Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 140 of 433
Found at i:43030989 original size:27 final size:27
Alignment explanation
Indices: 43030920--43031007 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
43030910 GTGACCAAGT
43030920 CACCAGATACAGATA-ATCGTGGCAGAGC
1 CACCAGAT-CAGATATAT-GTGGCAGAGC
* *
43030948 CACCAGAACAGATATATGTGGAAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
* * *
43030975 CACCAGATCAGATATTTGTAGCATAGC
1 CACCAGATCAGATATATGTGGCAGAGC
43031002 CACCAG
1 CACCAG
43031008 GACGCTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 43 0.83
28 9 0.17
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:43038218 original size:27 final size:27
Alignment explanation
Indices: 43038143--43038254 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
43038133 AGCATGGCTG
** * *
43038143 CCAGAACAGATA-ATGTAACCGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
43038169 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
*
43038197 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
43038224 CCATATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
43038251 CCAG
1 CCAG
43038255 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.07
27 52 0.72
28 15 0.21
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:43039576 original size:16 final size:16
Alignment explanation
Indices: 43039552--43039583 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43039542 CATTTGACCT
*
43039552 AGTCGAAACTTGCCCC
1 AGTCAAAACTTGCCCC
43039568 AGTCAAAACTTGCCCC
1 AGTCAAAACTTGCCCC
43039584 CTAAAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.19
Consensus pattern (16 bp):
AGTCAAAACTTGCCCC
Found at i:43052048 original size:23 final size:23
Alignment explanation
Indices: 43052007--43052178 Score: 188
Period size: 23 Copynumber: 7.3 Consensus size: 23
43051997 AAGCTCTTCC
*
43052007 TGAGCTGATAAACAATAAGCTCTAA
1 TGAGCTG--AAACAGTAAGCTCTAA
*
43052032 TGAGCTGAAACGGTAAGCTCTAA
1 TGAGCTGAAACAGTAAGCTCTAA
* **
43052055 TGAACTGAAATGGTAAGCTCT-A
1 TGAGCTGAAACAGTAAGCTCTAA
43052077 TCGAGCTG-AACAGTAAGCTC-ATA
1 T-GAGCTGAAACAGTAAGCTCTA-A
*
43052100 TGAGCTGAAACAGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTAA
* *
43052123 TGAGCTGAAAATAGTAAGCTCCAA
1 TGAGCTG-AAACAGTAAGCTCTAA
*
43052147 TGAGCTGAAAACAGTAAGCTCTTA
1 TGAGCTG-AAACAGTAAGCTCTAA
43052171 TGAGCTGA
1 TGAGCTGA
43052179 TATATCGGTA
Statistics
Matches: 130, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
22 18 0.14
23 61 0.47
24 44 0.34
25 7 0.05
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAA
Found at i:43052107 original size:68 final size:69
Alignment explanation
Indices: 43052007--43052193 Score: 209
Period size: 68 Copynumber: 2.6 Consensus size: 69
43051997 AAGCTCTTCC
* * *
43052007 TGAGCTGATAAACAATAAGCTCTAATGAGCTGAAACGGTAAGCTCTAATGAACTG-AAATGGTAA
1 TGAGCTG--AAACAGTAAGCTCT-ATGAGCTGAAACGGTAAGCTCCAATGAACTGAAAATAGTAA
*
43052071 GCT-CTA
63 GCTCCAA
* *
43052077 TCGAGCTG-AACAGTAAGCTCATATGAGCTGAAACAGTAAGCTCCAATGAGCTGAAAATAGTAAG
1 T-GAGCTGAAACAGTAAGCTC-TATGAGCTGAAACGGTAAGCTCCAATGAACTGAAAATAGTAAG
43052141 CTCCAA
64 CTCCAA
43052147 TGAGCTGAAAACAGTAAGCTCTTATGAGCTGATATATCGGTAAGCTC
1 TGAGCTG-AAACAGTAAGCTC-TATGAGCTGA-A-A-CGGTAAGCTC
43052194 ATACAATCTG
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
68 39 0.39
69 18 0.18
70 4 0.04
71 28 0.28
72 1 0.01
73 1 0.01
74 9 0.09
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (69 bp):
TGAGCTGAAACAGTAAGCTCTATGAGCTGAAACGGTAAGCTCCAATGAACTGAAAATAGTAAGCT
CCAA
Found at i:43054739 original size:43 final size:42
Alignment explanation
Indices: 43054640--43054761 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
43054630 TTAGGGTTAC
43054640 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
43054682 TAAGACTT-TGTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* *
43054725 TGAGGTTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
43054762 TGGTACGGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:43056665 original size:30 final size:29
Alignment explanation
Indices: 43056629--43056689 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
43056619 AATCAGAAGT
43056629 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
*
43056659 TTTGGCACTAAGTGTGTGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
43056688 TT
1 TT
43056690 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:43059264 original size:46 final size:46
Alignment explanation
Indices: 43059197--43059370 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
43059187 TGTAACCCGC
*
43059197 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
43059243 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
43059293 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
43059336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
43059371 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43059317 original size:93 final size:92
Alignment explanation
Indices: 43059204--43059374 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
43059194 CGCCCATAAG
** *
43059204 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43059269 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTC-GATGCCTAGTTACATCTCA
*
43059297 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43059362 ACGAGTTCGATGC
66 ACGAGTTCGATGC
43059375 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 5 0.07
93 69 0.93
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGATGCCTAGTTACATCTCA
Found at i:43066987 original size:46 final size:46
Alignment explanation
Indices: 43066920--43067091 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
43066910 TGTAACCCGC
* *
43066920 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
* * *
43066966 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCAT
* *
43067016 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
*
43067058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
43067092 GATGCTCAAG
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 3 0.03
44 2 0.02
45 26 0.25
46 32 0.30
47 26 0.25
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
Found at i:43067085 original size:92 final size:92
Alignment explanation
Indices: 43066927--43067096 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
43066917 CGCCCATAAG
* *
43066927 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43066992 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTC-GATGCCTAGTTACATCTCA
*
43067020 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43067084 ACGAGTTCGATGC
66 ACGAGTTCGATGC
43067097 TCAAGATCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 5 0.07
92 43 0.58
93 26 0.35
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGATGCCTAGTTACATCTCA
Found at i:43074167 original size:43 final size:43
Alignment explanation
Indices: 43074119--43074285 Score: 166
Period size: 43 Copynumber: 3.9 Consensus size: 43
43074109 ATCGAGATGT
43074119 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
43074162 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTTAATT--
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATTGA
*** * * *
43074205 GATTTTGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TG-A
* * *
43074249 -A-TATCATGTAAAACCATATCTGGGATA-TGGCATTGTA
1 GATTA-CATGTAAGACCATGTCTGGGACATTGGCATTGTA
43074286 CGAGCTTATG
Statistics
Matches: 102, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 8 0.08
43 87 0.85
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:43074265 original size:86 final size:85
Alignment explanation
Indices: 43074126--43074284 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 85
43074116 TGTGATTACA
* * * *
43074126 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACATGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATTGAGATTACATGTAAAACCATATCTGGGACA-
43074191 TGGCATTGTTAATTGATTTTG
65 TGGCATTGTTAATTGATTTTG
*
43074212 TGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTA-A-TATCATGTAAAACCATATCTGGGA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TG-AGATTA-CATGTAAAACCATATCTGGGA
*
43074274 TATGGCATTGT
63 CATGGCATTGT
43074285 ACGAGCTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 13 0.20
86 50 0.78
87 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (85 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTGAGATTACATGTAAAACCATATCTGGGACAT
GGCATTGTTAATTGATTTTG
Found at i:43090769 original size:22 final size:19
Alignment explanation
Indices: 43090731--43090770 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
43090721 TTATTAAATG
43090731 TAAATAAAACTATGAAAAC
1 TAAATAAAACTATGAAAAC
43090750 TAAACTAAAACATAATGAAAA
1 TAAA-TAAAAC-T-ATGAAAA
43090771 TGCTTGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 1 0.06
22 7 0.39
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (19 bp):
TAAATAAAACTATGAAAAC
Found at i:43093962 original size:78 final size:80
Alignment explanation
Indices: 43093867--43094016 Score: 207
Period size: 78 Copynumber: 1.9 Consensus size: 80
43093857 GGTTATAGCG
* * * *
43093867 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
43093929 TAGCCCGGGTTTATTA
65 TAGCCCGGGTTTATTA
** *
43093945 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
43094010 AGCCCGG
66 AGCCCGG
43094017 ACATCATTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.55
79 15 0.24
80 10 0.16
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGGTTTATTA
Found at i:43094017 original size:40 final size:39
Alignment explanation
Indices: 43093827--43094017 Score: 161
Period size: 40 Copynumber: 4.8 Consensus size: 39
43093817 GGATATAACG
* ** * **
43093827 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43093867 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
43093907 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGGTTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
43093945 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATATAGTA
* *
43093985 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
43094018 CATCATTCGA
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
38 25 0.20
39 21 0.17
40 69 0.56
41 8 0.07
