Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 48 of 126
Found at i:13988615 original size:26 final size:26
Alignment explanation
Indices: 13988564--13988650 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 26
13988554 GATCAAAGCA
*
13988564 TGCTAAA-AAACACCAGA-TCAAAGCC
1 TGCTAAATAAACACCA-ACTCAAGGCC
* ***
13988589 TGCTAAATAATCATTGACTCAAGGCC
1 TGCTAAATAAACACCAACTCAAGGCC
*
13988615 TTCTAAATAAACACCAACTCAAGGCC
1 TGCTAAATAAACACCAACTCAAGGCC
13988641 TGCTAAATAA
1 TGCTAAATAA
13988651 GCATCAGCGC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 8 0.16
26 41 0.84
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (26 bp):
TGCTAAATAAACACCAACTCAAGGCC
Found at i:13988663 original size:26 final size:26
Alignment explanation
Indices: 13988564--13988667 Score: 95
Period size: 26 Copynumber: 4.0 Consensus size: 26
13988554 GATCAAAGCA
* * *
13988564 TGCTAAA-AAACACCAGATCAAAGCC
1 TGCTAAATAAACATCAGCTCAAGGCC
* *
13988589 TGCTAAATAATCAT-TGACTCAAGGCC
1 TGCTAAATAAACATCAG-CTCAAGGCC
* * *
13988615 TTCTAAATAAACACCAACTCAAGGCC
1 TGCTAAATAAACATCAGCTCAAGGCC
* *
13988641 TGCTAAATAAGCATCAGCGCAAGGCC
1 TGCTAAATAAACATCAGCTCAAGGCC
13988667 T
1 T
13988668 ACTATTCAAG
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
25 8 0.13
26 53 0.87
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.19
Consensus pattern (26 bp):
TGCTAAATAAACATCAGCTCAAGGCC
Found at i:13988664 original size:52 final size:51
Alignment explanation
Indices: 13988566--13988667 Score: 127
Period size: 52 Copynumber: 2.0 Consensus size: 51
13988556 TCAAAGCATG
* * *
13988566 CTAAAAAACACCAGATCAAAGCCTGCTAAATAATCATTGACTCAAGGCCTT
1 CTAAAAAACACCAGATCAAAGCCTGCTAAATAAGCATAGACGCAAGGCCTT
*
13988617 CTAAATAAACACCA-ACTCAAGGCCTGCTAAATAAGCATCAG-CGCAAGGCCT
1 CTAAA-AAACACCAGA-TCAAAGCCTGCTAAATAAGCAT-AGACGCAAGGCCT
13988668 ACTATTCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
51 6 0.14
52 37 0.84
53 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (51 bp):
CTAAAAAACACCAGATCAAAGCCTGCTAAATAAGCATAGACGCAAGGCCTT
Found at i:14001524 original size:17 final size:17
Alignment explanation
Indices: 14001499--14001538 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14001489 GCTGGAAAAT
14001499 ATGGCCATCGACGCCAC
1 ATGGCCATCGACGCCAC
* * *
14001516 ATGGTCATCGATGCTAC
1 ATGGCCATCGACGCCAC
14001533 ATGGCC
1 ATGGCC
14001539 GTGTAACTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.20
Consensus pattern (17 bp):
ATGGCCATCGACGCCAC
Found at i:14001803 original size:32 final size:32
Alignment explanation
Indices: 14001767--14001846 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
14001757 TGCTAGGTCG
* * *
14001767 TGTGAAACAACACGGGCCATATATTTAGGACA
1 TGTGAAACCACACGGGCCAGATATTCAGGACA
* * *
14001799 TGTGAAACCACACGAGCTAGATATTCAGGCCA
1 TGTGAAACCACACGGGCCAGATATTCAGGACA
*
14001831 TATGAAACCACACGGG
1 TGTGAAACCACACGGG
14001847 GGTGTGAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (32 bp):
TGTGAAACCACACGGGCCAGATATTCAGGACA
Found at i:14003338 original size:40 final size:40
Alignment explanation
Indices: 14003277--14003391 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
14003267 TTTGGAACAA
* * *
14003277 AAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCCA-
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA-CCAC
** *
14003317 AAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-CCACC
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCA-C
* *
14003357 AAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA
14003392 TATAAAGCGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.05
39 13 0.21
40 45 0.74
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (40 bp):
AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCAC
Found at i:14003514 original size:41 final size:41
Alignment explanation
Indices: 14003449--14003644 Score: 207
Period size: 41 Copynumber: 4.8 Consensus size: 41
14003439 TTTTTAAACC
* *
