGCCGTC
Found at i:35882984 original size:16 final size:16
Alignment explanation
Indices: 35882965--35882995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35882955 CTTCTTCACT
35882965 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
35882981 TACTTACTTACTTAA
1 TACTCACTTACTTAA
35882996 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:35883001 original size:20 final size:20
Alignment explanation
Indices: 35882962--35883001 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35882952 AAACTTCTTC
* *
35882962 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
35882982 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
35883002 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:35883389 original size:55 final size:54
Alignment explanation
Indices: 35883187--35883441 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
35883177 ACACAGGTAC
* * * * * *
35883187 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * *
35883236 CTTACCATTGCCATGTCTTGACATGGTTTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
* * * * *
35883289 CTCACCAATGCCATGCCCT-AGCATGGCCTTACATGGGATCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTGCCTTATAG-AA
* * * * * *
35883344 CTTATCAAAGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
*
35883397 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
35883442 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
49 38 0.23
52 3 0.02
53 44 0.27
54 8 0.05
55 70 0.43
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA
Found at i:35898679 original size:69 final size:70
Alignment explanation
Indices: 35898547--35898679 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
35898537 TAGTTTATTA
* * * * *
35898547 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
35898612 CTTAG
66 CTTAG
35898617 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
35898680 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:35900521 original size:38 final size:38
Alignment explanation
Indices: 35900476--35900552 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
35900466 ATATGTGGTA
35900476 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
*
35900514 AAGCCGAATGGCTAATGTGAAATATGTATGGGATATGT
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
35900552 A
1 A
35900553 TATGTGGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (38 bp):
AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
Found at i:35900613 original size:50 final size:48
Alignment explanation
Indices: 35900514--35900687 Score: 258
Period size: 48 Copynumber: 3.6 Consensus size: 48
35900504 TGAGATATGT
*
35900514 AAGCCGAATGGCTAATGTGAAATATGTATGGGATATGTATATGTGGTA
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
* *
35900562 AAGCTGAATGGCTAATGTGAAATACATATATGAGATATGTATATGTGGTA
1 AAGCCGAATGGCTAATGTGAAAT--ATGTATGAGATATGTATATGTGGTA
* *
35900612 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATACGTATATGTGGTA
1 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
* * *
35900660 AAGCCGAAGGGCTACTGTGAAGTATGTA
1 AAGCCGAATGGCTAATGTGAAATATGTA
35900688 GGAGGTGTGG
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 70 0.61
50 44 0.39
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
Found at i:35900873 original size:37 final size:37
Alignment explanation
Indices: 35900823--35900920 Score: 153
Period size: 37 Copynumber: 2.6 Consensus size: 37
35900813 ACATGAAACT
35900823 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
*
35900860 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
* *
35900897 TGGAGAT-TTTGTCCGGGTAAGACC
1 TGGAAATATAT-TCCGGGTAAGACC
35900921 TGATAACTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.04
37 55 0.96
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (37 bp):
TGGAAATATATTCCGGGTAAGACCCAATGACTACGTG
Found at i:35900938 original size:37 final size:37
Alignment explanation
Indices: 35900834--35900942 Score: 121
Period size: 37 Copynumber: 2.9 Consensus size: 37
35900824 GGAAATATAT
* * * * *
35900834 TCCGGGTAAGACCCAATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATAACTACGTATGGAGAT-TTTG
* *
35900871 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTATGGAGATTTTG
* *
35900908 TCCGGGTAAGACCTGATAACTTCGTATGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTATGGAGATTT
35900943 CATCTGAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
36 2 0.03
37 62 0.97
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTATGGAGATTTTG
Found at i:35902263 original size:40 final size:40
Alignment explanation
Indices: 35902206--35902437 Score: 353
Period size: 40 Copynumber: 5.8 Consensus size: 40
35902196 AGTTAGATAC
*
35902206 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
* * *
