Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 136 of 378
Found at i:38678041 original size:2 final size:2
Alignment explanation
Indices: 38678036--38678070 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
38678026 AAAGTTTTAA
38678036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38678071 GATTTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38680921 original size:31 final size:31
Alignment explanation
Indices: 38680880--38680946 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
38680870 TTAATATAAC
* * *
38680880 ATTTGGTACCTAAACTTGACACTTTTTCCTA
1 ATTTGATACCTAAACTTAACACTTATTCCTA
* * *
38680911 ATTTGATACCTGAACTTAACGCTTATTCTTA
1 ATTTGATACCTAAACTTAACACTTATTCCTA
38680942 ATTTG
1 ATTTG
38680947 GTGCTTATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.43
Consensus pattern (31 bp):
ATTTGATACCTAAACTTAACACTTATTCCTA
Found at i:38683584 original size:21 final size:21
Alignment explanation
Indices: 38683560--38683622 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
38683550 TCAATAACAA
38683560 TTAGTTATTCAGTACAGTAAT
1 TTAGTTATTCAGTACAGTAAT
* *
38683581 TTAGTTATTCAATA-A-TTA-
1 TTAGTTATTCAGTACAGTAAT
* *
38683599 TTAATTATTCAGTACAGTAGT
1 TTAGTTATTCAGTACAGTAAT
38683620 TTA
1 TTA
38683623 CCCCTATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 12 0.36
19 3 0.09
20 2 0.06
21 16 0.48
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (21 bp):
TTAGTTATTCAGTACAGTAAT
Found at i:38683765 original size:47 final size:47
Alignment explanation
Indices: 38683684--38683776 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
38683674 ACCAGTTGGA
* * **
38683684 ACTTAGTGCCTCATCGGCTTTGCCGAAGTAAACAGTAACAGTACGAT
1 ACTTAGTACCTCATCGGATTAACCGAAGTAAACAGTAACAGTACGAT
*
38683731 ACTTAGTACCTCATCGGATTAAACCGAAGT-AACAGTAGCAGTACGA
1 ACTTAGTACCTCATCGGATT-AACCGAAGTAAACAGTAACAGTACGA
38683777 CACACATAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 33 0.82
48 7 0.17
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (47 bp):
ACTTAGTACCTCATCGGATTAACCGAAGTAAACAGTAACAGTACGAT
Found at i:38683817 original size:44 final size:44
Alignment explanation
Indices: 38683764--38683852 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
38683754 CCGAAGTAAC
*
38683764 AGTAGCAGTACGACACACATAGTGCCTCATCGACTCGAA-GTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTC-AATGTCGA
** *
38683808 AGTAACAGTACGACACTTATAGTGCCTCATTGACTCAATGTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAATGTCGA
38683852 A
1 A
38683853 ATATCCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.05
44 38 0.95
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAATGTCGA
Found at i:38684361 original size:32 final size:32
Alignment explanation
Indices: 38684325--38684389 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
38684315 TGCATGCATT
38684325 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
38684357 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
38684389 T
1 T
38684390 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:38687040 original size:18 final size:18
Alignment explanation
Indices: 38687017--38687055 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38687007 ATCTTTCCAT
*
38687017 ACACATATAATAATAATA
1 ACACATATAATAATAAAA
38687035 ACACATATAATAATAAAA
1 ACACATATAATAATAAAA
38687053 ACA
1 ACA
38687056 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (18 bp):
ACACATATAATAATAAAA
Found at i:38688072 original size:30 final size:31
Alignment explanation
Indices: 38688037--38688105 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
38688027 TTATCATATA
38688037 AAAATA-TTTTACTAATTA-ATAATAAATAAT
1 AAAATATTTTTACTAATTATAT-ATAAATAAT
38688067 AAAATATCTTTTTACTAATTATATATAAATAAT
1 AAAATA--TTTTTACTAATTATATATAAATAAT
38688100 ACAAAT
1 A-AAAT
38688106 GTACTCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
30 6 0.18
33 22 0.65
34 6 0.18
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATATTTTTACTAATTATATATAAATAAT
Found at i:38688206 original size:29 final size:29
Alignment explanation
Indices: 38688164--38688220 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
38688154 GTCTTTTCTT
*
38688164 AATTTATTTCATAATATAATAATATAATC
1 AATTTATTTCATAATATAATAAAATAATC
38688193 AATTTAATTT-ATAATATAATAAAATAAT
1 AATTT-ATTTCATAATATAATAAAATAAT
38688221 AATAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAAAATAATC
Found at i:38688226 original size:26 final size:26
Alignment explanation
Indices: 38688169--38688251 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 26
38688159 TTCTTAATTT
*
38688169 ATTTCATAATATAATAATATAATCAATTTA
1 ATTT-ATAATATAATAAAATAAT-AA--TA
38688199 ATTTATAATATAATAAAATAATAATA
1 ATTTATAATATAATAAAATAATAATA
* ** * *
38688225 ATATATTTTATAATTAAACAATAATA
1 ATTTATAATATAATAAAATAATAATA
38688251 A
1 A
38688252 AAATCAAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 24 0.51
28 2 0.04
29 17 0.36
30 4 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTTATAATATAATAAAATAATAATA
Found at i:38692536 original size:42 final size:42
Alignment explanation
Indices: 38692429--38692592 Score: 150
Period size: 42 Copynumber: 3.8 Consensus size: 42
38692419 TAAGATGCCA
* * * **
38692429 ATGCCATATCCCAGATATGGTCTTAGATGGGATCACATATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCA-A-ATATCG
* * *** *
38692473 ATGCCAATAGCCCAG-CTATGGTCTTACACGATATCTCGTATTG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATCAAATATCG
* *
38692516 ATGTCATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
38692558 ATGCCATATCTCAGATATGGTCTTACACGAAATCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCA
38692593 CACATAACCC
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 59 0.62
43 9 0.09
44 5 0.05
45 22 0.23
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:38695974 original size:22 final size:22
Alignment explanation
Indices: 38695939--38696042 Score: 105
Period size: 22 Copynumber: 4.9 Consensus size: 22
38695929 CTTACCAATG
38695939 CAGCTC-ATATGAGCTTACTGTT
1 CAGCTCGATA-GAGCTTACTGTT
*
38695961 CAGCTCGATAGAGCTTATTGTT
1 CAGCTCGATAGAGCTTACTGTT
38695983 CA----GATAGAGCTTACTGTT
1 CAGCTCGATAGAGCTTACTGTT
38696001 CAGC-CTGATAGAGCTTACCAT-TT
1 CAGCTC-GATAGAGCTTA-C-TGTT
*
38696024 CAGCTCAATAGAGCTTACT
1 CAGCTCGATAGAGCTTACT
38696043 ATTTATCAGC
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
18 17 0.24
21 1 0.01
22 31 0.44
23 20 0.28
24 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (22 bp):
CAGCTCGATAGAGCTTACTGTT
Found at i:38695990 original size:18 final size:18
Alignment explanation
Indices: 38695967--38696003 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
38695957 TGTTCAGCTC
*
38695967 GATAGAGCTTATTGTTCA
1 GATAGAGCTTACTGTTCA
38695985 GATAGAGCTTACTGTTCA
1 GATAGAGCTTACTGTTCA
38696003 G
1 G
38696004 CCTGATAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (18 bp):
GATAGAGCTTACTGTTCA
Found at i:38696034 original size:23 final size:26
Alignment explanation
Indices: 38696008--38696068 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
38695998 GTTCAGCCTG
38696008 ATAGAGCTTACCA-TT-TCAGCTCA-
1 ATAGAGCTTACCATTTATCAGCTCAC
*
38696031 ATAGAGCTTACTATTTATCAGCTCAGC
1 ATAGAGCTTACCATTTATCAGCTCA-C
38696058 A-AGAGCTTACC
1 ATAGAGCTTACC
38696069 GATCATGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 12 0.38
24 2 0.06
25 8 0.25
26 9 0.28
27 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (26 bp):
ATAGAGCTTACCATTTATCAGCTCAC
Found at i:38696240 original size:20 final size:20
Alignment explanation
Indices: 38696215--38696269 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
38696205 AAGCTATGTT
*
38696215 GAAATGAATGACTTACTGTA
1 GAAATGAATGAATTACTGTA
*
38696235 GAAATGAATGAATTACTGTT
1 GAAATGAATGAATTACTGTA
* *
38696255 GATATGGATGAATTA
1 GAAATGAATGAATTA
38696270 TTTTTGATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (20 bp):
GAAATGAATGAATTACTGTA
Found at i:38696276 original size:20 final size:20
Alignment explanation
Indices: 38696242--38696350 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
38696232 GTAGAAATGA
*
38696242 ATGAATTACTGTTGATATGG
1 ATGAATTACTGTTGATATAG
* *
38696262 ATGAATTATTTTTGATATAG
1 ATGAATTACTGTTGATATAG
*
38696282 ATAAATTACTGTT-AT-TACGG
1 ATGAATTACTGTTGATATA--G
**
38696302 ATGAATTACTGGTT-ATACGG
1 ATGAATTACT-GTTGATATAG
*
38696322 ATGAACTACTAGTT-ATAT-G
1 ATGAATTACT-GTTGATATAG
38696341 AATGAATTAC
1 -ATGAATTAC
38696351 AGTTTATACA
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
18 2 0.03
19 3 0.04
20 61 0.86
21 5 0.07
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGAATTACTGTTGATATAG
Found at i:38696357 original size:20 final size:19
Alignment explanation
Indices: 38696285--38696359 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
38696275 GATATAGATA
* *
38696285 AATTACTGTTATTACGGATG
1 AATTACAGTTA-TACGAATG
* *
38696305 AATTACTGGTTATACGGATG
1 AATTAC-AGTTATACGAATG
* *
38696325 AACTACTAGTTATATGAATG
1 AATTAC-AGTTATACGAATG
38696345 AATTACAGTTTATAC
1 AATTACAG-TTATAC
38696360 AAATAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 40 0.87
21 4 0.09
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
AATTACAGTTATACGAATG
Found at i:38697600 original size:44 final size:44
Alignment explanation
Indices: 38697537--38697627 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
38697527 GGGGAAAAGT
38697537 GGCATAAAACAAGCCTATTTCTAGTCCACACGGTTGAGCACACG
1 GGCATAAAACAAGCCTATTTCTAGTCCACACGGTTGAGCACACG
*
38697581 GGCATAAAACAAGCCTATTTCTCGTCCACACGGTTGAGCACACG
1 GGCATAAAACAAGCCTATTTCTAGTCCACACGGTTGAGCACACG
38697625 GGC
1 GGC
38697628 GTGTGACTCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (44 bp):
GGCATAAAACAAGCCTATTTCTAGTCCACACGGTTGAGCACACG