14003449 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCT-TGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* ** * *
14003490 TTTAGCGGCGTTTGTATCCGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
* *
14003531 TTTAGCGGCGTTTTTATCTAAGAGCCGCTAATGCTC-GGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* * * * *
14003572 TTTAGCAGCATTTTTATCTGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
** *
14003613 TTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
14003645 AGTAACAAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 118 0.94
42 5 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
Found at i:14003640 original size:82 final size:82
Alignment explanation
Indices: 14003447--14003644 Score: 306
Period size: 82 Copynumber: 2.4 Consensus size: 82
14003437 GATTTTTAAA
* * * *
14003447 CCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTTGGATATTTAGCGGCGTTTGTATCCGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
14003512 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
14003529 CCTTTAGCGGCGTTTTTATCTAAGAGCCGCTAATGCTCGGATATTTAGCAGCATTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
14003594 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
** *
14003611 CCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
14003645 AGTAACAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
CGCCGCTAATTCTCTGG
Found at i:14004397 original size:40 final size:40
Alignment explanation
Indices: 14004336--14004450 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
14004326 TTTGGAACAA
* * *
14004336 AAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCCA-
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA-CCAC
** *
14004376 AAGCGCCGCTAAAGGTAGAGCATCAGCGGCGATTT-CCACC
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCA-C
* *
14004416 AAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA
1 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA
14004451 TATAAAGCGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 3 0.05
39 13 0.21
40 45 0.74
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (40 bp):
AAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTACCAC
Found at i:14004573 original size:41 final size:41
Alignment explanation
Indices: 14004508--14004703 Score: 207
Period size: 41 Copynumber: 4.8 Consensus size: 41
14004498 TTTTTAAACC
* *
14004508 TTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCT-TGGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* ** * *
14004549 TTTAGCGGCGTTTGTATCCGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
* *
14004590 TTTAGCGGCGTTTTTATCTAAGAGCCGCTAATGCTC-GGATA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGG-CA
* * * * *
14004631 TTTAGCAGCATTTTTATCTGAGCGCCGCTAATTCTCTGGCC
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
** *
14004672 TTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
14004704 AGTAACAAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.02
41 118 0.94
42 5 0.04
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGGCA
Found at i:14004699 original size:82 final size:82
Alignment explanation
Indices: 14004506--14004703 Score: 306
Period size: 82 Copynumber: 2.4 Consensus size: 82
14004496 GATTTTTAAA
* * * *
14004506 CCTTTAGCGGCGTTTTTATCTAAGCGCCACTAATGCTTGGATATTTAGCGGCGTTTGTATCCGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
14004571 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
* * *
14004588 CCTTTAGCGGCGTTTTTATCTAAGAGCCGCTAATGCTCGGATATTTAGCAGCATTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
14004653 CGCCGCTAATTCTCTGG
66 CGCCGCTAATTCTCTGG
** *
14004670 CCTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAAT
14004704 AGTAACAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.34
Consensus pattern (82 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGGATATTTAGCAGCATTTGTATCCGAG
CGCCGCTAATTCTCTGG
Found at i:14006001 original size:7 final size:7
Alignment explanation