35902246 CCGGGCTAAGTCCCGAAGAGCATTTGAGTTGGTGTTATAT
1 CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
* * *
35902286 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
*
35902326 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTTATAT
1 CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
*
35902366 CCGGGCTAGGTCTCGAAGAGCATTCGAGCTGGTGTTAT-T
1 CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
35902405 -CGGGCTAAGTCTCGAAGAGCATTC-ATGCTGGTG
1 CCGGGCTAAGTCTCGAAGAGCATTCGA-GCTGGTG
35902438 ATGTGTATTC
Statistics
Matches: 174, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 30 0.17
39 1 0.01
40 142 0.82
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGAGCATTCGAGCTGGTGTTATAT
Found at i:35904862 original size:69 final size:70
Alignment explanation
Indices: 35904730--35904862 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
35904720 TAGTTTATTA
* * * * *
35904730 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
35904795 CTTAG
66 CTTAG
35904800 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
35904863 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:35906716 original size:36 final size:37
Alignment explanation
Indices: 35906655--35906728 Score: 125
Period size: 36 Copynumber: 2.0 Consensus size: 37
35906645 ATATGTGGTA
35906655 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGT
1 AAGCCGAATGGCTAATGTGAAATATGTATG-GATATGT
35906693 AAGCC-AATGGCT-ATGTGAAATATGTATGGATATGT
1 AAGCCGAATGGCTAATGTGAAATATGTATGGATATGT
35906728 A
1 A
35906729 TATGTGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 8 0.22
36 16 0.44
37 7 0.19
38 5 0.14
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (37 bp):
AAGCCGAATGGCTAATGTGAAATATGTATGGATATGT
Found at i:35906757 original size:45 final size:42
Alignment explanation
Indices: 35906638--35906805 Score: 181
Period size: 45 Copynumber: 4.0 Consensus size: 42
35906628 ACAAGATAAA
35906638 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 GATATGTATA--TGGT-AAG-CGAATGGCTAATGTGAAATATGTAT
*
35906684 G--A-G-ATAT-GTAAGCCAATGGCT-ATGTGAAATATGTAT
1 GATATGTATATGGTAAGCGAATGGCTAATGTGAAATATGTAT
*
35906720 GGATATGTATATGTGTAAAGCGAATGGCTAATGTGAAATAATATAT
1 -GATATGTATATG-GT-AAGCGAATGGCTAATGTGAAAT-ATGTAT
*
35906766 GATATGTATATGGTAAGCGAAT-G-TAGTGTGAAATATGTAT
1 GATATGTATATGGTAAGCGAATGGCTAATGTGAAATATGTAT
35906806 AATACGATAT
Statistics
Matches: 107, Mismatches: 5, Indels: 26
0.78 0.04 0.19
Matches are distributed among these distances:
36 15 0.14
37 9 0.08
38 3 0.03
39 3 0.03
40 7 0.07
41 14 0.13
42 4 0.04
43 11 0.10
44 14 0.13
45 21 0.20
46 6 0.06
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (42 bp):
GATATGTATATGGTAAGCGAATGGCTAATGTGAAATATGTAT
Found at i:35906821 original size:41 final size:43
Alignment explanation
Indices: 35906638--35906822 Score: 176
Period size: 41 Copynumber: 4.4 Consensus size: 43
35906628 ACAAGATAAA
35906638 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 GATATG-ATATGTGGT-AAG-CGAATGGCTAATGTGAAATATGTAT
*
35906684 G--A-GATA--T-GTAAGCCAATGGCT-ATGTGAAATATGTAT
1 GATATGATATGTGGTAAGCGAATGGCTAATGTGAAATATGTAT
*
35906720 GGATATGTATATGT-GTAAAGCGAATGGCTAATGTGAAATAATATAT
1 -GATATG-ATATGTGGT-AAGCGAATGGCTAATGTGAAAT-ATGTAT
* *
35906766 GATATG-TATATGGTAAGCGAAT-G-TAGTGTGAAATATGTAT
1 GATATGATATGTGGTAAGCGAATGGCTAATGTGAAATATGTAT
* *
35906806 AATACGATATGTGGTAA
1 GATATGATATGTGGTAA
35906823 AGTACTGTGA
Statistics
Matches: 118, Mismatches: 9, Indels: 29
0.76 0.06 0.19
Matches are distributed among these distances:
36 15 0.13
37 9 0.08
38 3 0.03
39 3 0.03
40 11 0.09
41 22 0.19
42 4 0.03
43 16 0.14
44 14 0.12
45 15 0.13
46 6 0.05
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (43 bp):
GATATGATATGTGGTAAGCGAATGGCTAATGTGAAATATGTAT
Found at i:35924096 original size:40 final size:40
Alignment explanation
Indices: 35924041--35924264 Score: 263
Period size: 40 Copynumber: 5.5 Consensus size: 40
35924031 TATTCGGATG
35924041 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
35924081 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
35924124 ATA-CCTGGGCTAAGTACCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
35924164 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
35924204 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
35924244 ATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35924265 ATATTTGGGT
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 11 0.07
40 109 0.69
41 3 0.02
42 2 0.01
43 33 0.21
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:35924186 original size:83 final size:80
Alignment explanation
Indices: 35924041--35924264 Score: 276
Period size: 83 Copynumber: 2.8 Consensus size: 80
35924031 TATTCGGATG
* *
35924041 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