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:43095823 original size:55 final size:54
Alignment explanation
Indices: 43095739--43095989 Score: 270
Period size: 55 Copynumber: 4.7 Consensus size: 54
43095729 GGGTTTAAGT
*
43095739 ATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGCAAGG
* * *
43095794 ATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCAAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC-AAGG
* * * *
43095850 -TTCCATGTAAGACCATGCCAAGGCATGTC-ATTGGTGAG-TTCATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGCAAGG
* *
43095902 ATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---AAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGG
* * *
43095951 ATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
43095990 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 39 0.23
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGCAAGG
Found at i:43095941 original size:108 final size:110
Alignment explanation
Indices: 43095742--43095942 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
43095732 TTTAAGTATA
43095742 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
43095807 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTT
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
* *
43095852 CCATGTAAGACCATGCCAAGGCATGTC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
43095914 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
43095943 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.58
109 7 0.08
110 26 0.31
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTT
Found at i:43097214 original size:13 final size:13
Alignment explanation
Indices: 43097198--43097230 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43097188 TTTAATTAAA
*
43097198 TTAGTTAATTAGT
1 TTAGATAATTAGT
43097211 TTAGATAATTAGT
1 TTAGATAATTAGT
43097224 TTA-ATAA
1 TTAGATAA
43097231 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:43105771 original size:16 final size:16
Alignment explanation
Indices: 43105750--43105780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43105740 ATAAATTTGA
43105750 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
43105766 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
43105781 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:43111747 original size:30 final size:30
Alignment explanation
Indices: 43111713--43111773 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43111703 TCCTTAACTC
43111713 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
43111743 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
43111773 A
1 A
43111774 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:43116608 original size:55 final size:53
Alignment explanation
Indices: 43116526--43116725 Score: 205
Period size: 53 Copynumber: 3.8 Consensus size: 53
43116516 ATTAGGGTTT
*
43116526 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTT-C-ATAAGGC
* * *
43116581 AAAGG-TCCCATGTAAGACCATGGCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * * *
43116634 AAGGATACTATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCAT-AAGGC
* ** * *
43116683 AAGGATACCACGTAAGACCATCACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAG
43116726 GTACCCGTGT
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
49 37 0.30
51 1 0.01
52 6 0.05
53 40 0.32
54 1 0.01
55 36 0.29
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:43116654 original size:53 final size:56
Alignment explanation
Indices: 43116526--43116678 Score: 206
Period size: 53 Copynumber: 2.8 Consensus size: 56
43116516 ATTAGGGTTT
*
43116526 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGGCA
* * *
43116582 AAGG-TCCCATGTAAGACCATGGCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGGCA
* * * *
43116634 AAGGATACTATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTT
43116679 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.05
53 40 0.47
54 1 0.01
55 36 0.42
56 4 0.05
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGGCA
Found at i:43117461 original size:18 final size:19
Alignment explanation
Indices: 43117424--43117465 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
43117414 ATAACTAAAA
*
43117424 ATATTATAAATGGATTTAG
1 ATATTATAAATGGATATAG
*
43117443 ATATT-TAATTGGATATAG
1 ATATTATAAATGGATATAG
43117461 A-ATTA
1 ATATTA
43117466 AATATTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 3 0.15
18 12 0.60
19 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
ATATTATAAATGGATATAG
Found at i:43130090 original size:56 final size:56
Alignment explanation
Indices: 43129835--43130091 Score: 263
Period size: 56 Copynumber: 4.7 Consensus size: 56
43129825 CATGATAGAT
* * * *
43129835 GCTAGGTTCGGGAGCTTGTGTAGCCCCGTTGAGAGGTATGTAATTATGTAGCACAC
1 GCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATGTGGTACAC
* * ** * * *
43129891 GCTAGGT-CAGGAGCTTATGTAG-CCC-TATGAGAGGC--GTGGTTATATGATACAT
1 GCTAGGTCCGGGAGCTTGTGTAGCCCCGT-TGAGAGGCATGTAATTATGTGGTACAC
* * * * *
43129943 GCTAGGTCCAGGAGCTTGTGTGGCCCCATTGAGAGGCATGTAATTATGTCGTACAT
1 GCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATGTGGTACAC
* *
43129999 GCTAGGTCCGGGAGCTTGTGTAACCCCGTTGAGAGGCAAGTAATTATGTGGTACAC
1 GCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATGTGGTACAC
* * * * *
43130055 GCTAGGTCTGGGAGCTTATATAGCCCTGTTAAGAGGC
1 GCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGC
43130092 GTGGTTATGT
Statistics
Matches: 165, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
52 17 0.10
53 14 0.08
54 21 0.13
55 14 0.08
56 99 0.60
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (56 bp):
GCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATGTGGTACAC
Found at i:43133158 original size:40 final size:40
Alignment explanation
Indices: 43133121--43133306 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
43133111 GCTACTCGTT
*
43133121 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
43133161 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
43133201 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43133241 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43133282 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43133307 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43141216 original size:39 final size:40
Alignment explanation
Indices: 43141171--43141355 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
43141161 GCTACTCGTT
*
43141171 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
43141211 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
43141250 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
43141290 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
43141331 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43141356 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 37 0.28
40 83 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:43143196 original size:20 final size:20
Alignment explanation
Indices: 43143173--43143215 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
43143163 GACACGGGCA
*
43143173 TGTCCGCAGTCACACGAGCG
1 TGTCCGAAGTCACACGAGCG
*
43143193 TGTCCGAAGTCACACGGGCG
1 TGTCCGAAGTCACACGAGCG
43143213 TGT
1 TGT
43143216 GACTCTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (20 bp):
TGTCCGAAGTCACACGAGCG
Found at i:43147785 original size:37 final size:36
Alignment explanation
Indices: 43147731--43147817 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
43147721 TACGAAGTCT
*
43147731 TACCCGGACATAGTCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
43147767 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
43147804 TCACCCGGAACATA
1 T-ACCCGG-ACATA
43147818 TTTCTAAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.89
38 4 0.09
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:43147946 original size:49 final size:49
Alignment explanation
Indices: 43147886--43148335 Score: 744
Period size: 49 Copynumber: 9.2 Consensus size: 49
43147876 TTTACCACAT
* *
43147886 ATATATATACACTTTCACATTCATCACGTCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43147935 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43147984 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
**
43148033 ATATATATACACTTTCACATTCATCACGCCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
43148082 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43148131 ATATAT-TCGCACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
43148180 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
43148229 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
43148278 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
43148327 ATATATATA
1 ATATATATA
43148336 TCTCATACCT
Statistics
Matches: 382, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 1 0.00
49 381 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:43151349 original size:27 final size:26
Alignment explanation
Indices: 43151319--43151380 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
43151309 ATTTACTAAA
* *
43151319 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTA-CAAAATGACCATT
**
43151346 ATACCCCTGGGTACAAAATGACCATT
1 ATACCCCTAAGTACAAAATGACCATT
43151372 ATACCCCTA
1 ATACCCCTA
43151381 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGTACAAAATGACCATT
Found at i:43151369 original size:26 final size:27
Alignment explanation
Indices: 43151334--43151384 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
43151324 CCTAAGTATG
*
43151334 AAAATTACCATTATACCCCT-GGGTAC
1 AAAATGACCATTATACCCCTAGGGTAC
43151360 AAAATGACCATTATACCCCTAGGGT
1 AAAATGACCATTATACCCCTAGGGT
43151385 TAATTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAATGACCATTATACCCCTAGGGTAC
Found at i:43151555 original size:27 final size:27
Alignment explanation
Indices: 43151485--43151591 Score: 162
Period size: 27 Copynumber: 4.0 Consensus size: 27
43151475 GGAGGAAGCG
* *
43151485 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACGAATATCT-A
43151513 TTCTGGTGGCTATGCCACGAATATCTA
1 TTCTGGTGGCTATGCCACGAATATCTA
*
43151540 TTCTGGTGGCTCTGCCACGAATATCTA
1 TTCTGGTGGCTATGCCACGAATATCTA
*
43151567 TTCTGGTGGCTCTGCCACG-ATATCT
1 TTCTGGTGGCTATGCCACGAATATCT