Indices: 14005989--14006051 Score: 63
Period size: 7 Copynumber: 8.7 Consensus size: 7
14005979 GATATAAGGT
14005989 TTAGGGG
1 TTAGGGG
*
14005996 TTAGGGA
1 TTAGGGG
**
14006003 TTAGAGAT
1 TTAG-GGG
14006011 TTAGGGG
1 TTAGGGG
*
14006018 TTAAGGG
1 TTAGGGG
*
14006025 TTAGGGAT
1 TTAGGG-G
14006033 TTAGGGG
1 TTAGGGG
14006040 TTAGGGG
1 TTAGGGG
14006047 TTAGG
1 TTAGG
14006052 AATTTAGGGG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
7 34 0.76
8 11 0.24
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:14006002 original size:22 final size:21
Alignment explanation
Indices: 14005971--14006105 Score: 85
Period size: 22 Copynumber: 6.1 Consensus size: 21
14005961 TACTCTATTA
*
14005971 GGGTTTGGGATATAAGGTTTAG
1 GGGTTAGGGAT-TAAGGTTTAG
*
14005993 GGGTTAGGGATTAGAGATTTAG
1 GGGTTAGGGATTA-AGGTTTAG
*
14006015 GGGTTAAGGG-TTAGGGATTTAG
1 GGGTT-AGGGATTAAGG-TTTAG
*
14006037 GGGTTAGGGGTT-AGGAATTTAG
1 GGGTTAGGGATTAAGG--TTTAG
* * * *
14006059 GGGCTAGGAGATTTAGGGGTTAC
1 GGGTTAGG-GA-TTAAGGTTTAG
* *
14006082 TGGTTAGGGATTTAGGGTTTAG
1 GGGTTAGGGA-TTAAGGTTTAG
14006104 GG
1 GG
14006106 TGTCAAGGGT
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
21 9 0.10
22 63 0.70
23 14 0.16
24 2 0.02
25 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.33
Consensus pattern (21 bp):
GGGTTAGGGATTAAGGTTTAG
Found at i:14006042 original size:15 final size:15
Alignment explanation
Indices: 14005996--14006080 Score: 68
Period size: 15 Copynumber: 5.7 Consensus size: 15
14005986 GGTTTAGGGG
* *
14005996 TTAGGGATTAGAGAT
1 TTAGGGGTTAGGGAT
14006011 TTAGGGGTTAAGGG--
1 TTAGGGGTT-AGGGAT
* *
14006025 TTAGGGATTTAGGG-G
1 TTAGGG-GTTAGGGAT
*
14006040 TTAGGGGTTAGGAAT
1 TTAGGGGTTAGGGAT
*
14006055 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
14006071 TTAGGGGTTA
1 TTAGGGGTTA
14006081 CTGGTTAGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
14 15 0.27
15 27 0.48
16 14 0.25
ACGTcount: A:0.25, C:0.01, G:0.42, T:0.32
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:14006073 original size:38 final size:37
Alignment explanation
Indices: 14006026--14006098 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
14006016 GGTTAAGGGT
*
14006026 TAGGGATTTAGGGGTTAGGGGTTAGGAATTTAGGGGC
1 TAGGGATTTAGGGGTTACGGGTTAGGAATTTAGGGGC
* *
14006063 TAGGAGATTTAGGGGTTACTGGTTAGGGATTTAGGG
1 TAGG-GATTTAGGGGTTACGGGTTAGGAATTTAGGG
14006099 TTTAGGGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.22, C:0.03, G:0.44, T:0.32
Consensus pattern (37 bp):
TAGGGATTTAGGGGTTACGGGTTAGGAATTTAGGGGC
Found at i:14006102 original size:7 final size:7
Alignment explanation
Indices: 14005968--14006106 Score: 59
Period size: 7 Copynumber: 19.0 Consensus size: 7
14005958 ATGTACTCTA
14005968 TTAGGGT
1 TTAGGGT
14005975 TT-GGGAT
1 TTAGGG-T
* *
14005982 ATAAGGT
1 TTAGGGT
*
14005989 TTAGGGG
1 TTAGGGT
*
14005996 TTAGGGA
1 TTAGGGT
*
14006003 TTAGAGAT
1 TTAG-GGT
14006011 TTAGGGGT
1 TTA-GGGT
*
14006019 TAAGGG-
1 TTAGGGT
14006025 TTAGGGAT
1 TTAGGG-T
*
14006033 TTAGGGG
1 TTAGGGT
*
14006040 TTAGGGG
1 TTAGGGT
*
14006047 TTAGGAAT
1 TTAGG-GT
*
14006055 TTAGGGG
1 TTAGGGT
*
14006062 CTAGGAGAT
1 TTAGG-G-T
*
14006071 TTAGGGG
1 TTAGGGT
*
14006078 TTACTGG-
1 TTA-GGGT
14006085 TTAGGGAT
1 TTAGGG-T
14006093 TTAGGGT
1 TTAGGGT
14006100 TTAGGGT
1 TTAGGGT
14006107 GTCAAGGGTA
Statistics
Matches: 98, Mismatches: 22, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
6 10 0.10
7 52 0.53
8 31 0.32
9 5 0.05
ACGTcount: A:0.22, C:0.01, G:0.42, T:0.34
Consensus pattern (7 bp):
TTAGGGT
Found at i:14006810 original size:19 final size:19
Alignment explanation
Indices: 14006778--14006815 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14006768 TTTATGAAAT
*
14006778 AATTTTAAACATTACTTAA
1 AATTTTAAACATTAATTAA
14006797 AATTTTAATA-ATTAATTAA
1 AATTTTAA-ACATTAATTAA
14006816 TTAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTAAACATTAATTAA
Found at i:14007266 original size:21 final size:21