Found at i:38698596 original size:2 final size:2
Alignment explanation
Indices: 38698589--38698629 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
38698579 AGTAAAAGTA
38698589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38698630 ACACCTTACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38702778 original size:14 final size:13
Alignment explanation
Indices: 38702756--38702806 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
38702746 GAATTATTAT
*
38702756 TTAATTAATTGCAA
1 TTAAATAATTG-AA
38702770 TTAAATAATTGAA
1 TTAAATAATTGAA
*
38702783 GTTAAA-AATGGAA
1 -TTAAATAATTGAA
38702796 TTAAATTAATT
1 TTAAA-TAATT
38702807 AGTCTTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.16
13 8 0.26
14 18 0.58
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (13 bp):
TTAAATAATTGAA
Found at i:38704933 original size:28 final size:27
Alignment explanation
Indices: 38704870--38704982 Score: 77
Period size: 28 Copynumber: 3.9 Consensus size: 27
38704860 CTATTTAGAA
* *
38704870 ATCAGTGTTAATTGGGCCTTAGCCCAT
1 ATCAGTATTAATTGGGCCATAGCCCAT
* *
38704897 ATCAATATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAAT-TGGGCCATAGCCCAT
38704925 -TACAGTATTAGAGTATATTGGGCC-TAGCCCAT
1 AT-CAGTA-T----TA-ATTGGGCCATAGCCCAT
* *
38704957 ATCAGTATCAATCTGGGCCGTAGCCC
1 ATCAGTATTAAT-TGGGCCATAGCCC
38704983 TATTACAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
26 2 0.03
27 18 0.26
28 23 0.34
29 1 0.01
31 1 0.01
32 12 0.18
33 9 0.13
34 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (27 bp):
ATCAGTATTAATTGGGCCATAGCCCAT
Found at i:38705002 original size:60 final size:60
Alignment explanation
Indices: 38704880--38705018 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
38704870 ATCAGTGTTA
* * **
38704880 ATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATTAGAGTAT
1 ATTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACCAGAGTAT
* *
38704941 ATTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-CCAGA-TAT
1 ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACCAGAGTAT
* *
38705001 ATTGGGCCTTGGCCATAT
1 ATTGGGCCTAGCCCATAT
38705019 TAACACAGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 50 0.74
61 15 0.22
62 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (60 bp):
ATTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACCAGAGTAT
Found at i:38707495 original size:19 final size:18
Alignment explanation
Indices: 38707458--38707501 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38707448 ATACATGCAG
38707458 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38707475 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38707494 TACTAATT
1 TAATAATT
38707502 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38711451 original size:49 final size:49
Alignment explanation
Indices: 38711378--38711565 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
38711368 TAGCCGAAGC
*
38711378 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
38711427 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
38711478 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
38711527 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
38711566 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 76 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:38711497 original size:100 final size:100
Alignment explanation
Indices: 38711383--38711570 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
38711373 GAAGCTATCT
**
38711383 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
38711448 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
38711483 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
38711548 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
38711571 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:38714084 original size:15 final size:15
Alignment explanation
Indices: 38714032--38714085 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
38714022 TAAAGATAAC
*
38714032 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
38714046 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
38714061 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
38714076 AAGAAACCCA
1 AAGAAACCCA
38714086 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:38716690 original size:39 final size:40
Alignment explanation
Indices: 38716590--38716771 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
38716580 TCGAATGATG
* * *
38716590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
38716630 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
38716670 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
38716708 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
38716749 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38716772 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:38716735 original size:78 final size:80
Alignment explanation
Indices: 38716590--38716771 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
38716580 TCGAATGATG
* * * *
38716590 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
38716655 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
38716670 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
38716732 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
38716749 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38716772 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:38720398 original size:51 final size:49
Alignment explanation
Indices: 38720333--38720478 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 49
38720323 TAGCCGAAGC
* *
38720333 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGA-C-CAAT
* * * * * *
38720384 TTTCGGGTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGACCAAT
* * *
38720433 TATCCGGTACACGTAGTAG-TGCGCACTTAGTACTACACACGTGACC
1 TATCCGGTACGCATAGTAGCT-TGCACTTAGTACTACACACGTGACC
38720479 TCACAATAGT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 39 0.50
50 1 0.01
51 38 0.49
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGACCAAT
Found at i:38725402 original size:32 final size:32
Alignment explanation
Indices: 38725363--38725423 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
38725353 GTAGATATTG
38725363 ATTATGTTTCT-AGCTTATTAGATATTGAATTT
1 ATTATGTTT-TAAGCTTATTAGATATTGAATTT
* *
38725395 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTATTAGATATTGAA
38725424 ATGATTGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTATTAGATATTGAATTT
Found at i:38726443 original size:46 final size:46
Alignment explanation
Indices: 38726376--38726494 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
38726366 ACTTTTAATA
38726376 TGGTGTAATATTAGTTATGCACTTGGACAATGTTGTTGTTATCATG
1 TGGTGTAATATTAGTTATGCACTTGGACAATGTTGTTGTTATCATG
*
38726422 TGGTGTAATATTAGTTATGCACTTGGACAATGTTTTTGTTATCATG
1 TGGTGTAATATTAGTTATGCACTTGGACAATGTTGTTGTTATCATG
* * * *
38726468 TGGTGTACTACTAATTATGCATTTGGA
1 TGGTGTAATATTAGTTATGCACTTGGA
38726495 TAATATTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.44
Consensus pattern (46 bp):
TGGTGTAATATTAGTTATGCACTTGGACAATGTTGTTGTTATCATG
Found at i:38726743 original size:2 final size:2
Alignment explanation
Indices: 38726736--38726760 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38726726 AAATTTATTA
38726736 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
38726761 AAATAAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38726919 original size:19 final size:20
Alignment explanation
Indices: 38726895--38726940 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
38726885 CATCCAAACA
38726895 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
38726914 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
38726934 CCAGAAA
1 CCAGAAA
38726941 TCATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:38726961 original size:14 final size:14
Alignment explanation
Indices: 38726924--38726954 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38726914 CCAGAAAAGT
38726924 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
38726938 AAATCATTTTCCGG
1 AAATCATTTTCCAG
38726952 AAA
1 AAA
38726955 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:38727662 original size:5 final size:5
Alignment explanation
Indices: 38727646--38727676 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
38727636 CATAATAAAC
38727646 TATTT ATATTT TATTT TATTT TATTT TATTT
1 TATTT -TATTT TATTT TATTT TATTT TATTT
38727677 ATCAAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:38729062 original size:21 final size:21
Alignment explanation
Indices: 38729036--38729078 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
38729026 GGCATATGGG
38729036 CCCATATTTTTTAAATTTTCC
1 CCCATATTTTTTAAATTTTCC
38729057 CCCATATTTTTTAAATTTTCC
1 CCCATATTTTTTAAATTTTCC
38729078 C
1 C
38729079 TAGGGTGGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (21 bp):
CCCATATTTTTTAAATTTTCC
Found at i:38730605 original size:25 final size:28
Alignment explanation
Indices: 38730554--38730606 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
38730544 TTAAAAATTA
*
38730554 GAAATTTAGTCTATATATTTTTATTTCAT
1 GAAATTTAGTC-ATATATTATTATTTCAT
38730583 GAAATTTAGTC-TAT-TTATT-TTTCA
1 GAAATTTAGTCATATATTATTATTTCA
38730607 AATTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 3 0.13
29 11 0.48
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (28 bp):
GAAATTTAGTCATATATTATTATTTCAT
Found at i:38730915 original size:22 final size:24
Alignment explanation
Indices: 38730889--38730960 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
38730879 CATTTTAACC
38730889 TAATTTTATATG-TTTTT-ATTTT
1 TAATTTTATATGATTTTTAATTTT
*
38730911 TAATTTTTTATGTATTTTTAATTTT
1 TAATTTTATATG-ATTTTTAATTTT
* * *