43151592 GTATGTGATA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 6 0.08
27 45 0.59
28 25 0.33
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACGAATATCTA
Found at i:43151624 original size:53 final size:54
Alignment explanation
Indices: 43151497--43151625 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
43151487 CTGGTGGCTA
* * **
43151497 TGCCACAAATATCTGTTTCTGGTGGCTATGCCACGAATATCTATTCTGGTGGCTC
1 TGCCACGAATATCTG-TTCTGGTGGCTATGCCACGAATATCTATTCTGATAACTC
* * * *
43151552 TGCCACGAATATCTATTCTGGTGGCTCTGCCACG-ATATCTGTATGTGATAACTC
1 TGCCACGAATATCTGTTCTGGTGGCTATGCCACGAATATCTAT-TCTGATAACTC
*
43151606 TGTCAC-AATATCTGTTCTGG
1 TGCCACGAATATCTGTTCTGG
43151626 CAGCCATGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 20 0.32
54 30 0.48
55 13 0.21
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (54 bp):
TGCCACGAATATCTGTTCTGGTGGCTATGCCACGAATATCTATTCTGATAACTC
Found at i:43157631 original size:47 final size:47
Alignment explanation
Indices: 43157578--43158003 Score: 604
Period size: 47 Copynumber: 9.0 Consensus size: 47
43157568 AAGATATGTA
*
43157578 TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
43157625 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* **
43157672 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* *
43157719 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
** *
43157768 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGCATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* **
43157815 TATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTATG
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
*
43157862 TATATGTGATAAGGCCGAATGGCCAACT-TGATGAATGTGCAAGTGTATG
1 --TATGTGATAAGGCCGAATGGCCAA-TGTGATGAATGTGAAAGTGTATG
* *
43157911 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
* * *
43157958 TATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
43158004 AACTGTGATA
Statistics
Matches: 337, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.00
47 249 0.74
48 3 0.01
49 83 0.25
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG
Found at i:43157752 original size:96 final size:93
Alignment explanation
Indices: 43157576--43158003 Score: 599
Period size: 96 Copynumber: 4.5 Consensus size: 93
43157566 ACAAGATATG
*
43157576 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCGA
43157641 ATGGCCAATGTGATGAATGTGAAAGTATA
65 ATGGCCAATGTGATGAATGTGAAAGTATA
* *
43157670 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA-AGTGTATG--TATGTGATAAGGCC
* * *
43157735 GAATGGCCAACGTGATGAATGTGCAAGTGTA
63 GAATGGCCAATGTGATGAATGTGAAAGTATA
* ** * *
43157766 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGCATATATATATGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCGA
** *
43157831 ATGGCCAATGTGATGAATGTGATGGTGTATG
65 ATGGCCAATGTGATGAATGTGA--AAGTATA
43157862 TATATGTGATAAGGCCGAATGGCCAACT-TGATGAATGTGCAAGTGTATGTATGTGATAAGGCCG
1 TATATGTGATAAGGCCGAATGGCCAA-TGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCG
43157926 AATGGCCAATGTGATGAATGTGAAAGTATA
64 AATGGCCAATGTGATGAATGTGAAAGTATA
* *
43157956 TATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTAT
1 TATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGT-GAAGTGTAT
43158004 AACTGTGATA
Statistics
Matches: 294, Mismatches: 30, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
93 2 0.01
94 121 0.41
95 4 0.01
96 165 0.56
97 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (93 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGTGTATGTATGTGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAAAGTATA
Found at i:43158003 original size:143 final size:143
Alignment explanation
Indices: 43157572--43157988 Score: 798
Period size: 143 Copynumber: 2.9 Consensus size: 143
43157562 ATGTACAAGA
*
43157572 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
43157637 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43157702 GAATGTGATGGTG
131 GAATGTGATGGTG
43157715 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
*
43157780 CCGAATGGCCAATGTGATGAATGTGAAAGCATATATATATGATAAGGCCGAATGGCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43157845 GAATGTGATGGTG
131 GAATGTGATGGTG
*
43157858 TATGTATATGTGATAAGGCCGAATGGCCAACTTGATGAATGTGCAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
*
43157923 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43157988 G
131 G
43157989 GAAGTGGAAG
Statistics
Matches: 269, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 269 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (143 bp):
TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
GAATGTGATGGTG
Found at i:43160069 original size:40 final size:40
Alignment explanation
Indices: 43160014--43160213 Score: 274
Period size: 40 Copynumber: 5.0 Consensus size: 40
43160004 AGTATGTTAC
*
43160014 ATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
* **
43160054 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
43160094 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
* * **
43160134 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
* * * * * *
43160174 ATCCGGGATAAGTCCTGAAGGGCATTTGTGCCGATGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
43160214 GTAATCAGGC
Statistics
Matches: 139, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
Found at i:43160141 original size:80 final size:80
Alignment explanation
Indices: 43160008--43160213 Score: 340
Period size: 80 Copynumber: 2.6 Consensus size: 80
43159998 AAGTTCAGTA
*
43160008 TGTTACATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATGTATCCGGGCTAAGTCCCGAA
1 TGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGGGCTAAGTCCCGAA
43160073 GAGCATTCGTGCTGG
66 GAGCATTCGTGCTGG
43160088 TGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGGGCTAAGTCCCGAA
1 TGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGGGCTAAGTCCCGAA
43160153 GAGCATTCGTGCTGG
66 GAGCATTCGTGCTGG
* * * * * * *
43160168 CGTTACATCCGGGATAAGTCCTGAAGGGCATTTGTGCCGATGATGT
1 TGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGT
43160214 GTAATCAGGC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 118 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (80 bp):
TGTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATGTATCCGGGCTAAGTCCCGAA
GAGCATTCGTGCTGG
Found at i:43160415 original size:25 final size:25
Alignment explanation
Indices: 43160374--43160427 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
43160364 GTGTAATAAT
* *
43160374 GAATGAATATAGGCACTATGTGTGC
1 GAATGAATATAGACACTATGTCTGC
*
43160399 GAATGAAT-TGAGACACTGTGTCTGC
1 GAATGAATAT-AGACACTATGTCTGC
43160424 GAAT
1 GAAT
43160428 TCTTTAACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (25 bp):
GAATGAATATAGACACTATGTCTGC
Found at i:43160452 original size:28 final size:28
Alignment explanation
Indices: 43160412--43160565 Score: 96
Period size: 28 Copynumber: 5.5 Consensus size: 28
43160402 TGAATTGAGA
* *
43160412 CACTGTGTCTGCGAATTCTTTAACCGGG
1 CACTATGTGTGCGAATTCTTTAACCGGG
** * ** *
43160440 CACTATGTGTGCGAGA-TCGGTCAGTGGA
1 CACTATGTGTGCGA-ATTCTTTAACCGGG
* * *
43160468 CACTGTGTGTCCGAATTCTTTAACCGAG
1 CACTATGTGTGCGAATTCTTTAACCGGG
* ** * ** *
43160496 TACTATGTGTGCGAGA-TCAGTCAGTGGA
1 CACTATGTGTGCGA-ATTCTTTAACCGGG
* *
43160524 CACTGTGTGTGCGAATTCTTTAACCGAG
1 CACTATGTGTGCGAATTCTTTAACCGGG
43160552 CACTATGTGTGCGA
1 CACTATGTGTGCGA
43160566 GATCGGTCAG
Statistics
Matches: 85, Mismatches: 37, Indels: 8
0.65 0.28 0.06
Matches are distributed among these distances:
27 2 0.02
28 81 0.95
29 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTATGTGTGCGAATTCTTTAACCGGG
Found at i:43160484 original size:56 final size:56
Alignment explanation
Indices: 43160410--43160592 Score: 312
Period size: 56 Copynumber: 3.3 Consensus size: 56
43160400 AATGAATTGA
* *
43160410 GACACTGTGTCTGCGAATTCTTTAACCGGGCACTATGTGTGCGAGATCGGTCAGTG
1 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
* * *
43160466 GACACTGTGTGTCCGAATTCTTTAACCGAGTACTATGTGTGCGAGATCAGTCAGTG
1 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
43160522 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
1 GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
*
43160578 GGCACTGTGTGTGCG
1 GACACTGTGTGTGCG
43160593 GATTTCGTTT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (56 bp):
GACACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
Found at i:43160582 original size:28 final size:28
Alignment explanation
Indices: 43160437--43160592 Score: 100
Period size: 28 Copynumber: 5.6 Consensus size: 28
43160427 TTCTTTAACC
43160437 GGGCACTATGTGTGCGAGATCGGTCAGT
1 GGGCACTATGTGTGCGAGATCGGTCAGT
* * * ** * **
43160465 GGACACTGTGTGTCCGA-ATTCTTTAACC
1 GGGCACTATGTGTGCGAGA-TCGGTCAGT
* * *
43160493 GAGTACTATGTGTGCGAGATCAGTCAGT
1 GGGCACTATGTGTGCGAGATCGGTCAGT
* * ** * **
43160521 GGACACTGTGTGTGCGA-ATTCTTTAACC
1 GGGCACTATGTGTGCGAGA-TCGGTCAGT
*
43160549 GAGCACTATGTGTGCGAGATCGGTCAGT
1 GGGCACTATGTGTGCGAGATCGGTCAGT
*
43160577 GGGCACTGTGTGTGCG
1 GGGCACTATGTGTGCG
43160593 GATTTCGTTT
Statistics
Matches: 87, Mismatches: 37, Indels: 8
0.66 0.28 0.06
Matches are distributed among these distances:
27 2 0.02
28 83 0.95
29 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (28 bp):
GGGCACTATGTGTGCGAGATCGGTCAGT
Found at i:43163906 original size:96 final size:93
Alignment explanation
Indices: 43163730--43164157 Score: 588
Period size: 96 Copynumber: 4.5 Consensus size: 93
43163720 ACAAGATATG
43163730 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCGA
43163795 ATGGCCAATGTGATGAATGTGAAAGTATA
65 ATGGCCAATGTGATGAATGTGAAAGTATA
* * * *
43163824 TATATATGATAAGGCCGAATGTCCAATGTGATGAATGTGATGGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGA-AGTGTATG--TATGTGATAAGGCC
* * *
43163889 GAATGGCCAACGTGATGAATGTGCAAGTGTA
63 GAATGGCCAATGTGATGAATGTGAAAGTATA
* * * * *
43163920 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCGA
** *
43163985 ATGGCCAATGTGATGAATGTGATGGTGTATG
65 ATGGCCAATGTGATGAATGTGA--AAGTATA
43164016 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGGCCGA
1 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG-AAGTGTATGTATGTGATAAGGCCGA
43164081 ATGGCCAATGTGATGAATGTGAAAGTATA
65 ATGGCCAATGTGATGAATGTGAAAGTATA