Alignment explanation
Indices: 14007236--14007276 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
14007226 AGAAAAATGG
*
14007236 GCATTTGCGGCGTTTTATTCA
1 GCATTAGCGGCGTTTTATTCA
14007257 GCATTAGCGGCGTTTTATTC
1 GCATTAGCGGCGTTTTATTC
14007277 GTAAACGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (21 bp):
GCATTAGCGGCGTTTTATTCA
Found at i:14008876 original size:13 final size:13
Alignment explanation
Indices: 14008858--14008887 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14008848 AAAGTTGTTA
14008858 AATATTTGATATT
1 AATATTTGATATT
*
14008871 AATATTTGGTATT
1 AATATTTGATATT
14008884 AATA
1 AATA
14008888 ATGAAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
AATATTTGATATT
Found at i:14010647 original size:21 final size:21
Alignment explanation
Indices: 14010584--14010661 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
14010574 AGTAGATGCG
* * *
14010584 GCAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAAAGGCC
* * *
14010605 ACAACGAGAGAAGCAGAGGCC
1 GCAGCGAGAGAAGCAAAGGCC
*
14010626 GCAGCGAGAGAAGCAAATGCC
1 GCAGCGAGAGAAGCAAAGGCC
*
14010647 GCAGCAAGAGAAGCA
1 GCAGCGAGAGAAGCA
14010662 GCTAGAGAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.38, C:0.22, G:0.37, T:0.03
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAAAGGCC
Found at i:14010662 original size:12 final size:12
Alignment explanation
Indices: 14010647--14010686 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
14010637 AGCAAATGCC
14010647 GCAGCAAGAGAA
1 GCAGCAAGAGAA
*
14010659 GCAGCTAGAGAA
1 GCAGCAAGAGAA
* *
14010671 GCAGCGATAGAA
1 GCAGCAAGAGAA
14010683 GCAG
1 GCAG
14010687 AGGTTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.17, G:0.35, T:0.05
Consensus pattern (12 bp):
GCAGCAAGAGAA
Found at i:14011178 original size:42 final size:42
Alignment explanation
Indices: 14011123--14011263 Score: 194
Period size: 42 Copynumber: 3.3 Consensus size: 42
14011113 TTTGTGAAAT
* *
14011123 AAGCGCCGTTAAAGAACATGATCTTTAGTGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
14011165 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
* * **
14011206 TAAGTGCCACTAAAGAACATGATCTTTAGCGGCGTTTTTTCTGT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TCC
*
14011250 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
14011264 TTAGCGACGT
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 8 0.09
42 62 0.71
43 16 0.18
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCC
Found at i:14014879 original size:10 final size:11
Alignment explanation
Indices: 14014850--14014884 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
14014840 TTTTCAATGA
14014850 AAATGAAAAAT
1 AAATGAAAAAT
14014861 AAATGAAAAAT
1 AAATGAAAAAT
*
14014872 ATAT-AAAAAT
1 AAATGAAAAAT
14014882 AAA
1 AAA
14014885 AAATCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
AAATGAAAAAT
Found at i:14016273 original size:426 final size:426
Alignment explanation
Indices: 14015480--14016332 Score: 1697
Period size: 426 Copynumber: 2.0 Consensus size: 426
14015470 ACTATGTCTA
14015480 TCTATAGGCTTGTAAAACCATATTCTAATAGGAGTGTAGTAAGATTGAAACACATTTTCTAATCA
1 TCTATAGGCTTGTAAAACCATATTCTAATAGGAGTGTAGTAAGATTGAAACACATTTTCTAATCA
14015545 ATATCAAATAGATAGAGTTTAATAAGGTTTAAAAAACATTATTCTAAAATAAAATAAAAGAAGTA
66 ATATCAAATAGATAGAGTTTAATAAGGTTTAAAAAACATTATTCTAAAATAAAATAAAAGAAGTA
14015610 TAGTTCTATAGAGATTTTACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCGG
131 TAGTTCTATAGAGATTTTACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCGG
14015675 GTCACTTAGTTTTAATATTATTAGTATTAAATCAATAATAATTCATACAAACTAAATAATTACAA
196 GTCACTTAGTTTTAATATTATTAGTATTAAATCAATAATAATTCATACAAACTAAATAATTACAA
14015740 AAATAACTTCAACTTAATTAGTTTTTCCCCAATACGTTTGCTTTTAGTAAAAGCTTTCACCAATA
261 AAATAACTTCAACTTAATTAGTTTTTCCCCAATACGTTTGCTTTTAGTAAAAGCTTTCACCAATA
14015805 TCACTTTTATCTTTTGAATTGAAAGGAATTCACAATTCGTCATAGCGGGTTAATGATAAATATAA
326 TCACTTTTATCTTTTGAATTGAAAGGAATTCACAATTCGTCATAGCGGGTTAATGATAAATATAA