* *
35924106 TTTGTACGAGTAGTTG-CT
66 -TT-CACG-CTAG-TGACT
*
35924124 ATA-CCTGGGCTAAGTACCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCC-GGGCTAAGTACCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGC
*
35924188 ATTCATGCTAGTGACT
65 ATTCACGCTAGTGACT
* * * *
35924204 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCGAGTTG-CTATATCC-AGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
35924265 ATATTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
79 15 0.12
80 43 0.34
81 6 0.05
82 4 0.03
83 59 0.46
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTACCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTCACGCTAGTGACT
Found at i:35932073 original size:40 final size:40
Alignment explanation
Indices: 35932011--35932218 Score: 263
Period size: 40 Copynumber: 5.1 Consensus size: 40
35932001 TATTCGGATG
*
35932011 ATATCCGGGCTAAGGCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** *
35932051 ATATCCGGGCTAAGTCTTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
35932094 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
35932134 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
35932174 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
35932214 ATATC
1 ATATC
35932219 TGGCTAAATC
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 110 0.75
41 1 0.01
43 35 0.24
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:35932156 original size:83 final size:80
Alignment explanation
Indices: 35932015--35932218 Score: 259
Period size: 83 Copynumber: 2.5 Consensus size: 80
35932005 CGGATGATAT
* * ** **
35932015 CCGGGCTAAGGCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCTTGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
35932080 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
35932098 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
35932163 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
35932178 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGACTATATC
35932219 TGGCTAAATC
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
79 2 0.02
80 44 0.40
81 2 0.02
83 61 0.56
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:35934896 original size:16 final size:16
Alignment explanation
Indices: 35934875--35934906 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35934865 GGATACTCAC
35934875 ATACAACAGGTACTGA
1 ATACAACAGGTACTGA
35934891 ATACAACAGGTACTGA
1 ATACAACAGGTACTGA
35934907 TTCAATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
ATACAACAGGTACTGA
Found at i:35952008 original size:25 final size:25
Alignment explanation
Indices: 35951973--35952046 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
35951963 TCACAGTTCG
35951973 TGAGAGCTTACCAATTCTCAACTCA
1 TGAGAGCTTACCAATTCTCAACTCA
* *
35951998 T-ATGAGTTTACCGATT-TACAACTCA
1 TGA-GAGCTTACCAATTCT-CAACTCA
* *
35952023 TGAGAGCATACCAATTCACAACTC
1 TGAGAGCTTACCAATTCTCAACTC
35952047 GTGTAAGCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (25 bp):
TGAGAGCTTACCAATTCTCAACTCA
Found at i:35954870 original size:27 final size:25
Alignment explanation
Indices: 35954818--35954868 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35954808 AATTCAAGTG
35954818 TGTGAAAAATAATGACCCAATGCTC
1 TGTGAAAAATAATGACCCAATGCTC
35954843 TGTGAAAAATAATGACCCAATGCTC
1 TGTGAAAAATAATGACCCAATGCTC
35954868 T
1 T
35954869 CTTTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (25 bp):
TGTGAAAAATAATGACCCAATGCTC
Found at i:35957023 original size:40 final size:40
Alignment explanation
Indices: 35956968--35957070 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
35956958 GATTCGGATA
35956968 TATATATGGCACTTAGTGTGCGATTC-GAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGGA-ATAGCTTCGGC
* * * *
35957008 TATATGTGGCCCTTAGTGTGCAATTCGGAATAGCTTGGGC
1 TATATATGGCACTTAGTGTGCGATTCGGAATAGCTTCGGC
35957048 TATATATGGCACTTAGTGTGCGA
1 TATATATGGCACTTAGTGTGCGA
35957071 GGCCATGATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGGAATAGCTTCGGC
Found at i:35957133 original size:41 final size:41
Alignment explanation
Indices: 35957036--35957135 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 41
35957026 TGCAATTCGG
* * * * *
35957036 AATAGCTTGGGCTATATATGGCACTTAGTGTGCGAGGCCAT
1 AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
* * * * **
35957077 GATAACTTCGACTATGTAAGGCACTTAGTGTGCAAGATTAT
1 AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
35957118 AATAGCTTAGGCTATGTA
1 AATAGCTTAGGCTATGTA
35957136 TTAGCACTTA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
AATAGCTTAGGCTATGTAAGGCACTTAGTGTGCAAGACCAT
Found at i:35962761 original size:6 final size:6
Alignment explanation
Indices: 35962743--35962824 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