38730936 TAAATATATAT-ATATTTCAATTTT
1 TAATTTTATATGAT-TTTTAATTTT
38730960 T
1 T
38730961 TTTATTCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 11 0.27
23 2 0.05
24 15 0.37
25 13 0.32
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (24 bp):
TAATTTTATATGATTTTTAATTTT
Found at i:38730928 original size:24 final size:23
Alignment explanation
Indices: 38730889--38730938 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
38730879 CATTTTAACC
38730889 TAATTTTATATGTTTTT-ATTTT
1 TAATTTTATATGTTTTTAATTTT
*
38730911 TAATTTTTTATGTATTTTTAATTTT
1 TAATTTTATATG--TTTTTAATTTT
38730936 TAA
1 TAA
38730939 ATATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 11 0.46
24 5 0.21
25 8 0.33
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TAATTTTATATGTTTTTAATTTT
Found at i:38735968 original size:5 final size:5
Alignment explanation
Indices: 38735958--38735983 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38735948 TTTACTATGC
38735958 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
38735984 TGTATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:38736194 original size:52 final size:48
Alignment explanation
Indices: 38736115--38736224 Score: 121
Period size: 52 Copynumber: 2.2 Consensus size: 48
38736105 TTAAATAAAT
* * *
38736115 TTAAATTAAATTATTATATGATGTGATTAATAGCGAAATATATAACATGATAA
1 TTAAATT-AATTATTATATAATATGATTAA-AGCAAAATATAT-A-AT-ATAA
* **
38736168 TTAAATTAATTATTATGTAATATGATTAAATTAAAATATATAATATAA
1 TTAAATTAATTATTATATAATATGATTAAAGCAAAATATATAATATAA
38736216 TTAAATTAA
1 TTAAATTAA
38736225 GTTAATAGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 13 0.25
49 2 0.04
50 1 0.02
51 9 0.18
52 19 0.37
53 7 0.14
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (48 bp):
TTAAATTAATTATTATATAATATGATTAAAGCAAAATATATAATATAA
Found at i:38736218 original size:23 final size:23
Alignment explanation
Indices: 38736150--38736224 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 23
38736140 ATTAATAGCG
38736150 AAATATATAACATGATAATTAAATTA
1 AAATATAT-A-AT-ATAATTAAATTA
* * *
38736176 ATTATTATGTAATATGATTAAATTA
1 A--AATATATAATATAATTAAATTA
38736201 AAATATATAATATAATTAAATTA
1 AAATATATAATATAATTAAATTA
38736224 A
1 A
38736225 GTTAATAGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 20 0.49
25 12 0.29
26 3 0.07
27 1 0.02
28 5 0.12
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATATATAATATAATTAAATTA
Found at i:38736476 original size:20 final size:20
Alignment explanation
Indices: 38736453--38736502 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
38736443 AAATCCAAAT
38736453 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
38736473 TAAAATCCTGAAATTTAGGA
1 TAAAATACTAAAATTCAGGA
38736493 TAAGAATACT
1 TAA-AATACT
38736503 GATATGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:38742459 original size:42 final size:42
Alignment explanation
Indices: 38742413--38742504 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
38742403 ACGGGATGAG
38742413 ACAGAAGCAATAGGG-CCTTGTTGAGA-CTGAATTTGGGCTTCA
1 ACAGAAGCAA-AGGGACCTTGTTG-GACCTGAATTTGGGCTTCA
* ** *
38742455 ACAGAAGCAAGGGGACCTTGTTGGACCTGGCTTTGGGCTTGA
1 ACAGAAGCAAAGGGACCTTGTTGGACCTGAATTTGGGCTTCA
38742497 ACAGAAGC
1 ACAGAAGC
38742505 TTCACCACCA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 5 0.11
42 39 0.89
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (42 bp):
ACAGAAGCAAAGGGACCTTGTTGGACCTGAATTTGGGCTTCA
Found at i:38756468 original size:46 final size:45
Alignment explanation
Indices: 38756399--38756572 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 45
38756389 TGTAACCCGC
* * *
38756399 CCATAAGTGATCTC-GACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
38756444 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
38756490 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
* *
38756537 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
38756573 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 15 0.14
46 50 0.48
47 32 0.30
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:38758033 original size:29 final size:29
Alignment explanation
Indices: 38758001--38758132 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
38757991 ATAGTGAATC
38758001 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38758030 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
38758060 CGCACACTTAGTGCTATATATTATCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
38758089 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38758118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38758133 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 70 0.71
30 29 0.29
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:38758093 original size:59 final size:58
Alignment explanation
Indices: 38758001--38758132 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
38757991 ATAGTGAATC
*
38758001 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTATCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGCT
*
38758060 CGCACACTTAGTGCTATATATTATCAGCTCGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTATCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
38758118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38758133 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 24 0.34
59 47 0.66
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.36
Consensus pattern (58 bp):
CGCACACTTAGTGCTATATATTATCAGCTCGCACACTTAGTGCTATATATTTTCAGCT
Found at i:38764802 original size:29 final size:29
Alignment explanation
Indices: 38764770--38764901 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
38764760 ATAGTGAATC
38764770 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38764799 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
38764829 CGCACACTTTGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
38764858 CGCACACTTAGTGCTATATATTTTTAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
38764887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38764902 GTACAATTTT
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 70 0.71
30 28 0.29
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:38764911 original size:29 final size:29
Alignment explanation
Indices: 38764770--38764931 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
38764760 ATAGTGAATC
*
38764770 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCT
38764799 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATA-AATTTTCAGCT
* *
38764829 CGCACACTTTGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCT
* * *
38764858 CGCACACTTAGTGCTATATATTTTTAGTT
1 CGCACACTTAGTGCTATAAATTTTCAGCT
* * * *
38764887 CGCACACTTAGTGCTGTACAATTTTTAAACC
1 CGCACACTTAGTGCTATA-AA-TTTTCAGCT
38764918 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38764932 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 71 0.60
30 28 0.24
31 19 0.16
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATAAATTTTCAGCT
Found at i:38764911 original size:59 final size:59
Alignment explanation
Indices: 38764770--38764901 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
38764760 ATAGTGAATC
38764770 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* * *
38764829 CGCACACTTTGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTTAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
38764887 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38764902 GTACAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
58 22 0.32
59 47 0.68
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:38767716 original size:12 final size:12
Alignment explanation
Indices: 38767699--38767723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38767689 GGGATTAGAC
38767699 GTTATTAGTCTT
1 GTTATTAGTCTT
38767711 GTTATTAGTCTT
1 GTTATTAGTCTT
38767723 G
1 G
38767724 AATAGGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (12 bp):
GTTATTAGTCTT
Found at i:38768344 original size:66 final size:66
Alignment explanation
Indices: 38768269--38768401 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
38768259 TGAAACCCAA
38768269 AGATTAAACAGTAGAAGCAAGATTGAATAAAATAACATTTAACCCAAAAATCTTGTGTACTTCTA
1 AGATTAAACAGTAGAAGCAAGATTGAATAAAATAACATTTAACCCAAAAATCTTGTGTACTTCTA
38768334 T
66 T
*
38768335 AGATTAAACAGTAGAAGCAAGATTGAATAAAATAACATTTAACCCAGAAATCTTGTGTACTTCTA
1 AGATTAAACAGTAGAAGCAAGATTGAATAAAATAACATTTAACCCAAAAATCTTGTGTACTTCTA
38768400 T
66 T
38768401 A
1 A
38768402 CAAACATGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.29
Consensus pattern (66 bp):
AGATTAAACAGTAGAAGCAAGATTGAATAAAATAACATTTAACCCAAAAATCTTGTGTACTTCTA
T
Found at i:38770834 original size:40 final size:39
Alignment explanation
Indices: 38770790--38770970 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
38770780 GTTCAAAACA
* * ** * *
38770790 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
38770830 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
38770870 CCTTCGGGCTTAG-CCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * **
38770908 CCTTCGGGCTTAGCCCGGATATCACAATTATCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
38770947 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
38770971 CTCGAACATT
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 36 0.29
39 48 0.39
40 40 0.32
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:38770943 original size:39 final size:39
Alignment explanation
Indices: 38770820--38770971 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
38770810 TATGGTAACC
* *
38770820 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
38770860 CGCACAATTGCCTTCGGGCTTAG-CCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38770898 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