* * **
43164110 TATATATGATAAGGCCGAATGGTCAATATGATGGAA-GTGGAAGTGTAT
1 TATATGTGATAAGGCCGAATGGCCAACGTGAT-GAATGT-GAAGTGTAT
43164158 AACTGTGATA
Statistics
Matches: 293, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
93 1 0.00
94 120 0.41
95 4 0.01
96 167 0.57
97 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (93 bp):
TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAGTGTATGTATGTGATAAGGCCGAA
TGGCCAATGTGATGAATGTGAAAGTATA
Found at i:43163972 original size:143 final size:143
Alignment explanation
Indices: 43163726--43164142 Score: 798
Period size: 143 Copynumber: 2.9 Consensus size: 143
43163716 ATGTACAAGA
*
43163726 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
*
43163791 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGTCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43163856 GAATGTGATGGTG
131 GAATGTGATGGTG
43163869 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
43163934 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43163999 GAATGTGATGGTG
131 GAATGTGATGGTG
43164012 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
1 TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
* *
43164077 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGTCAATATGAT
66 CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
43164142 G
131 G
43164143 GAAGTGGAAG
Statistics
Matches: 270, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 270 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (143 bp):
TATGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTATATATATATGATAAGGCCGAATGGCCAATGTGAT
GAATGTGATGGTG
Found at i:43164167 original size:47 final size:47
Alignment explanation
Indices: 43163730--43164169 Score: 614
Period size: 47 Copynumber: 9.3 Consensus size: 47
43163720 ACAAGATATG
*
43163730 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
43163777 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * **
43163824 TATATATGATAAGGCCGAATGTCCAATGTGATGAATGTGATGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
43163871 TGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
43163920 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
43163967 TATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGATGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
43164014 TGTATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGCAAGTGTA
1 --TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
43164063 TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
43164110 TATATATGATAAGGCCGAATGGTCAATATGATGGAA-GTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTA
43164157 TA-ACTGTGATAAG
1 TATA-TGTGATAAG
43164170 TCCCGAAGGA
Statistics
Matches: 347, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.00
47 260 0.75
48 3 0.01
49 83 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:43166288 original size:27 final size:27
Alignment explanation
Indices: 43166258--43166319 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
43166248 ATTTACTAAA
*
43166258 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATGACCATT
* *
43166285 ATA-CCCTTAGGTGCAAAATGACCATT
1 ATACCCCTAAGATGCAAAATGACCATT
43166311 ATACCCCTA
1 ATACCCCTA
43166320 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATGACCATT
Found at i:43166460 original size:28 final size:26
Alignment explanation
Indices: 43166424--43166536 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
43166414 AGAGGAAGCA
43166424 TTCT-GTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
43166450 TTTCTGGTGGCTATGCCACGAATATCTG
1 -TTCTGGTGGCTATGCCAC-AATATCTG
* *
43166478 TTCTAGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * * *
43166504 TACCTGATGACTATGTCACAATATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
43166531 TTCTGG
1 TTCTGG
43166537 CAACCACGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.16
27 40 0.55
28 21 0.29
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:43166518 original size:54 final size:53
Alignment explanation
Indices: 43166424--43166535 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
43166414 AGAGGAAGCA
** * *
43166424 TTCTGTGGCTATGCCACAAATATCTGTTTCTGGTGGCTATGCCACGAATATCTG
1 TTCTGTGGCTATGCCACAAATATCTGTACCTGATGACTATGCCAC-AATATCTG
* *
43166478 TTCTAGTGGCTCTGCCAC-AATATCTGTACCTGATGACTATGTCACAATATCTG
1 TTCT-GTGGCTATGCCACAAATATCTGTACCTGATGACTATGCCACAATATCTG
43166531 TTCTG
1 TTCTG
43166536 GCAACCACGC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
52 1 0.02
53 12 0.24
54 26 0.51
55 12 0.24
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
TTCTGTGGCTATGCCACAAATATCTGTACCTGATGACTATGCCACAATATCTG
Found at i:43172174 original size:40 final size:40
Alignment explanation
Indices: 43172113--43172217 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
43172103 CATTTGAATG
* * * *
43172113 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* *
43172153 ATGTCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
* *
43172193 ATATCCAGGCTAAGACCTGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
43172218 ATGGTGCAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 53 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:43185986 original size:48 final size:48
Alignment explanation
Indices: 43185915--43186010 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
43185905 GGGGGAGGAG
*
43185915 AACTAGGGTTTCTTTCGGGATTTGAGGTTGACGGCATAAGAGAAAAGT
1 AACTAGGGTTTCTTTCGGGATTTGAGGTTGACGACATAAGAGAAAAGT
43185963 AACTAGGGTTTCTTTCGGGATTTGAGGTTGACGACATAAGAGAAAAGT
1 AACTAGGGTTTCTTTCGGGATTTGAGGTTGACGACATAAGAGAAAAGT
43186011 TTAAGTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (48 bp):
AACTAGGGTTTCTTTCGGGATTTGAGGTTGACGACATAAGAGAAAAGT
Found at i:43199360 original size:17 final size:16
Alignment explanation
Indices: 43199330--43199363 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
43199320 TATTTTGAGA
*
43199330 TATTATTAATAGGAAT
1 TATTATTAAGAGGAAT
43199346 TATTAGTTAAGAGGAAT
1 TATTA-TTAAGAGGAAT
43199363 T
1 T
43199364 TATTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
TATTATTAAGAGGAAT
Found at i:43202880 original size:15 final size:16
Alignment explanation
Indices: 43202844--43202873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43202834 ACATATCATT
43202844 TATTTCATTATATCAA
1 TATTTCATTATATCAA
43202860 TATTTCA-TATATCA
1 TATTTCATTATATCA
43202874 TAGTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTCATTATATCAA
Found at i:43203192 original size:176 final size:176
Alignment explanation
Indices: 43202898--43203249 Score: 695
Period size: 176 Copynumber: 2.0 Consensus size: 176
43202888 TCCACATATA
43202898 TTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATTCTTGTAAGTACGA
1 TTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATTCTTGTAAGTACGA
43202963 TTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAGTCACTTAATTATT
66 TTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAGTCACTTAATTATT
*
43203028 TATAATTCGAGCTACAGAGATCCAAATTAAGATCCGTAAATTTCCC
131 TATAATTCAAGCTACAGAGATCCAAATTAAGATCCGTAAATTTCCC
43203074 TTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATTCTTGTAAGTACGA
1 TTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATTCTTGTAAGTACGA
43203139 TTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAGTCACTTAATTATT
66 TTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAGTCACTTAATTATT
43203204 TATAATTCAAGCTACAGAGATCCAAATTAAGATCCGTAAATTTCCC
131 TATAATTCAAGCTACAGAGATCCAAATTAAGATCCGTAAATTTCCC
43203250 CTGAAAATAG
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 175 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (176 bp):
TTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATTCTTGTAAGTACGA
TTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAGTCACTTAATTATT
TATAATTCAAGCTACAGAGATCCAAATTAAGATCCGTAAATTTCCC
Found at i:43209588 original size:29 final size:29
Alignment explanation
Indices: 43209564--43209686 Score: 192
Period size: 29 Copynumber: 4.2 Consensus size: 29
43209554 TCGCACACCC
* * *
43209564 AGTGCCGTATTTTTCCAGCTTGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43209593 AGTGCCAAATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43209622 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43209651 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
43209680 AGTGCCA
1 AGTGCCA
43209687 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:43216657 original size:20 final size:20
Alignment explanation
Indices: 43216608--43216660 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
43216598 TGGGAGGTGT
*
43216608 ATATCATGATACCCAAGGGG
1 ATATCACGATACCCAAGGGG
**
43216628 ATATTGCGATACCCAAGGGG
1 ATATCACGATACCCAAGGGG
43216648 ATATCACGATACC
1 ATATCACGATACC
43216661 GCTAATGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (20 bp):
ATATCACGATACCCAAGGGG
Found at i:43219706 original size:30 final size:30
Alignment explanation
Indices: 43219650--43219707 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
43219640 TTAATTAGTT
* * *
43219650 TAGATAAAACAAACCTCTTTGTTTTTAGGA
1 TAGATAAAACAAACATCTGTGCTTTTAGGA
43219680 TAGATAAAACAAACAT-TAGTGCTTTTAG
1 TAGATAAAACAAACATCT-GTGCTTTTAG
43219708 TTCCTGTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (30 bp):
TAGATAAAACAAACATCTGTGCTTTTAGGA
Found at i:43230235 original size:40 final size:39
Alignment explanation
Indices: 43230191--43230409 Score: 208
Period size: 40 Copynumber: 5.5 Consensus size: 39
43230181 GCTCGATTGT
* * *
43230191 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
43230231 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
43230271 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
43230311 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCG-GTTTAGTAACTCGCACAAATGC
* * * *
43230351 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
43230392 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
43230410 ACACCATTCG
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.01
40 122 0.81
41 25 0.17
42 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:43230289 original size:80 final size:80
Alignment explanation
Indices: 43230177--43230410 Score: 256