35962733 AAGAAACATT
*
35962743 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
35962792 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
35962825 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 4 0.06
6 49 0.79
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:35962764 original size:18 final size:18
Alignment explanation
Indices: 35962743--35962824 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
35962733 AAGAAACATT
35962743 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
35962761 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* *
35962778 GTGACAGAATCAGAATCAGT
1 AT--CAGAATCAGAATCAGA
*
35962798 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATCAGA
35962817 ATCAGAAT
1 ATCAGAAT
35962825 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 3 0.06
18 18 0.34
19 29 0.55
20 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:35962788 original size:25 final size:25
Alignment explanation
Indices: 35962757--35962824 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
35962747 GAACTAGAAT
*
35962757 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
35962782 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
35962807 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
35962825 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:35965582 original size:47 final size:47
Alignment explanation
Indices: 35965525--35965826 Score: 442
Period size: 47 Copynumber: 6.4 Consensus size: 47
35965515 ATTGATGTAC
* * *
35965525 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
35965572 AAGTATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
35965619 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
35965666 AAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
35965713 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
35965760 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
35965807 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
35965827 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 238 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:35968319 original size:37 final size:38
Alignment explanation
Indices: 35968251--35968324 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
35968241 AATCCGAGTT
*
35968251 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
*
35968289 TAAAGACCCGATGGCTAT-T-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
35968325 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 1 0.03
37 16 0.48
38 16 0.48
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:35968437 original size:40 final size:40
Alignment explanation
Indices: 35968378--35968639 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
35968368 AGGTCTCGAC
35968378 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35968417 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35968457 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
35968497 GATATATCCGGGCTAAGTCCC-AAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
35968536 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
35968576 GATATATCCGTGCTAAACCCCGAAGAGCATTC-TGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
35968615 GTTATATCCGGGCTAGGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAG
35968640 GCAATCATGC
Statistics
Matches: 199, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 65 0.33
40 134 0.67
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:35968561 original size:79 final size:80
Alignment explanation
Indices: 35968378--35968639 Score: 404
Period size: 79 Copynumber: 3.3 Consensus size: 80
35968368 AGGTCTCGAC
* *
35968378 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
35968442 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
35968457 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC-AAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
35968521 AGCATTCATGCTAGT
66 AGCATTCATGCTAGT
* * **
35968536 GATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAG
1 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
*
35968601 AGCATTC-TGCTGGT
66 AGCATTCATGCTAGT
* * * *
35968615 GTTATATCCGGGCTAGGTCCCGAAG
1 GATGTATCCGGGCTAAGTTCCGAAG
35968640 GCAATCATGC
Statistics
Matches: 169, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
79 105 0.62
80 64 0.38
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGT
Found at i:35968599 original size:119 final size:119
Alignment explanation
Indices: 35968382--35968655 Score: 399
Period size: 119 Copynumber: 2.3 Consensus size: 119
35968372 CTCGACGATG
*
35968382 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
* ***
35968447 TCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
66 TCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTC-TGCTAGTGATAT