**
38770937 ATCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
38770972 TCGAACATTC
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 36 0.35
39 49 0.48
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38770943 original size:77 final size:79
Alignment explanation
Indices: 38770820--38770970 Score: 243
Period size: 77 Copynumber: 1.9 Consensus size: 79
38770810 TATGGTAACC
*
38770820 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG-C
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTAGCACAATTGCCTTCGGGCTTAGCC
38770884 CGGATATCATAGCT
66 CGGATATCATAGCT
* * * *
38770898 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTATCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTAGCACAATTGCCTTCGGGCTTAGCC
38770962 CGGATATCA
66 CGGATATCA
38770971 CTCGAACATT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
77 40 0.60
78 27 0.40
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTAGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:38781123 original size:16 final size:17
Alignment explanation
Indices: 38781104--38781137 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
38781094 AAATATTATG
38781104 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
38781120 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
38781137 A
1 A
38781138 CGCCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:38782404 original size:5 final size:6
Alignment explanation
Indices: 38782389--38782414 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38782379 AATACTTTGA
38782389 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
38782415 GGAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:38787983 original size:48 final size:48
Alignment explanation
Indices: 38787912--38788607 Score: 799
Period size: 48 Copynumber: 14.0 Consensus size: 48
38787902 AGATAAATAT
*
38787912 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
38787960 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
38788008 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
38788056 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
38788104 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
38788152 ATATATATGAGATATGTATATGTGGTAAAGCTGAAGATATG-TATATGTGGTAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCG-A-AT-GGCTA-ATGT-G-AA
* * * * * * ** *
38788205 AGCCGA-ATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA-AGCTGAATG-GCTAA
1 A---TATAT-G----TGAGATATGTATATGTG----GTA-AAGCCG-AATGGCT-AATGTG--AA
*
38788267 TGTGAAATATGTATGAGATATGTA-ATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ----ATATATG--TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
38788320 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
38788368 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
38788416 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* ** *
38788464 ATATATGTGTGATATGTATATGTGGTAAATACGAATGGCCAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
38788512 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
38788560 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
38788608 TGTTGTAACA
Statistics
Matches: 562, Mismatches: 56, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
47 10 0.02
48 462 0.82
49 7 0.01
50 4 0.01
51 5 0.01
52 1 0.00
53 5 0.01
54 6 0.01
55 9 0.02
56 4 0.01
60 17 0.03
61 10 0.02
62 4 0.01
63 6 0.01
64 7 0.01
65 4 0.01
66 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:38788195 original size:73 final size:73
Alignment explanation
Indices: 38788113--38788259 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
38788103 AATATATATG
38788113 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
38788178 AAAGCTGA
66 AAAGCTGA
38788186 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
38788251 AAAGCTGA
66 AAAGCTGA
38788259 A
1 A
38788260 TGGCTAATGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.31
Consensus pattern (73 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
AAAGCTGA
Found at i:38788216 original size:121 final size:120
Alignment explanation
Indices: 38788066--38788302 Score: 438
Period size: 121 Copynumber: 2.0 Consensus size: 120
38788056 ATATATGTGT
38788066 GATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
1 GATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
38788131 AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCTGAA
66 AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTA-ATGTGGTAAAGCTGAA
*
38788187 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
1 GATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
* *
38788252 AAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTAATGTGGTAAAGC
66 AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAATGTGGTAAAGC
38788303 CGAATGGCTA
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
120 12 0.11
121 101 0.89
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (120 bp):
GATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTAATGTGGTAAAGCTGAA
Found at i:38788702 original size:37 final size:37
Alignment explanation
Indices: 38788652--38788737 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
38788642 GGAAATATAT
*
38788652 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38788689 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
38788726 TCCGGGTAAGAC
1 TCCGGGTAAGAC
38788738 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38791012 original size:22 final size:22
Alignment explanation
Indices: 38790891--38791012 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
38790881 CATGCATATG
*
38790891 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
38790913 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
38790938 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
38790960 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
38790985 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
38791007 TGTGAT
1 TGTGAT
38791013 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:38791050 original size:47 final size:47
Alignment explanation
Indices: 38790677--38791015 Score: 570
Period size: 47 Copynumber: 7.2 Consensus size: 47
38790667 TTAGGATTTT
** * * *
38790677 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38790724 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38790771 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
38790818 ATGTGATGAATGTGCACATGCATATGTGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38790865 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38790912 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
38790959 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38791006 ATGTGATGAA
1 ATGTGATGAA
38791016 CGTGGAAGTG
Statistics
Matches: 278, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 278 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38791088 original size:46 final size:46
Alignment explanation
Indices: 38791035--38791211 Score: 273
Period size: 46 Copynumber: 3.8 Consensus size: 46
38791025 GTATATAAGT
* *
38791035 GGTAAAGCCGGATGGCTAATGCGAAATGTGTATGAGATGGATATGA
1 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA
38791081 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA
1 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA
* *
38791127 GGTAAAGCTGAATGGCTAATGCGAAACGTGTATGAGATGGATATGT
1 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA
* * * **
38791173 GGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
38791212 TGTATATATA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.34, C:0.09, G:0.33, T:0.24
Consensus pattern (46 bp):
GGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGA
Found at i:38814290 original size:12 final size:12
Alignment explanation
Indices: 38814273--38814297 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38814263 GGGATTAGAC
38814273 GTTATTAGTCTT
1 GTTATTAGTCTT
38814285 GTTATTAGTCTT
1 GTTATTAGTCTT
38814297 G
1 G
38814298 AATAGGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (12 bp):
GTTATTAGTCTT
Found at i:38822357 original size:12 final size:12
Alignment explanation
Indices: 38822340--38822364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38822330 GGGATTAGAC
38822340 GTTATTAGTCTT
1 GTTATTAGTCTT
38822352 GTTATTAGTCTT
1 GTTATTAGTCTT
38822364 G
1 G
38822365 AATAGGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (12 bp):
GTTATTAGTCTT
Found at i:38833504 original size:46 final size:46
Alignment explanation
Indices: 38833310--38833624 Score: 246
Period size: 46 Copynumber: 6.7 Consensus size: 46
38833300 GGGTATAATA
* * * **
38833310 CCGATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAGTCGAGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-ATCTCGAGG
* * * ** * *
38833359 CTGACGCTATGTCCCAAACATGGTCTTACACTAACTCTCACATATAC-ATG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCT--CATCT-CGAGG
* * * * *
38833409 TCGATGCCATGTCCCAGGCATGGTCTTACACT-G-ACACACCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGG
38833455 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGG
* * * *
38833501 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGG
* *
38833547 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGG
38833595 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
38833625 AGCACACACA
Statistics
Matches: 217, Mismatches: 34, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
44 10 0.05
45 16 0.07
46 72 0.33
47 30 0.14
48 26 0.12
49 31 0.14
50 29 0.13
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGG
Found at i:38833573 original size:94 final size:92
Alignment explanation
Indices: 38833454--38833627 Score: 280
Period size: 94 Copynumber: 1.9 Consensus size: 92
38833444 ACACCTCGTA