14015870 TCCTTTTCACAAAAATAAAAATAACTTAATTACCTT
391 TCCTTTTCACAAAAATAAAAATAACTTAATTACCTT
*
14015906 TCTATAGGCTTGTAAAACCCTATTCTAATAGGAGTGTAGTAAGATTGAAACACATTTTCTAATCA
1 TCTATAGGCTTGTAAAACCATATTCTAATAGGAGTGTAGTAAGATTGAAACACATTTTCTAATCA
14015971 ATATCAAATAGATAGAGTTTAATAAGGTTTAAAAAACATTATTCTAAAATAAAATAAAAGAAGTA
66 ATATCAAATAGATAGAGTTTAATAAGGTTTAAAAAACATTATTCTAAAATAAAATAAAAGAAGTA
14016036 TAGTTCTATAGAGATTTTACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCGG
131 TAGTTCTATAGAGATTTTACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCGG
14016101 GTCACTTAGTTTTAATATTATTAGTATTAAATCAATAATAATTCATACAAACTAAATAATTACAA
196 GTCACTTAGTTTTAATATTATTAGTATTAAATCAATAATAATTCATACAAACTAAATAATTACAA
14016166 AAATAACTTCAACTTAATTAGTTTTTCCCCAATACGTTTGCTTTTAGTAAAAGCTTTCACCAATA
261 AAATAACTTCAACTTAATTAGTTTTTCCCCAATACGTTTGCTTTTAGTAAAAGCTTTCACCAATA
14016231 TCACTTTTATCTTTTGAATTGAAAGGAATTCACAATTCGTCATAGCGGGTTAATGATAAATATAA
326 TCACTTTTATCTTTTGAATTGAAAGGAATTCACAATTCGTCATAGCGGGTTAATGATAAATATAA
14016296 TCCTTTTCACAAAAATAAAAATAACTTAATTACCTT
391 TCCTTTTCACAAAAATAAAAATAACTTAATTACCTT
14016332 T
1 T
14016333 TGGTGCCATG
Statistics
Matches: 426, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
426 426 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (426 bp):
TCTATAGGCTTGTAAAACCATATTCTAATAGGAGTGTAGTAAGATTGAAACACATTTTCTAATCA
ATATCAAATAGATAGAGTTTAATAAGGTTTAAAAAACATTATTCTAAAATAAAATAAAAGAAGTA
TAGTTCTATAGAGATTTTACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCGG
GTCACTTAGTTTTAATATTATTAGTATTAAATCAATAATAATTCATACAAACTAAATAATTACAA
AAATAACTTCAACTTAATTAGTTTTTCCCCAATACGTTTGCTTTTAGTAAAAGCTTTCACCAATA
TCACTTTTATCTTTTGAATTGAAAGGAATTCACAATTCGTCATAGCGGGTTAATGATAAATATAA
TCCTTTTCACAAAAATAAAAATAACTTAATTACCTT
Found at i:14018335 original size:20 final size:19
Alignment explanation
Indices: 14018312--14018353 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14018302 TTAATATTTT
14018312 TTTATACATTTT-TAAAGTCA
1 TTTA-ACATTTTATAAA-TCA
*
14018332 TTTAAGATTTTATAAATCA
1 TTTAACATTTTATAAATCA
14018351 TTT
1 TTT
14018354 CTAAGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (19 bp):
TTTAACATTTTATAAATCA
Found at i:14018722 original size:14 final size:15
Alignment explanation
Indices: 14018703--14018741 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
14018693 TTGTTTTACT
14018703 GAAAATGACTTTC-A
1 GAAAATGACTTTCTA
*
14018717 GAAAATGA-TTTCTG
1 GAAAATGACTTTCTA
14018731 GAAAATGACTT
1 GAAAATGACTT
14018742 ACTTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (15 bp):
GAAAATGACTTTCTA
Found at i:14027567 original size:43 final size:43
Alignment explanation
Indices: 14027490--14027576 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
14027480 AGACTATCTG
* *
14027490 GCAGCTTTTATCTGCAAATATGTTGTGGATTCACAACCAACTA
1 GCAGCTCTTATCTGCAAATATGTTGTGGACTCACAACCAACTA
* * *
14027533 GCAGCTCTTATCTGCAACTATGTTGTGCG-CTCACATCCACCTA
1 GCAGCTCTTATCTGCAAATATGTTGTG-GACTCACAACCAACTA
14027576 G
1 G
14027577 AAACGTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (43 bp):
GCAGCTCTTATCTGCAAATATGTTGTGGACTCACAACCAACTA
Found at i:14028585 original size:16 final size:14
Alignment explanation
Indices: 14028566--14028626 Score: 69
Period size: 12 Copynumber: 4.6 Consensus size: 14
14028556 AATAATAAAA
14028566 TAATATAT-ACTAT
1 TAATATATAACTAT
14028579 TAATAATATAA-TA-
1 TAAT-ATATAACTAT
14028592 TAATATATAACTAT
1 TAATATATAACTAT
*
14028606 TACTA-A-AACTAT
1 TAATATATAACTAT
14028618 TAATATATA
1 TAATATATA
14028627 TAACTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
12 16 0.40
13 12 0.30
14 11 0.28
15 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATATAACTAT
Found at i:14028591 original size:24 final size:24
Alignment explanation
Indices: 14028556--14028626 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
14028546 TAAAACATAA
*
14028556 AATAATAAAATAATATATACTATT
1 AATAATATAATAATATATACTATT
14028580 AATAATATAATATAATATATAACTATT
1 AATAATAT-A-ATAATATAT-ACTATT