* *
35968502 ATCCGGGCTAAGTCCC-AAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCTGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
* * * *
35968566 TCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCTGCTGGTGTTAT
66 TCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCTGCTAGTGATAT
* * *
35968620 ATCCGGGCTAGGTCCCGAAG-GCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
35968656 CGTGTATTCG
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
118 39 0.28
119 84 0.60
120 16 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCTGCTAGTGATAT
Found at i:35972061 original size:47 final size:47
Alignment explanation
Indices: 35972004--35972307 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
35971994 ATTGATGTAC
* * *
35972004 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
35972051 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
35972100 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
35972147 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
35972194 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
35972241 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
35972288 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
35972308 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:35974638 original size:27 final size:27
Alignment explanation
Indices: 35974608--35975000 Score: 525
Period size: 27 Copynumber: 14.6 Consensus size: 27
35974598 AGGGCAAAAT
* * * *
35974608 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35974635 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35974662 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35974689 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35974716 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
35974743 GGTATTTCTACCCTACAAGGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
35974770 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
35974797 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
35974824 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
35974851 GGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35974878 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
35974905 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35974932 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
35974959 AATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
35974986 GGTAATTTTACCCTA
1 GGTAATTCTACCCTA
35975001 TTCTACCCTA
Statistics
Matches: 324, Mismatches: 42, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 324 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:35974674 original size:54 final size:54
Alignment explanation
Indices: 35974608--35975245 Score: 808
Period size: 54 Copynumber: 11.6 Consensus size: 54
35974598 AGGGCAAAAT
* * * *
35974608 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
35974662 AGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
35974716 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** *
35974770 GATAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** * **
35974824 AATAATTCTACCCTATAGGGGTATTTCGGTAATTCTATTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
35974878 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* ** *
35974932 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
35974986 GGTAATTTTACCCTATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGAGGTATTTC
1 GG------TA----ATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
35975050 GGTAATTCTACCCTATACGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
35975104 GGTAATTCTACCCTATATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
35975158 GATAATTCTACCCTACAGGGGTATTTCGATAATTCTATCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
35975212 GGTAATTCTACCCGACAGGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATT
35975246 TTGTAAAGCG
Statistics
Matches: 513, Mismatches: 61, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
54 463 0.90
58 2 0.00
60 2 0.00
64 46 0.09
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:35974752 original size:81 final size:81
Alignment explanation
Indices: 35974608--35975245 Score: 810
Period size: 81 Copynumber: 7.8 Consensus size: 81
35974598 AGGGCAAAAT
* * * * * *
35974608 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
35974673 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
* * *
35974689 AGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
* * *
35974754 CCTACAAGGGTATATA
66 CCTACAGGGGTATTTC
* * * * **
35974770 GATAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
35974835 CCTATAGGGGTATTTC
66 CCTACAGGGGTATTTC
**
35974851 GGTAATTCTATTCTACAGGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