Period size: 80 Copynumber: 2.9 Consensus size: 80
43230167 GGATATAGCG
* * * * * * * *
43230177 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTT
43230242 AGCCCGGA-TTTAGTA
65 AGCCCGGATTTTAGTA
* *
43230257 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTT
* *
43230322 AACCC-GATTTTGGTA
65 AGCCCGGATTTTAGTA
* * * * * *
43230337 ACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACT
43230402 TAGCCCGGA
64 TAGCCCGGA
43230411 CACCATTCGA
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.02
80 96 0.75
81 28 0.22
82 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTA
GCCCGGATTTTAGTA
Found at i:43238286 original size:40 final size:40
Alignment explanation
Indices: 43238237--43238478 Score: 138
Period size: 40 Copynumber: 6.1 Consensus size: 40
43238227 TCGAATTTAA
* * *
43238237 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
43238277 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * *
43238317 CCGGATTTA---ACTCGCACAAATGCCTTC-GGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** * * *
43238353 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** *
43238393 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
43238433 CCGGATTTAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGC
43238474 CCGGA
1 CCGGA
43238479 CACACATTCG
Statistics
Matches: 171, Mismatches: 22, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
36 14 0.08
37 16 0.09
39 19 0.11
40 95 0.56
41 26 0.15
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:43238477 original size:81 final size:76
Alignment explanation
Indices: 43238301--43238478 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 76
43238291 TCGCACAATT
* * * *
43238301 GCCTTCGGGAATTAGCCCGGATTTAACTCGCACAAATGCCTTCGGACTTAACCCGGTTTTGGTAA
1 GCCTTCGGGACTTAGCCCGGATTTAACTCGCACAAATGCCTTCGGAATTAACCCGGATTTAGTAA
* *
43238366 CTCGCACAAAT
66 CTAGCACAAAA
* * *
43238377 GCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTA
1 GCCTTCGGGACTTAGCCCGG-ATT--TAACTCGCACAAATGCCTTC-GGAATTAACCCGGATTTA
*
43238442 GTCACTTAGCACAAAA
62 GTAAC-TAGCACAAAA
43238458 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
43238479 CACACATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
76 18 0.21
77 2 0.02
79 20 0.24
80 18 0.21
81 27 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (76 bp):
GCCTTCGGGACTTAGCCCGGATTTAACTCGCACAAATGCCTTCGGAATTAACCCGGATTTAGTAA
CTAGCACAAAA
Found at i:43240316 original size:497 final size:492
Alignment explanation
Indices: 43239371--43240362 Score: 1607
Period size: 497 Copynumber: 2.0 Consensus size: 492
43239361 ACTTAATGTC
* *
43239371 TCACTCAAAAATGCTAAAAGAAAATCCAAGAGTCATCAATCCACCATCACATGTATCATTACAAG
1 TCACTCAAAAATGCTAAAAGAAAATCCAAGAGTCATCAACCCACCATCACA-GTATCATCACAAG
43239436 CTTCATATTTAGCATGCAATGGCATTAACACAAAATCCACCTTGGCCGAATATCATCCCATGACA
65 CTTCATATTTAGCATGCAATGGCATTAACACAAAATCCACCTTGGCCGAATATCATCCCATGACA
43239501 TAGCAAGATTTGAACCATGGGCTAATAGAACATCAAGCTAGCAACTAAAAATGCATGAATCTCAT
130 TAGCAAGATTTGAACCATGGGCTAATAGAACATCAAGCTAGCAACTAAAAATGCATGAATCTCAT
*
43239566 GGCACAACCTCAAACATACCTTAATCTAGATACAAGTATGGCCAAACCTCCTCCTAATCCTCTTC
195 GGCACAACCTCAAACATACCTTAATCTAGATACAAGTATAGCCAAACCTCCTCCTAATCCTCTTC
* *
43239631 CAAACCAAGCATGAAGCAAAATCCCTTCCTTCTTCCTTAGAATTTTCGGCTCAAAGAAATGAAAA
260 CAAACCAAGAATGAAGCAAAATCCCCTCCTTCTTCCTTAGAATTTTCGGCTCAAAGAAATGAAAA
43239696 AGGATGAACAAATTTTTTTTTCTCTTTTCTTCAACTCACGGCAATGGGGGGGACACTCACCATTC
325 AGGATGAACAAATTTTTTTTTCTCTTTTCTTCAACTCACGGCAATGGGGGGGACACTCACCATTC
43239761 TCTTTTTTTTTTTCTTCCCTTTCATTATTCAATTCCCATGCTCATTATTTTATTTTTTCTTACAT
390 TCTTTTTTTTTTTCTTCCCTTTCATTATTCAATTCCCATGCTCATTA-TTT-TTTTTT-TT-CAT
*
43239826 ACACCATTGTCACAACATGTTTTATGACATGTTTTTGCCCATAA
451 ACACCA-T-TCAAAACATGTTTTATGACATGTTTTTGCCCATAA
43239870 TCACTCAAAAATGCTAAAAG-AAATCCAAG-GTCATCAACCCACCATCACA-TATCATCACAAGC
1 TCACTCAAAAATGCTAAAAGAAAATCCAAGAGTCATCAACCCACCATCACAGTATCATCACAAGC
*
43239932 TTCATATTTAGCATGCAATGGCATT-ACACAAAATCCACCTTGGCCGAA-ATCATTCCATGACAT
66 TTCATATTTAGCATGCAATGGCATTAACACAAAATCCACCTTGGCCGAATATCATCCCATGACAT
43239995 AGCAAAGATTTGAACCATGGGCTAATAGAACATCAAGCTAAGCAACTAAAACATGCATGAATCTC
131 AGC-AAGATTTGAACCATGGGCTAATAGAACATCAAGCT-AGCAACTAAAA-ATGCATGAATCTC
* *
43240060 ATGGCACAACCTCAAACATACCTTAATCTTGGATACAAGTATAGCCAAACCTCTTCCTAATCCTC
193 ATGGCACAACCTCAAACATACCTTAATC-TAGATACAAGTATAGCCAAACCTCCTCCTAATCCTC
* *
43240125 TTCCAAAGCCAA-AATGAAGCAAAAATCTCTCCTCCTTTTTCCTTAG-ATTTTCGGC-C-AAGAG
257 TTCCAAA-CCAAGAATGAAGC-AAAATC-C-CCTCCTTCTTCCTTAGAATTTTCGGCTCAAAGAA
43240186 A-GAAGAAAGGATGAACAAATTTTTTTTTTCTCTTTTCTTCAACTCACGGCAATGGGGGGGAACA
318 ATGAA-AAAGGATGAACAAA-TTTTTTTTTCTCTTTTCTTCAACTCACGGCAATGGGGGGG-ACA
43240250 CTCACCATTCTCTTTTTTTTTTTTCTT-CCTTTCA-TATT-AATTCCCAT-CTCATTATTTATTT
380 CTCACCATTCTC-TTTTTTTTTTTCTTCCCTTTCATTATTCAATTCCCATGCTCATTATTT-TTT
43240311 TTTTTCATACACCATTCAAAACATGTTTTATGACATGTTTTTGCCCATAA
443 TTTTTCATACACCATTCAAAACATGTTTTATGACATGTTTTTGCCCATAA
43240361 TC
1 TC
43240363 CCTTGTCATG
Statistics
Matches: 470, Mismatches: 11, Indels: 32
0.92 0.02 0.06
Matches are distributed among these distances:
491 36 0.08
492 1 0.00
493 26 0.06
494 60 0.13
495 58 0.12
496 51 0.11
497 94 0.20
498 64 0.14
499 52 0.11
500 28 0.06
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.31
Consensus pattern (492 bp):
TCACTCAAAAATGCTAAAAGAAAATCCAAGAGTCATCAACCCACCATCACAGTATCATCACAAGC
TTCATATTTAGCATGCAATGGCATTAACACAAAATCCACCTTGGCCGAATATCATCCCATGACAT
AGCAAGATTTGAACCATGGGCTAATAGAACATCAAGCTAGCAACTAAAAATGCATGAATCTCATG
GCACAACCTCAAACATACCTTAATCTAGATACAAGTATAGCCAAACCTCCTCCTAATCCTCTTCC
AAACCAAGAATGAAGCAAAATCCCCTCCTTCTTCCTTAGAATTTTCGGCTCAAAGAAATGAAAAA
GGATGAACAAATTTTTTTTTCTCTTTTCTTCAACTCACGGCAATGGGGGGGACACTCACCATTCT
CTTTTTTTTTTTCTTCCCTTTCATTATTCAATTCCCATGCTCATTATTTTTTTTTTTCATACACC
ATTCAAAACATGTTTTATGACATGTTTTTGCCCATAA
Found at i:43247347 original size:40 final size:39
Alignment explanation
Indices: 43247303--43247516 Score: 206
Period size: 40 Copynumber: 5.5 Consensus size: 39
43247293 GCTCGATTGT
* * *
43247303 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
43247343 CTTCGGGA-ATTAGCCCGGATTTAGTAA-TCGCAC-AATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
43247381 CTTC-GGACTTA-CCCGGTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
* * *
43247418 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
43247458 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
43247499 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
43247517 ACACCATTCG
Statistics
Matches: 149, Mismatches: 14, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
35 7 0.05
36 11 0.07
37 14 0.09
38 15 0.10
39 13 0.09
40 62 0.42
41 25 0.17
42 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:43247419 original size:75 final size:81
Alignment explanation
Indices: 43247330--43247517 Score: 244
Period size: 75 Copynumber: 2.4 Consensus size: 81
43247320 GTTATAGTGA
* * *
43247330 TTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAA-TCGCAC-AATGCCTTC-GGACTT-
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTG
*
43247391 ACCCGG-TTTGGTAAC
66 ACCCGGATTTAGTAAC
* * *
43247406 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTG
*
43247470 ACCCGGATTTAGTCAC
66 ACCCGGATTTAGTAAC
* *
43247486 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
43247518 CACCATTCGA
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
75 34 0.36
76 6 0.06
77 9 0.10
78 5 0.05
79 6 0.06
80 7 0.07
81 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTG
ACCCGGATTTAGTAAC
Found at i:43247501 original size:81 final size:75
Alignment explanation
Indices: 43247341--43247517 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 75
43247331 TCGCACAATT
* * *
43247341 GCCTTCGGGAATTAGCCCGGATTTAGTAATCGCACAATGCCTTCGGACTTACCCGGTTTGGTAAC
1 GCCTTCGGGACTTAGCCCGGATTTAGTAATCGCACAATGCCTTCGGAATTACCCGGTTTAGTAAC
* *
43247406 TCGCACAAAT
66 TAGCACAAAA
* * *
43247416 GCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAA-TCGCAC-AATGCCTTC-GGAATT-ACCCGG-TTTA
*
43247481 GTCACTTAGCACAAAA
61 GTAAC-TAGCACAAAA
43247497 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
43247518 CACCATTCGA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 25 0.29
76 6 0.07
77 9 0.11
78 5 0.06
79 6 0.07
80 7 0.08
81 27 0.32
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (75 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAATCGCACAATGCCTTCGGAATTACCCGGTTTAGTAAC
TAGCACAAAA
Found at i:43247505 original size:41 final size:39
Alignment explanation
Indices: 43247331--43247517 Score: 211
Period size: 40 Copynumber: 4.8 Consensus size: 39
43247321 TTATAGTGAT
*
43247331 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAA-
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* *
43247370 TCGCAC-AATGCCTTC-GGACTTACCCGG-TTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
* * *
43247406 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
43247446 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
43247486 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
43247518 CACCATTCGA
Statistics
Matches: 130, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
35 7 0.05
36 11 0.08
37 15 0.12
38 14 0.11
39 12 0.09
40 45 0.35
41 26 0.20
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:43255443 original size:39 final size:40
Alignment explanation
Indices: 43255372--43255590 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
43255362 GCTCGATTGT
* * * *
43255372 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* *
43255412 CTTC-GGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
43255451 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
43255491 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
43255531 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
43255572 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
43255591 CACCATTCGA
Statistics
Matches: 155, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 30 0.19
40 98 0.63
41 26 0.17
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:43263175 original size:2 final size:2
Alignment explanation
Indices: 43263168--43263205 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