* * *
14028607 ACTAAAACTATTAATATATA
1 AATAATA-TAATAATATATA
14028627 TAACTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.18
25 2 0.05
26 17 0.44
27 12 0.31
28 1 0.03
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
AATAATATAATAATATATACTATT
Found at i:14028633 original size:16 final size:15
Alignment explanation
Indices: 14028567--14028635 Score: 55
Period size: 12 Copynumber: 5.0 Consensus size: 15
14028557 ATAATAAAAT
14028567 AATATAT-ACTATT-
1 AATATATAACTATTA
14028580 AATAATATAA-TA-T-
1 AAT-ATATAACTATTA
14028593 AATATATAACTATT-
1 AATATATAACTATTA
*
14028607 ACTA-A-AACTATTA
1 AATATATAACTATTA
14028620 ATATATATAACTATTA
1 A-ATATATAACTATTA
14028636 TTACAATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
12 13 0.28
13 11 0.24
14 12 0.26
15 2 0.04
16 8 0.17
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATATAACTATTA
Found at i:14030122 original size:30 final size:30
Alignment explanation
Indices: 14030086--14030278 Score: 167
Period size: 30 Copynumber: 6.5 Consensus size: 30
14030076 GATCATTGAC
*
14030086 TAATGAAAATGGATAGCTTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
* *
14030116 TTATGAAAAGGGATAGCCTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
* * * * *
14030146 TAATGAAAAGGGA-CGGTGACGACCAT-AAA
1 TAATGAAAAGGGATAGCT-TCGGCTATCAAA
* * * * * * *
14030175 CAATGAAAAAGGAT-GGTGACGACCATCGAA
1 TAATGAAAAGGGATAGCT-TCGGCTATCAAA
* * *
14030205 CAATGAAAAAGGATAGCTTCGGCTATCGAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
*
14030235 TTATGAAAAGGGATAGCTTCGGCTATCAAA
1 TAATGAAAAGGGATAGCTTCGGCTATCAAA
*
14030265 TTATGAAAAGGGAT
1 TAATGAAAAGGGAT
14030279 GGTGATGATC
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
29 27 0.20
30 109 0.79
31 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCGGCTATCAAA
Found at i:14030293 original size:30 final size:29
Alignment explanation
Indices: 14030140--14030337 Score: 127
Period size: 30 Copynumber: 6.7 Consensus size: 29
14030130 AGCCTCGGCT
*
14030140 ATCAAATAATGAAAAGGGACGGTGACGACC
1 ATCAAAT-ATGAAAAGGGATGGTGACGACC
* *
14030170 AT-AAACAATGAAAAAGGATGGTGACGACC
1 ATCAAA-TATGAAAAGGGATGGTGACGACC
* * * * *
14030199 ATCGAACA-ATGAAAAAGGATAGCT-TCGGCT
1 ATC-AA-ATATGAAAAGGGAT-GGTGACGACC
* * * * *
14030229 ATCGAATTATGAAAAGGGATAGCT-TCGGCT
1 ATC-AAATATGAAAAGGGAT-GGTGACGACC
* *
14030259 ATCAAATTATGAAAAGGGATGGTGATGATC
1 ATCAAA-TATGAAAAGGGATGGTGACGACC
14030289 ATCAACA-ATGAAAAGGGATGGTGACGACC
1 ATCAA-ATATGAAAAGGGATGGTGACGACC
*
14030318 ATTAAATAATGAAAAGGGAT
1 ATCAAAT-ATGAAAAGGGAT
14030338 AGCTTCAGGT
Statistics
Matches: 138, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
28 1 0.01
29 53 0.38
30 78 0.57
31 5 0.04
32 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (29 bp):
ATCAAATATGAAAAGGGATGGTGACGACC
Found at i:14030362 original size:30 final size:31
Alignment explanation
Indices: 14030328--14030482 Score: 185
Period size: 30 Copynumber: 5.2 Consensus size: 31
14030318 ATTAAATAAT
* *
14030328 GAAAAGGGATAGCTTCAG-GTATCGAGCTAC
1 GAAAAGGGATAGCTTCAGACTATCGAGCCAC
* *
14030358 GAAAAGGGATAACTT-TGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGACTATCGAGCCAC
* *
14030388 GAAAAGGGATAGCTTCAG-CTATCGAGCTAT
1 GAAAAGGGATAGCTTCAGACTATCGAGCCAC
* *
14030418 GAAAATGGATAGCTT-TGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGACTATCGAGCCAC
* *
14030448 GAAAAGGGATAGCTTC-GACTCTCGAGCCAT
1 GAAAAGGGATAGCTTCAGACTATCGAGCCAC
14030478 GAAAA
1 GAAAA
14030483 AGGTTGGAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.02
30 103 0.97
31 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (31 bp):
GAAAAGGGATAGCTTCAGACTATCGAGCCAC
Found at i:14030380 original size:119 final size:119
Alignment explanation
Indices: 14030086--14030368 Score: 406
Period size: 119 Copynumber: 2.4 Consensus size: 119
14030076 GATCATTGAC
* * *
14030086 TAATGAAAATGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCCTCGGCTATCAAATAATG
1 TAATGAAAAAGGATAGCTTCGGCTATCGAATTATGAAAAGGGATAGCTTCGGCTATCAAATAATG
*
14030151 AAAAGGGACGGTGACGACCATAAACAATGAAAAAGGATGGTGACGACCATCGAA
66 AAAAGGGACGGTGACGACCATAAACAATGAAAAAGGATGGTGACGACCATCAAA
* *
14030205 CAATGAAAAAGGATAGCTTCGGCTATCGAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATG
1 TAATGAAAAAGGATAGCTTCGGCTATCGAATTATGAAAAGGGATAGCTTCGGCTATCAAATAATG
* * * * * *
14030270 AAAAGGGATGGTGATGATCATCAACAATGAAAAGGGATGGTGACGACCATTAAA
66 AAAAGGGACGGTGACGACCATAAACAATGAAAAAGGATGGTGACGACCATCAAA
* ** *
14030324 TAATGAAAAGGGATAGCTTCAGG-TATCGAGCTACGAAAAGGGATA
1 TAATGAAAAAGGATAGCTTC-GGCTATCGAATTATGAAAAGGGATA
14030369 ACTTTGACTA
Statistics
Matches: 146, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
119 144 0.99
120 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.21
Consensus pattern (119 bp):
TAATGAAAAAGGATAGCTTCGGCTATCGAATTATGAAAAGGGATAGCTTCGGCTATCAAATAATG
AAAAGGGACGGTGACGACCATAAACAATGAAAAAGGATGGTGACGACCATCAAA
Found at i:14030473 original size:60 final size:60
Alignment explanation
Indices: 14030328--14030482 Score: 240
Period size: 60 Copynumber: 2.6 Consensus size: 60
14030318 ATTAAATAAT
* *
14030328 GAAAAGGGATAGCTTCAGGTATCGAGCTACGAAAAGGGATAACTTTGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGCTATCGAGCTATGAAAAGGGATAACTTTGACTATCGAGCCAC
* *
14030388 GAAAAGGGATAGCTTCAGCTATCGAGCTATGAAAATGGATAGCTTTGACTATCGAGCCAC
1 GAAAAGGGATAGCTTCAGCTATCGAGCTATGAAAAGGGATAACTTTGACTATCGAGCCAC
* *
14030448 GAAAAGGGATAGCTTC-GACTCTCGAGCCATGAAAA
1 GAAAAGGGATAGCTTCAG-CTATCGAGCTATGAAAA
14030483 AGGTTGGAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 1 0.01
60 87 0.99
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (60 bp):
GAAAAGGGATAGCTTCAGCTATCGAGCTATGAAAAGGGATAACTTTGACTATCGAGCCAC
Found at i:14035181 original size:37 final size:37
Alignment explanation
Indices: 14035140--14035216 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
14035130 TATCATTTTT
* * *
14035140 TAAAATTAAATTGATATAGTATGATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATGATGTTTAAACTTTG
*
14035177 TAAAATTAAATGGATACACTATTATGTTTAAACTTTG
1 TAAAATTAAATGGATACACTATGATGTTTAAACTTTG
14035214 TAA
1 TAA
14035217 TCATAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (37 bp):
TAAAATTAAATGGATACACTATGATGTTTAAACTTTG
Found at i:14037849 original size:5 final size:5
Alignment explanation
Indices: 14037839--14037884 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
14037829 ATATAGAAAA
* *
14037839 AATTT AATTT AATTA AATTT GATTT --TTAT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATT-T AATTT AATTT AATTT AA
14037885 ATTTTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
3 2 0.06
4 1 0.03
5 30 0.86
6 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
AATTT
Found at i:14037889 original size:24 final size:23
Alignment explanation
Indices: 14037841--14037897 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
14037831 ATAGAAAAAA
* *
14037841 TTTAATTTAATTAAATTTGATTT
1 TTTAATTTAATTAAATTTAAATT
*
14037864 TTATAATTTAATTTAATTTAAATT
1 TT-TAATTTAATTAAATTTAAATT
*
14037888 TTTTATTTAA
1 TTTAATTTAA
14037898 ATCATGTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTAATTTAATTAAATTTAAATT
Found at i:14045382 original size:40 final size:40
Alignment explanation
Indices: 14045345--14045610 Score: 403
Period size: 40 Copynumber: 6.7 Consensus size: 40
14045335 GCTACTCGTT
* *
14045345 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
14045385 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14045425 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14045465 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14045505 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
14045545 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14045586 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14045611 CATCATTCAA
Statistics
Matches: 213, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
39 3 0.01
40 197 0.92