35974915 CCCTACAGGGGTATTTC
65 CCCTACAGGGGTATTTC
* * *
35974932 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGATATTTCGGTAATTTTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGG------TA-
35974997 CCTATTCTACCCTACAGGGGTATTTC
59 ---ATTCTACCCTACAGGGGTATTTC
* * * * * *
35975023 GGTAATTTTACCCTACAGAGGTATTTCGGTAATTCTACCCTATACGGGTATTTCGGTATTTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
35975088 CCTACAAGGGTATTTC
66 CCTACAGGGGTATTTC
* * *
35975104 GGTAATTCTACCCTATATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
35975169 CCTACAGGGGTATTTC
66 CCTACAGGGGTATTTC
* * * * *
35975185 GATAATTCTATCCTACAGGGGTATTCCGGTAATTCTACCCGACAGGGGTATTTCGGTAATT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
35975246 TTGTAAAGCG
Statistics
Matches: 479, Mismatches: 66, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
81 404 0.84
85 2 0.00
87 2 0.00
91 71 0.15
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAGGGGTATTTC
Found at i:35975013 original size:37 final size:37
Alignment explanation
Indices: 35974963--35975037 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
35974953 TATTTCAATA
35974963 ATTCTACCCTACAGGGATATTTCGGTAATTTTACCCT
1 ATTCTACCCTACAGGGATATTTCGGTAATTTTACCCT
*
35975000 ATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCT
1 ATTCTACCCTACAGGGATATTTCGGTAATTTTACCCT
35975037 A
1 A
35975038 CAGAGGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (37 bp):
ATTCTACCCTACAGGGATATTTCGGTAATTTTACCCT
Found at i:35975034 original size:27 final size:27
Alignment explanation
Indices: 35975000--35975245 Score: 366
Period size: 27 Copynumber: 9.1 Consensus size: 27
35974990 ATTTTACCCT
35975000 ATTCTACCCTACAGGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
35975027 ATTTTACCCTACAGAGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
35975054 ATTCTACCCTATACGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
35975081 TTTCTACCCTACAAGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* * *
35975108 ATTCTACCCTATATGGGTATTTCAGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
35975135 ATTCTACCCTACAGGGGTATTTCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
35975162 ATTCTACCCTACAGGGGTATTTCGATA
1 ATTCTACCCTACAGGGGTATTTCGGTA
* *
35975189 ATTCTATCCTACAGGGGTATTCCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
*
35975216 ATTCTACCCGACAGGGGTATTTCGGTA
1 ATTCTACCCTACAGGGGTATTTCGGTA
35975243 ATT
1 ATT
35975246 TTGTAAAGCG
Statistics
Matches: 196, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
ATTCTACCCTACAGGGGTATTTCGGTA
Found at i:35975371 original size:27 final size:27
Alignment explanation
Indices: 35975295--35975414 Score: 100
Period size: 27 Copynumber: 4.4 Consensus size: 27
35975285 GGTACGTTGG
* * *
35975295 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAATCGAGGATATTTTAA
* *
35975322 TAATTTTACAAGTCGAGGGTATTTTAA
1 TAATTTTACAAATCGAGGATATTTTAA
* **
35975349 TAATTTCACAAATC-AGGAATATTTTGG
1 TAATTTTACAAATCGAGG-ATATTTTAA
* * * *
35975376 TAATTTTACAAA-CTAGGGGTTTTTTGA
1 TAATTTTACAAATCGA-GGATATTTTAA
35975403 TAATTTTACAAA
1 TAATTTTACAAA
35975415 CCAGGGGTGT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
26 4 0.05
27 74 0.93
28 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGATATTTTAA
Found at i:35977460 original size:40 final size:38
Alignment explanation
Indices: 35977369--35977617 Score: 221
Period size: 40 Copynumber: 6.3 Consensus size: 38
35977359 TCCTCGTTCA
* * * *
35977369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACA-AACCCGGATTTAGCAACTCGCAC
*
35977408 AATGCCTTCGGGACGAAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGAC-AAACCCGGATTTAGCAACTCGCAC
* * **
35977447 GAATGCCTTCGGGACTTAACCCGGATATAGCTCCTCGTTCA-
1 -AATGCCTTCGGGAC-AAACCCGGATTTAGCAACTCG--CAC
* * * *
35977488 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACA-AACCCGGATTTAGCAACTCGCAC
* *
35977527 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGAC-AAACCCGGATTTAGCAACTCGCAC
* * *
35977566 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGAC-AAACCCGGATTTAGCAACTCGCAC
*
35977606 AAAGGCCTTCGG
1 -AATGCCTTCGG
35977618 ATCTTAGTCC
Statistics
Matches: 171, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
38 2 0.01
39 64 0.37
40 103 0.60
42 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGGACAAACCCGGATTTAGCAACTCGCAC
Found at i:35977470 original size:79 final size:77
Alignment explanation
Indices: 35977369--35977617 Score: 241
Period size: 79 Copynumber: 3.1 Consensus size: 77
35977359 TCCTCGTTCA
* *
35977369 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGAAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATGCCTTCGGGAC-AAACCCGGATT
**
35977434 TAACAACTCGCAC
65 TAGTAACTCGCAC
* * * * *