*
38833454 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAG
38833517 ACATGTCTTACACTAGCTCTCGTCTCAAT
64 ACATGTCTTACACTAGCTCTCGTCTCAAT
*
38833546 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAG
38833611 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
38833628 ACACACACAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
92 7 0.09
93 14 0.18
94 53 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:38833608 original size:140 final size:143
Alignment explanation
Indices: 38833310--38833624 Score: 365
Period size: 140 Copynumber: 2.2 Consensus size: 143
38833300 GGGTATAATA
* * *
38833310 CCGATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAGTCGAGGCTGACGCTATGTCCCA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAAACTCGAGGCCGACGCTATGTCCCA
* * *
38833375 AACATGGTCTTACACTAACTCTCACATATACATGTCGATGCCATGTCCCAGGCATGGTCTTACAC
64 AACATGGTCTTACACTAACTCTCACATACACATGCCGATGCCATGTCCCAGACATGGTCTTACAC
*
38833440 TGACACACCTCGTAG
129 TGACACACATCGTAG
* * * *
38833455 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCCGATGC-ATGTCCCAG
1 CCGATGCATGTCCCAGACATGTCTTACACTGACTATCA-AACTCGAGGCCGACGCTATGTCCCAA
* *
38833517 ACAT-GTCTTACACTAGCTCTCGTC-T-CA-ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
65 ACATGGTCTTACACTAACTCTC-ACATACACATGCCGATGCCATGTCCCAGACATGGTCTTACAC
* * * * *
38833578 TGGCTCTCATAATGTGG
129 TGACACACAT--CGTAG
38833595 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
38833625 AGCACACACA
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
138 38 0.26
139 1 0.01
140 50 0.34
141 14 0.09
142 13 0.09
143 12 0.08
144 14 0.09
145 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (143 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACTATCAAACTCGAGGCCGACGCTATGTCCCAAA
CATGGTCTTACACTAACTCTCACATACACATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
ACACACATCGTAG
Found at i:38835750 original size:26 final size:26
Alignment explanation
Indices: 38835721--38835794 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
38835711 AATACTTATA
38835721 TTATATTATTTTAATATTTAATAAT-T
1 TTATATTATTTTAATATTTAA-AATCT
** * *
38835747 TTATACAATTTTAATTTATTGAACATCT
1 TTATATTATTTTAA--TATTTAAAATCT
*
38835775 TTACATTATTTTAATATTTA
1 TTATATTATTTTAATATTTA
38835795 CATTAGAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
26 17 0.46
27 2 0.05
28 18 0.49
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (26 bp):
TTATATTATTTTAATATTTAAAATCT
Found at i:38837544 original size:26 final size:26
Alignment explanation
Indices: 38837508--38837584 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
38837498 TTTAAATAAA
* * *
38837508 CAGTTAATAGAATTAGTTGGTCAAAT
1 CAGTTACTAGAATCAATTGGTCAAAT
38837534 CAGTTACTAGAATCAATTGGTCAAAT
1 CAGTTACTAGAATCAATTGGTCAAAT
*
38837560 CAATTACTAGAATCAATTGGTCAAA
1 CAGTTACTAGAATCAATTGGTCAAA
38837585 CTAGCCACTG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (26 bp):
CAGTTACTAGAATCAATTGGTCAAAT
Found at i:38837638 original size:53 final size:53
Alignment explanation
Indices: 38837581--38837689 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
38837571 ATCAATTGGT
38837581 CAAACTAGCCACTGCAATCAGTAATAAAATGTTAGCTATTAGCAAATTGCAAA
1 CAAACTAGCCACTGCAATCAGTAATAAAATGTTAGCTATTAGCAAATTGCAAA
38837634 CAAACTAGCCACTGCAATCAGTAATAAAATGTTAGCTATTAGCAAATTGCAAA
1 CAAACTAGCCACTGCAATCAGTAATAAAATGTTAGCTATTAGCAAATTGCAAA
38837687 CAA
1 CAA
38837690 GGCCTTAAGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (53 bp):
CAAACTAGCCACTGCAATCAGTAATAAAATGTTAGCTATTAGCAAATTGCAAA
Found at i:38842619 original size:20 final size:21
Alignment explanation
Indices: 38842596--38842638 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38842586 AAACATGAGT
38842596 ATTTTG-ATGTTTAATGATAG
1 ATTTTGAATGTTTAATGATAG
**
38842616 ATTTTGAATGTTTGTTGATAG
1 ATTTTGAATGTTTAATGATAG
38842637 AT
1 AT
38842639 ATACTGTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (21 bp):
ATTTTGAATGTTTAATGATAG
Found at i:38843564 original size:27 final size:26
Alignment explanation
Indices: 38843531--38843873 Score: 224
Period size: 27 Copynumber: 12.8 Consensus size: 26
38843521 ATACCCCCAA
*
38843531 TTGTAAAATTACCAAAGTACCCCCGGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* * * *
38843558 TTATAAAATTATCGAAATACCGTC-GA
1 TTGTAAAATTA-CCAAATACCCTCGGT
* *
38843584 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* **
38843611 TTGTAAAATTATCGAAATACCCTCGAC
1 TTGTAAAATTA-CCAAATACCCTCGGT
* *
38843638 TTGTAAAATTACCAAAGTACCCCCAGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* * * * *
38843665 TTATAAAACTACCCAAATATCCTTGAT
1 TTGTAAAATTA-CCAAATACCCTCGGT
* * *
38843692 TTGTAAAATTACTGAAATACCGTC-GA
1 TTGTAAAATTAC-CAAATACCCTCGGT
* **
38843718 TTGTAAAATTACTGAAATACCCTCAAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
* * * *
38843745 TTGTAAAATTACCGAAATATCAT-TGA
1 TTGTAAAATTACC-AAATACCCTCGGT
* *
38843771 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGGT
*
38843798 TTGTAAAATTACCGAAATACCCTCAGT
1 TTGTAAAATTACC-AAATACCCTCGGT
* ** **
38843825 TTGCAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTA-CCAAATACCCTCGGT
*
38843852 TTGTAAAATTATCAAAGTACCC
1 TTGTAAAATTACCAAA-TACCC
38843874 CCGATTTACA
Statistics
Matches: 246, Mismatches: 56, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
25 1 0.00
26 72 0.29
27 163 0.66
28 10 0.04
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGGT
Found at i:38843568 original size:53 final size:52
Alignment explanation
Indices: 38843510--38843876 Score: 269
Period size: 53 Copynumber: 6.9 Consensus size: 52
38843500 TTAGTTTACC
* *
38843510 AAATTACTGAAATACCCCCAATTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCCCGAATTGTAAAATTACCAAA-TACCCCCGGTTTGTA
* * * *
38843563 AAATTA-TCGAAATACCGTCG-ATTGTAAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACC-CCGAATTGTAAAATTAC-CAAATACCCCCGGTTTGTA
* * *
38843616 AAATTA-TCGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAGTTTATA
1 AAATTACT-GAAATACCC-CGAATTGTAAAATTACCAAA-TACCCCCGGTTTGTA
* ** ** * * ** *
38843670 AAACTACCCAAATATCCTTGATTTGTAAAATTACTGAAATACCGTC-GATTGTA
1 AAATTACTGAAATA-CCCCGAATTGTAAAATTAC-CAAATACCCCCGGTTTGTA
* *** *
38843723 AAATTACTGAAATACCCTC-AATTTGTAAAATTACCGAAATA-TCATTGATTGTA
1 AAATTACTGAAATACCC-CGAA-TTGTAAAATTACC-AAATACCCCCGGTTTGTA
* * * *
38843776 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCC-CGAATTGTAAAATTACC-AAATACCCCCGGTTTGTA
* * *
38843830 AAATTATTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCCCG
1 AAATTACTGAAATACCC-CGAATTGTAAAATTACCAAA-TACCCCCG
38843877 ATTTACAGAA
Statistics
Matches: 251, Mismatches: 47, Indels: 31
0.76 0.14 0.09
Matches are distributed among these distances:
52 4 0.02
53 141 0.56
54 101 0.40
55 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (52 bp):
AAATTACTGAAATACCCCGAATTGTAAAATTACCAAATACCCCCGGTTTGTA
Found at i:38843942 original size:27 final size:27
Alignment explanation
Indices: 38843912--38844322 Score: 520
Period size: 27 Copynumber: 15.2 Consensus size: 27
38843902 CGATTTAAAA
*
38843912 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38843939 AATTGCTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38843966 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
38843993 AAATACTGAAATACCGTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38844020 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
38844047 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
38844074 AATTAAC-GAAATACCGTTGTAGGGTAG
1 AATT-ACTGAAATACCCCTGTAGGGTAG
*
38844101 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
38844128 GATTATTGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
38844155 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38844182 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
38844209 AATTACTGAAATACCCCTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
38844236 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38844263 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * ** * *
38844290 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
38844317 AATTAC
1 AATTAC
38844323 CATTTTTCCC
Statistics
Matches: 333, Mismatches: 47, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 328 0.98
28 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:38844003 original size:81 final size:81
Alignment explanation
Indices: 38843919--38844304 Score: 585
Period size: 81 Copynumber: 4.8 Consensus size: 81
38843909 AAAAATTATT
* * * *
38843919 GAAATACCCCTGTAGGGTAGAATTGCTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTT
1 GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
*
38843984 GTAGGGTAGAAATACT
66 GTAGGGTAGAAATACC
* *
38844000 GAAATACCGTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
1 GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
* *
38844065 GTAGGGTAGAATTAAC
66 GTAGGGTAGAAATACC
* * *
38844081 GAAATACCGTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGGATTATTGAAATACCCCT
1 GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
*
38844146 GTAGGATAGAAATACC
66 GTAGGGTAGAAATACC
38844162 GAAATACCCTTGTAGGGTAGAAATA-TCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
1 GAAATACCCTTGTAGGGTAGAAATACT-GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCC
* * *
38844226 TATAGGATAGAATTACC
65 TGTAGGGTAGAAATACC
* * *
38844243 AAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACC
1 GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACC
38844305 TTTGTGGGGT
Statistics
Matches: 280, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
80 1 0.00
81 278 0.99
82 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (81 bp):
GAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCT
GTAGGGTAGAAATACC
Found at i:38844803 original size:22 final size:22
Alignment explanation
Indices: 38844751--38844815 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
38844741 TTAAAGCCTT
* *
38844751 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
38844773 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
38844795 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
38844816 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:38845010 original size:26 final size:26
Alignment explanation
Indices: 38844975--38845052 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
38844965 TTCTGTTAAG
*
38844975 TGGCTTTGCCACATTATCTGTTCTGA
1 TGGCTTTGCCACAATATCTGTTCTGA
* *
38845001 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTTTGCCACAATATCTGT-TCTGA
* *
38845028 TGACTTTGTCACAATATCTGTTCTG
1 TGGCTTTGCCACAATATCTGTTCTG
38845053 GCAGCCATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (26 bp):
TGGCTTTGCCACAATATCTGTTCTGA
Found at i:38845040 original size:27 final size:26
Alignment explanation
Indices: 38844978--38845053 Score: 98
Period size: 27 Copynumber: 2.9 Consensus size: 26
38844968 TGTTAAGTGG
* * *
38844978 CTTTGCCACATTATCTGTTCTGATGG
1 CTTTGCCACAATATCTGTTCTGGTGA
*
38845004 CTCTGCCACAATATCTGTATCTGGTGA
1 CTTTGCCACAATATCTGT-TCTGGTGA
*
38845031 CTTTGTCACAATATCTGTTCTGG
1 CTTTGCCACAATATCTGTTCTGG
38845054 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (26 bp):
CTTTGCCACAATATCTGTTCTGGTGA
Found at i:38845180 original size:6 final size:6
Alignment explanation
Indices: 38845171--38845249 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
38845161 TTGCATTCAC
* * *
38845171 ATTCTG ATTCTG ATTCTG -TCACCTG ATACTG ATTCTG ATTCT- ATCACCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
38845221 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
38845250 AGTTTCGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 5 0.09
8 3 0.05
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:38845202 original size:25 final size:25
Alignment explanation
Indices: 38845174--38845237 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
38845164 CATTCACATT
*
38845174 CTGATTCTGATTCTGTCACCTGATA
1 CTGATTCTGATTCTATCACCTGATA
*
38845199 CTGATTCTGATTCTATCACCTGATT
1 CTGATTCTGATTCTATCACCTGATA
*
38845224 CTGATTCTAATTCT
1 CTGATTCTGATTCT
38845238 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:38847062 original size:27 final size:27
Alignment explanation
Indices: 38846981--38847266 Score: 285
Period size: 27 Copynumber: 10.7 Consensus size: 27
38846971 TTACTTTACC
* *
38846981 AAATTACTGAAATACCC-CCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
38847007 AAATTAC-CAAAGTACCC-CGGGTTTATA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
** * *
38847034 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
38847061 AAATTACTGAAATACCGTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
38847087 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
38847114 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
38847141 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
38847168 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
38847195 AAATTA-TCAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* * *** * **
38847222 GAATTACCGTTTTACCCTCAATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
38847249 AAATTATTGAAATACCCT
1 AAATTACTGAAATACCCT
38847267 TGTAGGGTAG
Statistics
Matches: 214, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
25 3 0.01
26 42 0.20
27 164 0.77
28 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:38847116 original size:80 final size:80
Alignment explanation
Indices: 38846981--38847200 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
38846971 TTACTTTACC
* * * * *
38846981 AAATTACTGAAATACCCCCAGTTGTAAAATTAC-CAAAGTACCC-CGGGTTTATAAAATTACCCA
1 AAATTACTGAAATACCTCGAGTTGTAAAATTACTGAAA-TACCCTC-GATTTGTAAAATTACCCA
*
38847044 AATATCCTCAATTTGTA
64 AATACCCTCAATTTGTA
*
38847061 AAATTACTGAAATACCGTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACC-TCGAGTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCCAA
38847125 ATACCCTCAATTTGTA
65 ATACCCTCAATTTGTA
* *
38847141 AAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTA
1 AAATTACTGAAATA-CCTCGAGTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTA
38847201 TCAAAGTACC
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
80 82 0.65
81 45 0.35
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCTCGAGTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACCCAAA
TACCCTCAATTTGTA
Found at i:38847280 original size:27 final size:27
Alignment explanation
Indices: 38847257--38847763 Score: 547
Period size: 27 Copynumber: 18.9 Consensus size: 27
38847247 CAAAATTATT
* *
38847257 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
38847284 AAAATACCTTTGTAGGGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
38847311 GAAATACCCTTGTAGGGTAGAAATGCC
1 GAAATACCCTTGTAGGGTAGAAATACC
38847338 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
38847365 GAAATACCCCTGTAGAGTAGAATTGCT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
38847392 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
** **
38847419 TTAATACCCTTAAAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
38847446 GAAATACCCTTATA-GGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
38847472 GATATA-CCTCTGTAGGATAGAATTACT
1 GAAATACCCT-TGTAGGGTAGAAATACC
* * *
38847499 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
38847526 GAAATACCCTTGTAGGGTA-AAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
38847552 GAAATACCC-TGTACGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
38847578 GAAATACCCCTATAGGATAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
38847605 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
38847632 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
38847659 GAAATACCCCTTGTAGGATAGAATTATC
1 GAAATA-CCCTTGTAGGGTAGAAATACC
* *
38847687 GAAATACCCTTGTAGAGTAAAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
38847714 GAAATACCCCTGCAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
38847741 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
38847764 TACCATTTTG
Statistics
Matches: 403, Mismatches: 71, Indels: 13
0.83 0.15 0.03
Matches are distributed among these distances:
25 11 0.03
26 51 0.13
27 316 0.78
28 25 0.06
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:38848247 original size:22 final size:22
Alignment explanation
Indices: 38848194--38848259 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
38848184 CTTAAAGCCT
38848194 TCTGATTATGGCTTTGTGCCAA
1 TCTGATTATGGCTTTGTGCCAA
* *
38848216 CCT-ACATATGGCTTTGTGCCAA
1 TCTGA-TTATGGCTTTGTGCCAA
38848238 TCTGATTATGG-TTGTGTGCCAA
1 TCTGATTATGGCTT-TGTGCCAA
38848260 ACGTATTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 3 0.08
22 33 0.89
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (22 bp):
TCTGATTATGGCTTTGTGCCAA
Found at i:38848624 original size:6 final size:6
Alignment explanation
Indices: 38848615--38848714 Score: 80
Period size: 6 Copynumber: 16.3 Consensus size: 6
38848605 TTGCATTCAC
* * *
38848615 ATTCTG ATTCTG ATTCAG -TTACTTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
38848665 ATTCTG ATTCTG ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
38848713 AT
1 AT
38848715 AATGTTTCTT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38848681 original size:25 final size:25
Alignment explanation
Indices: 38848615--38848682 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
38848605 TTGCATTCAC
* * *
38848615 ATTCTGATTCTGATTCAGTTACTTG
1 ATTCTGATTCTGATTCTGTCACCTG
*
38848640 ATACTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGTCACCTG
38848665 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
38848683 ATTCTAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:38852889 original size:63 final size:63
Alignment explanation
Indices: 38852790--38852915 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
38852780 TACAGTTTCT
38852790 GGTGTTAGTCTTGGATGTCCTATTGATGGCTGAGGTCTTGCATTTGTTGCAAATTCTCCATAG
1 GGTGTTAGTCTTGGATGTCCTATTGATGGCTGAGGTCTTGCATTTGTTGCAAATTCTCCATAG
*
38852853 GGTGTTAGTCTTGGATGTCTTATTGATGGCTGAGGTCTTGCATTTGTTGCAAATTCTCCATAG
1 GGTGTTAGTCTTGGATGTCCTATTGATGGCTGAGGTCTTGCATTTGTTGCAAATTCTCCATAG
38852916 CTCATATGAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.40
Consensus pattern (63 bp):
GGTGTTAGTCTTGGATGTCCTATTGATGGCTGAGGTCTTGCATTTGTTGCAAATTCTCCATAG
Found at i:38867024 original size:92 final size:93
Alignment explanation
Indices: 38866913--38867082 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
38866903 CGCCCTAAGT
* *
38866913 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACT-GGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38866977 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
38867005 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38867070 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38867083 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 48 0.65
93 26 0.35
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38867072 original size:46 final size:46
Alignment explanation
Indices: 38866908--38867079 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
38866898 TAACCCGCCC
* * *
38866908 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38866954 TAAGTGAACT-GGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
38867001 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38867046 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38867080 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 23 0.22
46 44 0.42
47 25 0.24
48 1 0.01