43263158 GACATTGTAC
43263168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43263206 CGGCCATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43263746 original size:28 final size:28
Alignment explanation
Indices: 43263677--43263777 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43263667 GACAAGATTG
* * * *
43263677 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
43263707 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43263735 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
43263764 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43263778 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43263771 original size:29 final size:28
Alignment explanation
Indices: 43263706--43263777 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
43263696 AAAATTGTAC
*
43263706 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
43263734 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
43263763 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43263778 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:43267930 original size:25 final size:25
Alignment explanation
Indices: 43267902--43267952 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
43267892 CCCTTACAAT
* * *
43267902 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
43267927 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
43267952 G
1 G
43267953 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:43268009 original size:13 final size:11
Alignment explanation
Indices: 43267993--43268045 Score: 74
Period size: 10 Copynumber: 4.8 Consensus size: 11
43267983 ATGCTTTTGT
43267993 ACATGATATGC
1 ACATGATATGC
43268004 GTACATGATATGC
1 --ACATGATATGC
43268017 -CATGATATGC
1 ACATGATATGC
43268027 ACATGATATGC
1 ACATGATATGC
43268038 -CATGATAT
1 ACATGATAT
43268046 ATTCACATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 18 0.46
11 10 0.26
13 11 0.28
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:43268032 original size:21 final size:22
Alignment explanation
Indices: 43267994--43268045 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
43267984 TGCTTTTGTA
43267994 CATGATATGCGTACATGATATGC
1 CATGATATGCG-ACATGATATGC
43268017 CATGATATGC-ACATGATATGC
1 CATGATATGCGACATGATATGC
43268038 CATGATAT
1 CATGATAT
43268046 ATTCACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 19 0.66
23 10 0.34
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (22 bp):
CATGATATGCGACATGATATGC
Found at i:43270054 original size:19 final size:19
Alignment explanation
Indices: 43270030--43270071 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
43270020 TATTGAGTTT
43270030 GTTTCTGCCTAAAATTTTA
1 GTTTCTGCCTAAAATTTTA
43270049 GTTTCTGCCTAAAATTTTA
1 GTTTCTGCCTAAAATTTTA
43270068 GTTT
1 GTTT
43270072 TTTCTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (19 bp):
GTTTCTGCCTAAAATTTTA
Found at i:43275958 original size:52 final size:52
Alignment explanation
Indices: 43275880--43275983 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
43275870 TGCACTTTTT
43275880 TTCAAATGTTTTATTTTCTTTCCTTCCATTTTTCACCTCTACCAAGCAATGG
1 TTCAAATGTTTTATTTTCTTTCCTTCCATTTTTCACCTCTACCAAGCAATGG
43275932 TTCAAATGTTTTATTTTCTTTCCTTCCATTTTTCACCTCTACCAAGCAATGG
1 TTCAAATGTTTTATTTTCTTTCCTTCCATTTTTCACCTCTACCAAGCAATGG
43275984 ATGAAAATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.21, C:0.25, G:0.08, T:0.46
Consensus pattern (52 bp):
TTCAAATGTTTTATTTTCTTTCCTTCCATTTTTCACCTCTACCAAGCAATGG
Found at i:43276104 original size:16 final size:16
Alignment explanation
Indices: 43276057--43276108 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
43276047 AAAAATTATG
* *
43276057 TTTTCCAT-CTTCTAG
1 TTTTCCATCCTTCCAA
*
43276072 TTTTCTATTCCTT-CAA
1 TTTTCCA-TCCTTCCAA
43276088 TTTTCCATCCTTCCAA
1 TTTTCCATCCTTCCAA
43276104 TTTTC
1 TTTTC
43276109 TTTTCACTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 11 0.37
16 16 0.53
17 3 0.10
ACGTcount: A:0.15, C:0.29, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTCCATCCTTCCAA
Found at i:43282032 original size:42 final size:42
Alignment explanation
Indices: 43281983--43282207 Score: 204
Period size: 49 Copynumber: 5.0 Consensus size: 42
43281973 TTTCGTTTTC
** * *
43281983 TCGATGCCATAGTTCAACTATGGTCTTATACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
43282026 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
43282067 TCGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---AT-TCACATA
*
43282116 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---AT-TCACATA
* *
43282165 TTGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
43282206 TC
1 TC
43282208 TCACTGATGC
Statistics
Matches: 162, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
41 10 0.06
42 61 0.38
43 2 0.01
45 2 0.01
47 1 0.01
48 2 0.01
49 84 0.52
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:43282126 original size:49 final size:49
Alignment explanation
Indices: 43282053--43282285 Score: 266
Period size: 49 Copynumber: 4.8 Consensus size: 49
43282043 TATGGTCTTA
*
43282053 CACATATTCATATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
*
43282103 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
* *
43282152 CACATATCACATATTGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
* * * * *
43282200 CACATATCTCA-CT-GATGCCATATCCCAGA-TATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCA-ACTATGGTCTTACAC-GTAAT
* * *
43282247 CATATATCAC--ACCGATGCCATATCCCAGA-TATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCA-ACTATGGTCTTA
43282286 TACGGAAATC
Statistics
Matches: 166, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
46 25 0.15
47 37 0.22
48 13 0.08
49 85 0.51
50 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
Found at i:43282297 original size:95 final size:96
Alignment explanation
Indices: 43282068--43282285 Score: 266
Period size: 95 Copynumber: 2.3 Consensus size: 96
43282058 ATTCATATAT
43282068 CGATGCCATAGCCCA-ACTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCA
1 CGATGCCATAGCCCAGA-TATGGTCTTACACG-AATCACATATCACATATCGATGCCATAGCCCA
* * *
43282132 GCTATGGTCTTACACGTAATCACATATCACATAT
64 GATATGGTCTTACACGTAAGCACATATCACA-AC
* * * * *
43282166 TGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-GATGCCATATCCCAGA
1 CGATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
* *
43282229 TATGGTCTTATACAGT-AGCATATATCAC-AC
66 TATGGTCTTACAC-GTAAGCACATATCACAAC
*
43282259 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
43282286 TACGGAAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
93 25 0.24
95 36 0.34
96 3 0.03
97 13 0.12
98 28 0.27
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (96 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
TATGGTCTTACACGTAAGCACATATCACAAC
Found at i:43282342 original size:31 final size:31
Alignment explanation
Indices: 43282307--43282424 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
43282297 CTTGTCACTT
* * * *
43282307 GTAGCCGTAGCTACTACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
43282338 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
* *
43282369 GTAGCCGGAGCTATCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAG
*
43282400 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
43282425 TGTCATTTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATTAG
Found at i:43287957 original size:49 final size:51
Alignment explanation
Indices: 43287827--43287959 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
43287817 TCTATTGTGA
* * *
43287827 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
* * * * **
43287878 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAA-TT-
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
43287927 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
43287960 TGCGTACCAG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 30 0.43
50 2 0.03
51 38 0.54
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTC
Found at i:43296419 original size:17 final size:18
Alignment explanation
Indices: 43296392--43296425 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
43296382 CATCAGCGCG
43296392 TTAATAGATATACGGCTC
1 TTAATAGATATACGGCTC
43296410 TTAA-AGATATACGGCT
1 TTAATAGATATACGGCT
43296426 TCTATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (18 bp):
TTAATAGATATACGGCTC
Found at i:43297985 original size:30 final size:30
Alignment explanation
Indices: 43297937--43298020 Score: 114
Period size: 30 Copynumber: 2.7 Consensus size: 30
43297927 AAATATTTAC
*
43297937 GAAGTTAATTGAGTGGTAAATTAAAGTTTAAT
1 GAAGTGAATT-AG-GGTAAATTAAAGTTTAAT
*
43297969 GAAGTGAATTAGGGTAAATTAAATTTTAAT
1 GAAGTGAATTAGGGTAAATTAAAGTTTAAT
**
43297999 GAAGTGAATTAGCTTAAATTAA
1 GAAGTGAATTAGGGTAAATTAA
43298021 GGATAATTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 37 0.77
31 2 0.04
32 9 0.19
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (30 bp):
GAAGTGAATTAGGGTAAATTAAAGTTTAAT
Found at i:43298452 original size:4 final size:4
Alignment explanation
Indices: 43298430--43298466 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
43298420 CGAAAAACAG
* *
43298430 AGAA GGAA AGAA GGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
43298467 AGGGAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:43299545 original size:6 final size:6
Alignment explanation
Indices: 43299525--43299572 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
43299515 ATGAGGTACC
* * *
43299525 CTGTGTA CTGCTA CTGTTA CTGCTA CTGTTA CTATTA CTGTTA CTGTT
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTT
43299573 GCCGTTATGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
6 32 0.91
7 3 0.09
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (6 bp):
CTGTTA
Found at i:43299756 original size:18 final size:18
Alignment explanation
Indices: 43299735--43299779 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
43299725 ATTGACTGAT
43299735 ACTGAATAACTAATTGTC
1 ACTGAATAACTAATTGTC
* * * *
43299753 ACTGAACAATTGATTGTT
1 ACTGAATAACTAATTGTC
43299771 ACTGAATAA
1 ACTGAATAA
43299780 TATTGATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (18 bp):