35977447 GAATGCCTTCGGGACTTAACCCGGATATAGCT-CCTCGTTCA-AATGCCTTCGGGACATAGCCCG
1 -AATGCCTTCGGGACATAACCCGGATTTAG-TAACTC--ACACAATGCCTTCGGGACA-AACCCG
* *
35977510 GTTTTAGTAACTCACAC
61 GATTTAGTAACTCGCAC
* ** * *
35977527 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AATGCCTTCGGGAC-AAACCCGGAT
*
35977592 TTAGTATCTCGCAC
64 TTAGTAACTCGCAC
*
35977606 AAAGGCCTTCGG
1 -AATGCCTTCGG
35977618 ATCTTAGTCC
Statistics
Matches: 138, Mismatches: 23, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
77 2 0.01
79 91 0.66
80 43 0.31
81 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (77 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATGCCTTCGGGACAAACCCGGATTT
AGTAACTCGCAC
Found at i:35977559 original size:119 final size:119
Alignment explanation
Indices: 35977334--35977591 Score: 491
Period size: 119 Copynumber: 2.2 Consensus size: 119
35977324 AAATCACGTA
*
35977334 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
35977398 TAACTCACACAATGCCTTCGGGACGAAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACGAAACCCGGATTTAACAACTCGCACGAATG
35977452 CCTTCGGGACTTAACCCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
*
35977517 TAACTCACACAATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACGAAACCCGGATTTAACAACTCGCACGAATG
35977571 CCTTCGGGACTTAACCCGGAT
1 CCTTCGGGACTTAACCCGGAT
35977592 TTAGTATCTC
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 13 0.09
119 124 0.91
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
TAACTCACACAATGCCTTCGGGACGAAACCCGGATTTAACAACTCGCACGAATG
Found at i:36000548 original size:13 final size:13
Alignment explanation
Indices: 36000530--36000554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36000520 TAATGGTATA
36000530 TTGAATCCATGAT
1 TTGAATCCATGAT
36000543 TTGAATCCATGA
1 TTGAATCCATGA
36000555 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:36002459 original size:25 final size:25
Alignment explanation
Indices: 36002431--36002509 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
36002421 CTAATGGCCG
36002431 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
36002456 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
36002478 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
36002503 ATGTGAT
1 ATGTGAT
36002510 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:36002459 original size:47 final size:47
Alignment explanation
Indices: 36002406--36002559 Score: 272
Period size: 47 Copynumber: 3.3 Consensus size: 47
36002396 ACAAGATATG
36002406 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
36002453 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
36002500 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
36002547 TATATGTGATAAG
1 TATATGTGATAAG
36002560 TCCCGAAGGA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:36030769 original size:47 final size:47
Alignment explanation
Indices: 36030700--36030793 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
36030690 ACCTTCATAA
36030700 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
36030747 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
36030794 GTTAAACCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (47 bp):
TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
Found at i:36044082 original size:51 final size:51
Alignment explanation
Indices: 36044016--36044300 Score: 357
Period size: 51 Copynumber: 5.7 Consensus size: 51
36044006 TGAGGTCGCA
36044016 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* * * * * * *
36044067 TGTGTAGTACTAAGTGCAGGCTATTACGTGTA-CC--AGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
*
36044116 TGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
36044167 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* * * * ** *
36044218 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
* *
36044267 TGTGTAGTACTAAGTGCAGGCTTCTATACGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
36044301 AGATAGCTTC
Statistics
Matches: 201, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
48 10 0.05
49 65 0.32
50 7 0.03
51 114 0.57
52 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
Found at i:36044182 original size:100 final size:101
Alignment explanation
Indices: 36044009--36044243 Score: 366
Period size: 100 Copynumber: 2.3 Consensus size: 101
36043999 TCTATTGTGA
36044009 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
* * *
36044074 TACTAAGTGCAGGCTATTACGTGTA-CC-AGACTGTT
66 TACTAAGTGCAGGCTACTACGCGTACCCAAAACTG-T
*
36044109 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
*
36044174 TACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
66 TACTAAGTGCAGGCTACTACGCGTACCC-AAAACTGT
* * *
36044211 GATCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
36044244 CGTGTACCAG