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38874586 original size:46 final size:46
Alignment explanation
Indices: 38874482--38874610 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
38874472 ATGTAACCGC
38874482 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAG-T
* * * *
38874528 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-T
1 CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGC-CTAGT
38874574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38874611 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.03
46 62 0.87
47 2 0.03
48 4 0.06
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAGT
Found at i:38877024 original size:30 final size:30
Alignment explanation
Indices: 38876990--38877049 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38876980 CTTTAATACG
38876990 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
38877020 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
38877050 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:38889629 original size:14 final size:13
Alignment explanation
Indices: 38889592--38889647 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
38889582 GGTATAAAAA
38889592 GATATATG-AATG
1 GATATATGAAATG
* *
38889604 AGTTATACGAAATG
1 -GATATATGAAATG
*
38889618 GATATATGGAAATA
1 GATATAT-GAAATG
*
38889632 GATTTATGAAATG
1 GATATATGAAATG
38889645 GAT
1 GAT
38889648 TCTTGAAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 19 0.56
14 15 0.44
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (13 bp):
GATATATGAAATG
Found at i:38893717 original size:37 final size:35
Alignment explanation
Indices: 38893687--38893796 Score: 132
Period size: 37 Copynumber: 3.0 Consensus size: 35
38893677 TGTTTTTGGT
*
38893687 TGGACTAGCTCTTATAAGCATCTAGCGTGTTATCGAG
1 TGGATTAGCTCTTATAAGCATCT-GCGTGTTATCG-G
*
38893724 TGGATTAGCTCTTA-AGAGCATCTGGCATGTTATCGG
1 TGGATTAGCTCTTATA-AGCATCT-GCGTGTTATCGG
*
38893760 ATGGATTAGCTCTTATGAGCATCTGACGTGTTATCGG
1 -TGGATTAGCTCTTATAAGCATCTG-CGTGTTATCGG
38893797 GCGAATTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
36 3 0.05
37 61 0.95
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (35 bp):
TGGATTAGCTCTTATAAGCATCTGCGTGTTATCGG
Found at i:38893830 original size:50 final size:50
Alignment explanation
Indices: 38893755--38893855 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
38893745 CTGGCATGTT
*
38893755 ATCGGATGGATTAGCTCTTATGAGCATCTGACGTGTTATCGGGCGAATTA
1 ATCGGATGGATTAGCTCTTATGAGCATCTAACGTGTTATCGGGCGAATTA
*
38893805 ATCGGATGGATTAGCTCTTATGAGCATCTAATGTGTTATCGGGCGAATTA
1 ATCGGATGGATTAGCTCTTATGAGCATCTAACGTGTTATCGGGCGAATTA
38893855 A
1 A
38893856 CTCTTACGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (50 bp):
ATCGGATGGATTAGCTCTTATGAGCATCTAACGTGTTATCGGGCGAATTA
Found at i:38902529 original size:2 final size:2
Alignment explanation
Indices: 38902522--38902575 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
38902512 AGTCACCTAT
38902522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38902564 TA TA TA TA TA TA
1 TA TA TA TA TA TA
38902576 CTGAGCTCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38902924 original size:47 final size:47
Alignment explanation
Indices: 38902822--38902941 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
38902812 TCTCGAGGCT
**
38902822 GATGCATGTCCCAGACATGTCTTA-AACTAGCTCTCATCTTAATACC
1 GATGCATGTCCCAGACATGTCTTACAACTAGCTCTCATAATAATACC
* * *
38902868 GATGCCATGTCCCAGACATCGTCTTACAA-TGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACAACTAGCTCTCATAATAAT-ACC
38902916 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
38902942 CTGGTTCACA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
46 12 0.18
47 29 0.45
48 22 0.34
49 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACAACTAGCTCTCATAATAATACC
Found at i:38909867 original size:46 final size:47
Alignment explanation
Indices: 38909693--38909955 Score: 229
Period size: 46 Copynumber: 5.6 Consensus size: 47
38909683 GTGCCAATGC
* *
38909693 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCGAGGCCGATG
* * * *
38909739 CCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCTGTTG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCG-AGGCCGATG
* * * *
38909787 CTTGTCCCA-AGCAT-GTCTTACCCTGGCT-TACGTCTCGAGGCCGTTG
1 CATGTCCCAGA-CATGGTCTTACACTGGCTCT-CATCTCGAGGCCGATG
* * * *
38909833 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAGGCCGATG
** * * *
38909879 CCATGTCCCAGACATCTTCTTACACTAGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCGAGGCCGATG
38909927 CATGTCCCAGACAT-GTCTTACACTGGCTC
1 CATGTCCCAGACATGGTCTTACACTGGCTC
38909956 ACAAACAAAT
Statistics
Matches: 181, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.01
46 75 0.41
47 74 0.41
48 28 0.15
49 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCGAGGCCGATG
Found at i:38909924 original size:48 final size:46
Alignment explanation
Indices: 38909825--38909955 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 46
38909815 TACGTCTCGA
* *
38909825 GGCCGTTGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAAT
*
38909872 -GCCGATGCCATGTCCCAGACATCTTCTTACACTAGCTCTC-AT-AATGT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGATCAA--T
*
38909919 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
38909956 ACAAACAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.03
46 20 0.27
47 29 0.39
48 23 0.31
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAAT
Found at i:38909945 original size:140 final size:140
Alignment explanation
Indices: 38909693--38909954 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 140
38909683 GTGCCAATGC
* * *
38909693 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATCGTC
* * * * *
38909758 TTACACTGACTATCATCTCGTAGCTGTTGCTTGTCCCAAGCATGTCTTACCCTGGCTTACGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACGTCTC
38909823 GAGGCCGTTG
131 GAGGCCGTTG
* *
38909833 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGACATCT
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAGACATCG
* *
38909896 TCTTACACT-AGCTCTCATAAT-GTGGCCGATGCATGTCCC-AGACATGTCTTACACTGGCT
64 TCTTACACTGA-CTATCAT-ATCGTAGCCGATGCATGTCCCAAG-CATGTCTTACACTGGCT
38909955 CACAAACAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
138 1 0.01
139 23 0.22
140 80 0.76
141 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATCGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACGTCTC
GAGGCCGTTG
Found at i:38913715 original size:40 final size:40
Alignment explanation
Indices: 38913623--38913797 Score: 163
Period size: 40 Copynumber: 4.3 Consensus size: 40
38913613 TGGTGTCCAA
* * * *
38913623 GCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGG
* *
38913664 G-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGG
1 GCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGG
* * * * *
38913704 GTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGG
* * * * * *
38913744 GCTAATTCCCGAAGGAAATTGTGCGAATCACTATAACCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGG
*
38913784 GCTATGTCCCGAAG
1 GCTAAGTCCCGAAG
38913798 ACAATCGAGC
Statistics
Matches: 107, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
40 86 0.80
41 21 0.20
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGG
Found at i:38913766 original size:80 final size:80
Alignment explanation
Indices: 38913623--38913837 Score: 193
Period size: 80 Copynumber: 2.7 Consensus size: 80
38913613 TGGTGTCCAA
* * * * *
38913623 GCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGAAATTGTGC
* *
38913688 GAGTTACCAAAACCGG
65 GAATCACCAAAACCGG
* * * * *
38913704 GTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCTGGG-CTAATTCCCGAAGGAAATTGTGC
1 GCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGAAATTGTGC
* *
38913768 GAATCACTATAACCGG
65 GAATCACCAAAACCGG
* * * * * * *
38913784 GCTATGTCCCGAAGACAATCGAGCGAGTCG-CTATATCC-GGTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGGCATTCGTGCGAGT-GACTAAATCCGGGTCAACTCCCGAAGG
38913838 TACGTGATTC
Statistics
Matches: 106, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
79 14 0.13
80 71 0.67
81 21 0.20
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGAAATTGTGCG
AATCACCAAAACCGG
Found at i:38916774 original size:40 final size:40
Alignment explanation
Indices: 38916689--38916839 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
38916679 AATTGAATGA
* * *
38916689 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
38916729 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
38916770 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
38916809 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
38916840 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:38916853 original size:40 final size:40
Alignment explanation
Indices: 38916726--38916855 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
38916716 ATGCTGGAAA
* * * *
38916726 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
38916766 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
38916806 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
38916846 TTATATCCGG
1 TTATATCCGG
38916856 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:38919952 original size:49 final size:49
Alignment explanation
Indices: 38919883--38920133 Score: 466
Period size: 49 Copynumber: 5.1 Consensus size: 49
38919873 GTACATAATA
38919883 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
38919932 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
38919981 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38920030 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
38920079 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38920128 ATATAT