ACTGAATAACTAATTGTC
Found at i:43312586 original size:33 final size:33
Alignment explanation
Indices: 43312549--43312616 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
43312539 GCCGGTGGAT
*
43312549 GTCGTAGGGAGTACATCATCTCTTCTTGTAGAC
1 GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
*
43312582 GTCGTAAGGAGTACATCATCTCTTCTTGTGGAC
1 GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
43312615 GT
1 GT
43312617 TTCGTAACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (33 bp):
GTCGTAAGGAGTACATCATCTCTTCTTGTAGAC
Found at i:43313698 original size:126 final size:125
Alignment explanation
Indices: 43313306--43313696 Score: 506
Period size: 124 Copynumber: 3.1 Consensus size: 125
43313296 GGCCAAACAT
* * *
43313306 GAACTACTGTAGAAAAAGAGCGTCGACAT-AGGAGCTTTTTT-AATCAATTTTATTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGA-GAGCTTTTTTCAAT-AATTTTACTGACAGTGCA
* * * *
43313369 TCCTGCTTAAAGCTTTTTTGACACTATTTGTTCATAACTGTCTTCTCAAAATTATTTTTTCAG
64 TCCTACTTGAAGCATTTTTGACACTATTTGTTCAGAAC-GTCTTCTCAAAATTATTTTTTCAG
* * * * *
43313432 GAACTACTGTAGAAAAATAGCGTCCACGTGAGAG--TTTTTCAGTAAGTTTGCTCACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTGACAGTGCATC
* * *
43313495 CTAGTTGAAGCGTTTTTGGCACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCATTTTTGACACTATTTGTTCAG-AACGTCTTCTCAAAATTATTTTTTCAG
* *
43313556 GAATTACTATAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTGACAGTGCATC
* * * *
43313621 CTACCTGAAGCATTTTTCACACTATTTGTTCAGAGTCGTATTCTCAAAATTA-TTTTTCAG
66 CTACTTGAAGCATTTTTGACACTATTTGTTCAGA-ACGTCTTCTCAAAATTATTTTTTCAG
43313681 GAACTACTGT-GAAAAA
1 GAACTACTGTAGAAAAA
43313697 AAAATCCTTA
Statistics
Matches: 229, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
124 109 0.48
125 22 0.10
126 97 0.42
127 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAATAATTTTACTGACAGTGCATC
CTACTTGAAGCATTTTTGACACTATTTGTTCAGAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:43313809 original size:35 final size:32
Alignment explanation
Indices: 43313753--43313874 Score: 124
Period size: 34 Copynumber: 3.8 Consensus size: 32
43313743 TACAATATTA
43313753 TTTAAAAAAATAAACCCTAATTTAATTAATTT
1 TTTAAAAAAATAAACCCTAATTTAATTAATTT
*
43313785 TCTTAAAAAATACTAAACCTTAATTTAATTAATTTAT
1 T-TTAAAAAA-A-TAAACCCTAATTTAATTAA-TT-T
***
43313822 TTTAAACCCATAAACCCTAATTTAATTAA--T
1 TTTAAAAAAATAAACCCTAATTTAATTAATTT
* *
43313852 TTT-AAAAAATAAATCCTGATTTA
1 TTTAAAAAAATAAACCCTAATTTA
43313875 TTTTTTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
29 15 0.20
30 4 0.05
32 1 0.01
33 8 0.11
34 19 0.25
35 19 0.25
36 7 0.09
37 2 0.03
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (32 bp):
TTTAAAAAAATAAACCCTAATTTAATTAATTT
Found at i:43313843 original size:34 final size:34
Alignment explanation
Indices: 43313754--43313854 Score: 125
Period size: 35 Copynumber: 3.0 Consensus size: 34
43313744 ACAATATTAT
43313754 TTAAAAAA-ATAAACCCTAATTTAATTAATTTTC
1 TTAAAAAACATAAACCCTAATTTAATTAATTTTC
* *
43313787 TTAAAAAATACTAAACCTTAATTTAATTAATTTAT-
1 TTAAAAAACA-TAAACCCTAATTTAATTAATTT-TC
* **
43313822 TTTAAACCCATAAACCCTAATTTAATTAATTTT
1 TTAAAAAACATAAACCCTAATTTAATTAATTTT
43313855 AAAAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
33 9 0.15
34 22 0.37
35 27 0.46
36 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAAAAAACATAAACCCTAATTTAATTAATTTTC
Found at i:43313952 original size:42 final size:42
Alignment explanation
Indices: 43313903--43313985 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
43313893 ACCTAAAACT
*
43313903 CTAAATTATTTTAACAAAACCCTAAACCCTACAAA-CCTAAGC
1 CTAAATTATTTTAACAAAACCCT-AACCCTAAAAACCCTAAGC
*
43313945 CTAAATTATTTTATCAAAACCCTAACCCTAAAAACCCTAAG
1 CTAAATTATTTTAACAAAACCCTAACCCTAAAAACCCTAAG
43313986 GACTAAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 10 0.26
42 28 0.74
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.25
Consensus pattern (42 bp):
CTAAATTATTTTAACAAAACCCTAACCCTAAAAACCCTAAGC
Found at i:43317583 original size:16 final size:16
Alignment explanation
Indices: 43317562--43317594 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43317552 ATCACTTTGG
43317562 ATTGGATTTTGAATTA
1 ATTGGATTTTGAATTA
43317578 ATTGGATTTTGAATTA
1 ATTGGATTTTGAATTA
43317594 A
1 A
43317595 GTTTAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTGGATTTTGAATTA
Found at i:43321588 original size:47 final size:47
Alignment explanation
Indices: 43321537--43321641 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 47
43321527 AAGGTGGAAG
*
43321537 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACGATTTTGA
1 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
* *** *
43321584 TTATTGGAAGTTTATCTGTGATTTTGGTGGCTTGTCTACAATTTTGA
1 TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
*
43321631 TTATTGATAGT
1 TTATTGGTAGT
43321642 GTAATGCCCC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.49
Consensus pattern (47 bp):
TTATTGGTAGTTTATCTACAATTTTGGTGGCTTGTCCACAATTTTGA
Found at i:43322997 original size:47 final size:47
Alignment explanation
Indices: 43322882--43323014 Score: 180
Period size: 46 Copynumber: 2.9 Consensus size: 47
43322872 ATAATTTCAC
* * * *
43322882 CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
* *
43322928 CCATAATGAACTCGGAACACAACTCAATGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
*
43322974 CCATAAGTGAACTCGGAACACAACTCAACGAGTTCAGATGC
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGC
43323015 CTCATAATTC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
46 43 0.56
47 34 0.44
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCACAT
Found at i:43330159 original size:27 final size:27
Alignment explanation
Indices: 43330124--43330219 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
43330114 ACATAGGGGT
*
43330124 AAAATAGTCATCTTACCATAAAAGGGC
1 AAAATAGTCATTTTACCATAAAAGGGC
* *
43330151 AAAACAGTCATTTTACCATATAAGGGC
1 AAAATAGTCATTTTACCATAAAAGGGC
* * *
43330178 AAAATAGTCATTTTACC-TCATACGGGA
1 AAAATAGTCATTTTACCAT-AAAAGGGC
43330205 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
43330220 TTAACTTGGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
26 1 0.02
27 61 0.98
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (27 bp):
AAAATAGTCATTTTACCATAAAAGGGC
Found at i:43339694 original size:30 final size:30
Alignment explanation
Indices: 43339649--43339718 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
43339639 GCTGTAGGGG
* **
43339649 TCACATGGTCGTGTGTCCAGGTTGTGTGAC
1 TCACACGGTCGTGTGTCCAGGCCGTGTGAC
*
43339679 TCACACGGTCTTGTGTCCAGGCCGTGTGAC
1 TCACACGGTCGTGTGTCCAGGCCGTGTGAC
43339709 TCACACGGTC
1 TCACACGGTC
43339719 AATGACGCGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (30 bp):
TCACACGGTCGTGTGTCCAGGCCGTGTGAC
Found at i:43340882 original size:30 final size:30
Alignment explanation
Indices: 43340827--43340888 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
43340817 CACTAAGAAA
43340827 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
43340856 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
43340887 GT
1 GT
43340889 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:43341110 original size:25 final size:25
Alignment explanation
Indices: 43341082--43341164 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
43341072 ACGAGCTATA
*
43341082 AATCGACAAGCTCATACGAGCTGAG
1 AATCGATAAGCTCATACGAGCTGAG
* * *
43341107 AATCGGTAGGCTC-TCACGAGCTG-C
1 AATCGATAAGCTCAT-ACGAGCTGAG
*
43341131 AATCGATAAGCTCATATGAGCTGAG
1 AATCGATAAGCTCATACGAGCTGAG
*
43341156 AATCAATAA
1 AATCGATAA
43341165 TGCCTAATGA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 19 0.41
25 27 0.59
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
AATCGATAAGCTCATACGAGCTGAG
Found at i:43341120 original size:50 final size:49
Alignment explanation
Indices: 43341041--43341160 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 49
43341031 GTACATGTAT
* * *
43341041 GCTCATACGAGCT-ATGGATCAGTATGCTCTCACGAGCTATAAATCGACAA
1 GCTCATACGAGCTGA-GAATCAGTAGGCTCTCACGAGCT-GAAATCGACAA
* * *
43341091 GCTCATACGAGCTGAGAATCGGTAGGCTCTCACGAGCTGCAATCGATAA
1 GCTCATACGAGCTGAGAATCAGTAGGCTCTCACGAGCTGAAATCGACAA
*
43341140 GCTCATATGAGCTGAGAATCA
1 GCTCATACGAGCTGAGAATCA
43341161 ATAATGCCTA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 27 0.44
50 33 0.54
51 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (49 bp):
GCTCATACGAGCTGAGAATCAGTAGGCTCTCACGAGCTGAAATCGACAA
Found at i:43347268 original size:79 final size:80
Alignment explanation
Indices: 43347125--43347332 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
43347115 ACCTTCGGAG
* * ** * * * *
43347125 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
43347189 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
43347204 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
43347266 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
43347283 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
43347333 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:43347277 original size:40 final size:40
Alignment explanation
Indices: 43347225--43347332 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
43347215 TATCACGATT
** *
43347225 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
43347265 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
43347305 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
43347333 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:43355382 original size:79 final size:80
Alignment explanation
Indices: 43355239--43355446 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
43355229 ACCTTCGGAG
* * ** * * * *
43355239 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
43355303 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
43355318 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
43355380 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
43355397 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
43355447 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:43355391 original size:40 final size:40
Alignment explanation
Indices: 43355339--43355446 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
43355329 TATCACGATT