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
100 86 0.70
101 2 0.02
102 30 0.24
103 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (101 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGCGTACCCAAAACTGT
Found at i:36044271 original size:100 final size:100
Alignment explanation
Indices: 36044014--36044300 Score: 348
Period size: 100 Copynumber: 2.9 Consensus size: 100
36044004 TGTGAGGTCG
36044014 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC-AAAACTGTGATCACGTGTGTAGTACTA
* * * * * *
36044079 AGTGCAGGCTATTACGTGTA-CCAGACTGTTGGTCG
65 AGTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
*
36044114 CATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCC-AAAACTGTGATCACGTGTGTAGTACTA
36044179 AGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCA
65 AGTGCAGGCTACTATGCGTACCC--AAACTGTTGATCA
* * * * * ** *
36044216 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTTGGTTGCATGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTG-TGATCACGTGTGTAGTACTA
* *
36044279 AGTGCAGGCTTCTATACGTACC
65 AGTGCAGGCTACTATGCGTACC
36044301 AGATAGCTTC
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
99 5 0.03
100 117 0.71
101 4 0.02
102 34 0.21
103 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAACTGTGATCACGTGTGTAGTACTAA
GTGCAGGCTACTATGCGTACCCAAACTGTTGATCA
Found at i:36044299 original size:151 final size:151
Alignment explanation
Indices: 36044016--36044300 Score: 525
Period size: 151 Copynumber: 1.9 Consensus size: 151
36044006 TGAGGTCGCA
36044016 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
* *
36044081 TGCAGGCTATTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCG
66 TGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTATACG
36044146 TACCCGAAAACTGTGATCACG
131 TACCCGAAAACTGTGATCACG
36044167 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
* * *
36044232 TGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAGTGCAGGCTTCTATACG
66 TGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTATACG
36044297 TACC
131 TACC
36044301 AGATAGCTTC
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
151 129 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTATACG
TACCCGAAAACTGTGATCACG
Found at i:36047563 original size:53 final size:54
Alignment explanation
Indices: 36047369--36047575 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
36047359 ATTAGGGTTT
* * * * * *
36047369 AAGGATACCAAGTAAGACCATGCCAAGGCACGACATTGGTACA-TTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA-AGTTCTATAAGGC
* * * * * * * *
36047423 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
36047478 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
36047531 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
36047576 AAAAAGGAAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 41 0.34
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:36055391 original size:30 final size:30
Alignment explanation
Indices: 36055350--36055417 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
36055340 TAAATGTAAC
36055350 TTAAGCAAATG-CTTCTAAAATAAGAAAAAAA
1 TTAA-CAAATGCCTT-TAAAATAAGAAAAAAA
**
36055381 TTAACAAATGCCTTTAAAATACTAAAAAAA
1 TTAACAAATGCCTTTAAAATAAGAAAAAAA
36055411 TTAACAA
1 TTAACAA
36055418 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (30 bp):
TTAACAAATGCCTTTAAAATAAGAAAAAAA
Found at i:36056109 original size:55 final size:54
Alignment explanation
Indices: 36055992--36056123 Score: 165
Period size: 55 Copynumber: 2.4 Consensus size: 54
36055982 GGATACCAAA
* * * * *
36055992 TAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCATG
1 TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATG
* * * **
36056046 TAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCATG
1 TAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAAACCATG
36056101 TAAGACCATGCCAAGGCATGGCA
1 TAAGACCATGCCAAGGCATGGCA
36056124 ATGGTGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
54 25 0.38
55 40 0.62
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATG
Found at i:36056180 original size:53 final size:52
Alignment explanation
Indices: 36056082--36056196 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 52
36056072 ATAAACTACT
* * * * ** * *
36056082 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGG-AAAGATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
*
36056135 ATAAGGAAAGGATACCACGTAAGACCATATCAAGACATGAAAATGGTAAGTTA
1 ATAAGGAAA-GATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
*
36056188 AAAAGGAAA
1 ATAAGGAAA
36056197 TGTACCCGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 3 0.06
53 48 0.94
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (52 bp):
ATAAGGAAAGATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
Done.