1 ATATAT
38920134 ATGTGGTAAA
Statistics
Matches: 198, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 198 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:38920256 original size:37 final size:37
Alignment explanation
Indices: 38920215--38920329 Score: 221
Period size: 37 Copynumber: 3.1 Consensus size: 37
38920205 GTTCCGGTTG
38920215 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
38920252 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
*
38920289 CGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
38920326 AGAC
1 AGAC
38920330 TTCGTAATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
Found at i:38926113 original size:48 final size:48
Alignment explanation
Indices: 38926004--38926218 Score: 253
Period size: 48 Copynumber: 4.6 Consensus size: 48
38925994 ATGTGTAACC
* * * *
38926004 GTGTAAGACCATATCTGGGATATGGCATCGGC------ATGTGATCCC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCA
* * *
38926046 GTATAAGACCATGTTTGGGACATGGCATCGGTATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCA
* *
38926094 GTGTAAGACCATGCCTGGGACATGGCATTGGCATTGTTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCA
* * **
38926142 ATGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCA
* *
38926190 GTGCAAGACCATGTCTGGTACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
38926219 AACATGAGGC
Statistics
Matches: 145, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 27 0.19
48 118 0.81
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCA
Found at i:38928787 original size:53 final size:55
Alignment explanation
Indices: 38928678--38928791 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 55
38928668 TTTTAGCATT
* ** *
38928678 TTATATTATTTTTAAGTATGTTTCATTTTCTTGCATAAGGAATAAGTTTGTGTTA
1 TTATATTATTTTTAAATATGTTTCATTTTCTTGCATAAAAAAAAAGTTTGTGTTA
*
38928733 TTATGTTA-TTTTAAATATG-TTCATTTTCTTG-ATTCAAAAAAAAAGTTTGT-TTA
1 TTATATTATTTTTAAATATGTTTCATTTTCTTGCA-T-AAAAAAAAAGTTTGTGTTA
38928786 TT-TATT
1 TTATATT
38928792 TACTTATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
52 4 0.08
53 18 0.35
54 22 0.43
55 7 0.14
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (55 bp):
TTATATTATTTTTAAATATGTTTCATTTTCTTGCATAAAAAAAAAGTTTGTGTTA
Found at i:38930147 original size:14 final size:14
Alignment explanation
Indices: 38930128--38930154 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38930118 TTAAGTATGA
38930128 TGAACCATTAACTT
1 TGAACCATTAACTT
38930142 TGAACCATTAACT
1 TGAACCATTAACT
38930155 AGAGATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (14 bp):
TGAACCATTAACTT
Found at i:38940301 original size:25 final size:25
Alignment explanation
Indices: 38940249--38940301 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
38940239 GCACTTTCTC
* * *
38940249 GAGCCATATAACAGGATGCTCATGT
1 GAGCCATATAACAAGAAGCTCATCT
* *
38940274 GAGCCATATAATAAGAAGCTTATCT
1 GAGCCATATAACAAGAAGCTCATCT
38940299 GAG
1 GAG
38940302 ATAATTTAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCCATATAACAAGAAGCTCATCT
Found at i:38945831 original size:22 final size:23
Alignment explanation
Indices: 38945784--38945835 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
38945774 TATAATAGTT
*
38945784 TTTAATTTATATCAATATCAATA
1 TTTATTTTATATCAATATCAATA
38945807 TTTATTTTAATAT-AATATCAA-A
1 TTTATTTT-ATATCAATATCAATA
38945829 TTTATTT
1 TTTATTT
38945836 AATTTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.30
23 15 0.56
24 4 0.15
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATTTTATATCAATATCAATA
Found at i:38948559 original size:28 final size:28
Alignment explanation
Indices: 38948519--38948575 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
38948509 GTTGAAAGTT
38948519 TGAAGTGTGCAACTAAAGGTGTACTAAC
1 TGAAGTGTGCAACTAAAGGTGTACTAAC
* *
38948547 TGAAGTGTGCAACTGAGGGTGTACTAAC
1 TGAAGTGTGCAACTAAAGGTGTACTAAC
38948575 T
1 T
38948576 AGTTTAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (28 bp):
TGAAGTGTGCAACTAAAGGTGTACTAAC
Found at i:38948562 original size:13 final size:13
Alignment explanation
Indices: 38948519--38948562 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
38948509 GTTGAAAGTT
38948519 TGAAGTGTGCAAC
1 TGAAGTGTGCAAC
* *
38948532 TAAAGGTGTACTAAC
1 TGAA-GTGTGC-AAC
38948547 TGAAGTGTGCAAC
1 TGAAGTGTGCAAC
38948560 TGA
1 TGA
38948563 GGGTGTACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 9 0.36
14 10 0.40
15 6 0.24
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (13 bp):
TGAAGTGTGCAAC
Found at i:38951992 original size:19 final size:18
Alignment explanation
Indices: 38951968--38952003 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
38951958 AAGTAAAATA
38951968 TAATGTGAAAATTGAATTT
1 TAATGTG-AAATTGAATTT
*
38951987 TAATGTGGAATTGAATT
1 TAATGTGAAATTGAATT
38952004 GTGTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (18 bp):
TAATGTGAAATTGAATTT
Found at i:38952738 original size:43 final size:42
Alignment explanation
Indices: 38952663--38952747 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
38952653 TATGTGATTG
*
38952663 ATATTGAAATGGCAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGCAAAATGAGAAATGAATATGAGATAAGAAA
*
38952705 ATATTGAAATGGCAAAGATGAGAAATGATTATGAGATAAGAAA
1 ATATTGAAATGGCAAA-ATGAGAAATGAATATGAGATAAGAAA
38952748 TGAAATATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 16 0.40
43 24 0.60
ACGTcount: A:0.52, C:0.02, G:0.24, T:0.22
Consensus pattern (42 bp):
ATATTGAAATGGCAAAATGAGAAATGAATATGAGATAAGAAA
Found at i:38954673 original size:29 final size:29
Alignment explanation
Indices: 38954638--38954992 Score: 218
Period size: 29 Copynumber: 12.2 Consensus size: 29
38954628 TAATCGACTA
* *
38954638 ATGAAAAGGGATAATTTTGGCCATCGAAT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
*
38954667 ATGAAAAGGGATAGTTTCGACCATCGAAT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* * *
38954696 ATGAAAAAGGATAGCTTCAGCCATCGAAT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* * ** * *
38954725 ATAAAAAGGTATAAATTCGGCTATTGAAT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* ** *
38954754 ATGAAAAGGGATAGCTTCGGTTATCGATT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* *
38954783 ATGAAAAGGGATAGTGAT-GACCATC-AACT
1 ATGAAAAGGGATAGT-TTCGGCCATCGAA-T
* ** * * * *
38954812 ATGAAAAGGGATGGTGACGACCAACAAAA
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* * * * *
38954841 ATGAAAAAGGATTGCTTCGACTATCGAAT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* *
38954870 ATG-AAAGGGATAGCTTT-GGCTATCGATT
1 ATGAAAAGGGATAG-TTTCGGCCATCGAAT
* * *
38954898 ATGAAAAGGGATGGTGAT-GACCATC-AACT
1 ATGAAAAGGGATAGT-TTCGGCCATCGAA-T
* ** * **
38954927 ATGAAAAGGGATGGTGACGACCATCGGTT
1 ATGAAAAGGGATAGTTTCGGCCATCGAAT
* **
38954956 AATGAAAAGGGATGGTTTCAACCATCGAAT
1 -ATGAAAAGGGATAGTTTCGGCCATCGAAT
38954986 ATGAAAA
1 ATGAAAA
38954993 TGGACGATTA
Statistics
Matches: 254, Mismatches: 61, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
28 23 0.09
29 204 0.80
30 27 0.11
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGTTTCGGCCATCGAAT
Found at i:38954915 original size:115 final size:116
Alignment explanation
Indices: 38954740--38954949 Score: 368
Period size: 115 Copynumber: 1.8 Consensus size: 116
38954730 AAGGTATAAA
* * *
38954740 TTCGGCTATTGAATATGAAAAGGGATAGCTTCGGTTATCGATTATGAAAAGGGATAGTGATGACC
1 TTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACC
38954805 ATCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAAGGATTGC
66 ATCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAAGGATTGC
* *
38954856 TTCGACTATCGAATATG-AAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGACC
1 TTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACC
38954920 ATCAACTATGAAAAGGGATGGTGACGACCA
66 ATCAACTATGAAAAGGGATGGTGACGACCA
38954950 TCGGTTAATG
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 74 0.83
116 15 0.17
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.24
Consensus pattern (116 bp):
TTCGACTATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACC
ATCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAAGGATTGC
Found at i:38954964 original size:115 final size:116
Alignment explanation
Indices: 38954740--38954991 Score: 355
Period size: 115 Copynumber: 2.2 Consensus size: 116
38954730 AAGGTATAAA
* * *
38954740 TTCGGCTATTGAATATGAAAAGGGATAGCTTCGGTTATCGATTATGAAAAGGGATAGTGATGACC
1 TTCGACTATCGAATATG-AAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACC
*
38954805 ATCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAA-GGATTGC
65 ATCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAAGGGATGGC
* *
38954856 TTCGACTATCGAATATGAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGACCA
1 TTCGACTATCGAATATGAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACCA
* *** *
38954921 TCAACTATGAAAAGGGATGGTGACGACCATCGGTTAATG-AAAAGGGATGGT
66 TCAACTATGAAAAGGGATGGTGACGACCAAC-AAAAATGAAAAAGGGATGGC
* *
38954972 TTCAACCATCGAATATGAAA
1 TTCGACTATCGAATATGAAA
38954992 ATGGACGATT
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
115 79 0.65
116 42 0.35
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (116 bp):
TTCGACTATCGAATATGAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTGATGACCA
TCAACTATGAAAAGGGATGGTGACGACCAACAAAAATGAAAAAGGGATGGC
Found at i:38962207 original size:22 final size:23
Alignment explanation
Indices: 38962175--38962225 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
38962165 TTAATATAAA
*
38962175 TATAATGTCAAAAACTTTAACT-
1 TATAATATCAAAAACTTTAACTC
* *
38962197 TATAATATCAAAATCTTTTACTC
1 TATAATATCAAAAACTTTAACTC
38962220 TATAAT
1 TATAAT
38962226 TCTGCTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (23 bp):
TATAATATCAAAAACTTTAACTC
Done.