** *
43355339 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
43355379 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
43355419 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
43355447 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:43360155 original size:25 final size:25
Alignment explanation
Indices: 43360131--43360240 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
43360121 ATACATGTAT
*
43360131 GCTCATACGAGCTATGAATTGGTAT
1 GCTCATACGAGCTATGAATTGGTAA
* * *
43360156 GCTC-TCACGCGCTGTAAATTGGTAA
1 GCTCAT-ACGAGCTATGAATTGGTAA
43360181 GCTCATACGAGCTGA-GAATTGGTAA
1 GCTCATACGAGCT-ATGAATTGGTAA
* * * *
43360206 GCTC-TCATGAGCTA-AAACTGGAAA
1 GCTCAT-ACGAGCTATGAATTGGTAA
43360230 GCTCATACGAG
1 GCTCATACGAG
43360241 TTGAGAATCG
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
24 18 0.26
25 49 0.72
26 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTATGAATTGGTAA
Found at i:43360246 original size:49 final size:50
Alignment explanation
Indices: 43360131--43360254 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
43360121 ATACATGTAT
* * * * *
43360131 GCTCATACGAGCT-ATGAATTGGTATGCTCTCACGCGCTGTAAATTGGTAA
1 GCTCATACGAGCTGA-GAATTGGTAAGCTCTCACGAGCTGAAAACTGGAAA
*
43360181 GCTCATACGAGCTGAGAATTGGTAAGCTCTCATGAGCT-AAAACTGGAAA
1 GCTCATACGAGCTGAGAATTGGTAAGCTCTCACGAGCTGAAAACTGGAAA
* *
43360230 GCTCATACGAGTTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATTGGTAA
43360255 TCCCTAATGA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 31 0.48
50 33 0.51
51 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATTGGTAAGCTCTCACGAGCTGAAAACTGGAAA
Found at i:43362744 original size:23 final size:23
Alignment explanation
Indices: 43362718--43362781 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
43362708 AGCAGATTTT
43362718 GGATTGGTCCTCCAGACTGGAAA
1 GGATTGGTCCTCCAGACTGGAAA
*
43362741 GGATTGGTCTTCCAGACTGGAAA
1 GGATTGGTCCTCCAGACTGGAAA
43362764 GGATTGGTCCTCCAGACT
1 GGATTGGTCCTCCAGACT
43362782 AGATGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (23 bp):
GGATTGGTCCTCCAGACTGGAAA
Found at i:43375560 original size:28 final size:28
Alignment explanation
Indices: 43375515--43375583 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
43375505 TTTAAAACCC
*
43375515 TAGGGGT-ATATCGGTAATTATGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
*
43375542 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTATGCTCTT
43375570 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
43375584 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.42
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTATGCTCTT
Found at i:43378200 original size:40 final size:40
Alignment explanation
Indices: 43378119--43378338 Score: 225
Period size: 40 Copynumber: 5.5 Consensus size: 40
43378109 TATTCGAATG
* * *
43378119 ATATCCGGGCTAAG-TCCAAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGC-GAGTGACT
* *
43378159 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
* * * * *
43378199 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
* * *
43378239 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTGACT
* * **
43378279 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
43378318 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
43378339 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 15 0.10
40 107 0.71
41 15 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTGACT
Found at i:43385109 original size:38 final size:38
Alignment explanation
Indices: 43385067--43385188 Score: 138
Period size: 38 Copynumber: 3.2 Consensus size: 38
43385057 ACAGGCTATA
43385067 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
43385105 TGCTGGTAA-TATATCCGAGTTAAATCCCGCAGGCCTAG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * * *
43385143 TGCTGGTATTATATCTGAGTTTAAAGTCTCGTAGGCTTCG
1 TGCTGGAATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
43385183 TGCTGG
1 TGCTGG
43385189 TGTTATGTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
37 1 0.01
38 45 0.65
39 7 0.10
40 16 0.23
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:43394854 original size:21 final size:21
Alignment explanation
Indices: 43394828--43394898 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
43394818 TATCACGAAC
43394828 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* *
43394849 TCAGACGTCACATATATC-ATGAACT
1 TCAGAC--CACA-A-CTCAATG-AGT
43394874 T-AGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
43394894 TCAGA
1 TCAGA
43394899 TTTCATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 5 0.13
21 13 0.33
22 4 0.10
23 4 0.10
24 8 0.21
25 5 0.13
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:43394865 original size:45 final size:45
Alignment explanation
Indices: 43394810--43394898 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
43394800 TAAAACATGT
*
43394810 GTCATATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
* *
43394855 GTCACATATATCATGAACTTAGACCACAACTCAATGAGTTCAGA
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGA
43394899 TTTCATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCAGAC
Found at i:43396851 original size:21 final size:21
Alignment explanation
Indices: 43396827--43396896 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
43396817 CACATACATC
43396827 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
43396848 ATGAGTTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
*
43396872 ATGAACTCAGACCACAACTTA
1 ATGAACTCAGACCACAACTCA
43396893 ATGA
1 ATGA
43396897 GTTCCGATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 4 0.11
23 4 0.11
24 10 0.29
25 2 0.06
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:43396864 original size:45 final size:45
Alignment explanation
Indices: 43396814--43396900 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
43396804 CCAAAACATG
43396814 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* *
43396859 TGTCACATATATCATGAACTCAGACCACAACTTAATGAGTTC
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTC
43396901 CGATCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:43399627 original size:28 final size:30
Alignment explanation
Indices: 43399592--43399660 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
43399582 CAGCTTTAAC
43399592 TCATAATA-ACATCATCAGATTAAAACAAA
1 TCATAATATACATCATCAGATTAAAACAAA
*
43399621 TCTAATAAGTATATATCATCAGATTAAAACAAA
1 TC--ATAA-TATACATCATCAGATTAAAACAAA
43399654 TC-TAATA
1 TCATAATA
43399661 GGTATATCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
29 4 0.11
30 3 0.09
31 4 0.11
32 2 0.06
33 22 0.63
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.29
Consensus pattern (30 bp):
TCATAATATACATCATCAGATTAAAACAAA
Found at i:43399644 original size:33 final size:33
Alignment explanation
Indices: 43399602--43399667 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
43399592 TCATAATAAC
43399602 ATCATCAGATTAAAACAAATCTAATAAGTATAT
1 ATCATCAGATTAAAACAAATCTAATAAGTATAT
*
43399635 ATCATCAGATTAAAACAAATCTAATAGGTATAT
1 ATCATCAGATTAAAACAAATCTAATAAGTATAT
43399668 CTTTGTATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (33 bp):
ATCATCAGATTAAAACAAATCTAATAAGTATAT
Found at i:43403280 original size:45 final size:45
Alignment explanation
Indices: 43403212--43403297 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
43403202 CCAAAACATG
43403212 TGTCACATACATCATGAAATCAGACCACAACTCAATGAGTTTATA
1 TGTCACATACATCATGAAATCAGACCACAACTCAATGAGTTTATA
* *
43403257 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTT
1 TGTCACATACATCATGAAATCAGACCACAACTCAATGAGTT
43403298 CAGATCACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
TGTCACATACATCATGAAATCAGACCACAACTCAATGAGTTTATA
Found at i:43413483 original size:29 final size:29
Alignment explanation
Indices: 43413449--43413609 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
43413439 TACTCGATTT
** * *
43413449 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
43413478 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
43413507 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43413536 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43413565 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43413594 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43413610 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43415240 original size:33 final size:33
Alignment explanation
Indices: 43415162--43415267 Score: 124
Period size: 33 Copynumber: 3.2 Consensus size: 33
43415152 AACAGTGCAT
* * *
43415162 ACAGTAACGGTCTGGGCTCTGAGCCCTACT-CAATA
1 ACAGT-ACAGTCTGGGC-CTAAGCCCTA-TGCAGTA
* *
43415197 ATAGTGCAGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
*
43415230 ACAGTACAGTCTGGGCCTAAACCCTATGCAGTA
1 ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
43415263 ACAGT
1 ACAGT
43415268 GTAGGCCTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.02
33 48 0.77
34 9 0.15
35 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (33 bp):
ACAGTACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:43415274 original size:28 final size:30
Alignment explanation
Indices: 43415210--43415281 Score: 76
Period size: 33 Copynumber: 2.3 Consensus size: 30
43415200 GTGCAGTCTG
* *
43415210 GGCCTAAGCCCTATGCAGTAACAGTACAGTCTG
1 GGCCTAAACCCTATGCAGTAACAGT--AG-CTA
43415243 GGCCTAAACCCTATGCAGTAACAGT-G-TA
1 GGCCTAAACCCTATGCAGTAACAGTAGCTA
43415271 GGCCTATAACC
1 GGCCTA-AACC
43415282 AAAACAGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 7 0.19
29 4 0.11
30 1 0.03
33 24 0.67
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (30 bp):
GGCCTAAACCCTATGCAGTAACAGTAGCTA
Found at i:43421565 original size:19 final size:20
Alignment explanation
Indices: 43421541--43421591 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
43421531 TAACTACATA
*
43421541 AATAATGAAATAAA-ATGAC
1 AATAATGAAATAAATATAAC
43421560 AATAAT-ATAATAAATATAAC
1 AATAATGA-AATAAATATAAC
43421580 AATAA-GAAATAA
1 AATAATGAAATAA
43421592 TAATAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 17 0.61
20 10 0.36
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.24
Consensus pattern (20 bp):
AATAATGAAATAAATATAAC
Done.