41 13 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14050857 original size:40 final size:39
Alignment explanation
Indices: 14050820--14050911 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
14050810 GCTACTCGTT
*
14050820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
14050860 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
14050899 CAAATGCCTTCGG
1 CAAATGCCTTCGG
14050912 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:14050891 original size:39 final size:40
Alignment explanation
Indices: 14050801--14050964 Score: 167
Period size: 40 Copynumber: 4.1 Consensus size: 40
14050791 CGGAATTTAA
** *
14050801 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
14050841 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
14050880 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
14050920 CTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
14050960 CCGGA
1 CCGGA
14050965 CATCATTCGA
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 56 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:14054599 original size:38 final size:38
Alignment explanation
Indices: 14054483--14054605 Score: 165
Period size: 38 Copynumber: 3.2 Consensus size: 38
14054473 ATTTTGAGTA
* *
14054483 TTGTCAGATTCACTGACTAGTGATGGTCACACATATAT
1 TTGTCAGATTCACTGACCAGTGATGGGCACACATATAT
* * * * *
14054521 TTATTAAATTCACCGACCAGTGCTGGGCACACATATAT
1 TTGTCAGATTCACTGACCAGTGATGGGCACACATATAT
* *
14054559 TTGTCAGATTCACTAACCAGTGTTGGGCACACATATAT
1 TTGTCAGATTCACTGACCAGTGATGGGCACACATATAT
14054597 TTGTCAGAT
1 TTGTCAGAT
14054606 ATAGCGACAA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (38 bp):
TTGTCAGATTCACTGACCAGTGATGGGCACACATATAT
Found at i:14054623 original size:38 final size:38
Alignment explanation
Indices: 14054483--14054643 Score: 123
Period size: 38 Copynumber: 4.3 Consensus size: 38
14054473 ATTTTGAGTA
* * *
14054483 TTGTCAGATTCACTGACTAGTGA-TGGTCACACATATAT
1 TTGTCAGATTCACTAACAAGT-ATTGGGCACACATATAT
* * * ** * **
14054521 TTATTAAATTCACCGACCAGTGCTGGGCACACATATAT
1 TTGTCAGATTCACTAACAAGTATTGGGCACACATATAT
* *
14054559 TTGTCAGATTCACTAACCAGTGTTGGGCACACATATAT
1 TTGTCAGATTCACTAACAAGTATTGGGCACACATATAT
* * *
14054597 TTGTCAGATAT-AGC-GACAAGTATTGGGCATACATATAA
1 TTGTCAGAT-TCA-CTAACAAGTATTGGGCACACATATAT
14054635 TTGTC-GATT
1 TTGTCAGATT
14054644 GTATTGACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
36 1 0.01
37 3 0.03
38 96 0.94
39 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (38 bp):
TTGTCAGATTCACTAACAAGTATTGGGCACACATATAT
Found at i:14054624 original size:76 final size:76
Alignment explanation
Indices: 14054482--14054643 Score: 184
Period size: 76 Copynumber: 2.1 Consensus size: 76
14054472 TATTTTGAGT
* * * * * *
14054482 ATTGTCAGATTCACTGACTAGTGATGGTCACACATATATTTATTAAATTCACCGACCAGTGCTGG
1 ATTGTCAGATTCACTAACCAGTGATGGGCACACATATATTTATCAAATTCACCGACAAGTACTGG
14054547 GCACACATATA
66 GCACACATATA
* * * * * *
14054558 TTTGTCAGATTCACTAACCAGTGTTGGGCACACATATATTTGTCAGATAT-AGCGACAAGTATTG
1 ATTGTCAGATTCACTAACCAGTGATGGGCACACATATATTTATCAAAT-TCACCGACAAGTACTG
*
14054622 GGCATACATATA
65 GGCACACATATA
14054634 ATTGTC-GATT
1 ATTGTCAGATT
14054644 GTATTGACCA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
75 4 0.06
76 66 0.93
77 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (76 bp):
ATTGTCAGATTCACTAACCAGTGATGGGCACACATATATTTATCAAATTCACCGACAAGTACTGG
GCACACATATA
Found at i:14058954 original size:79 final size:78
Alignment explanation
Indices: 14058852--14059074 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
14058842 GCTCCTCGTT
* *
14058852 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14058917 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
14058932 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14058995 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
14059010 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
14059073 GA
63 GA
14059075 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:14058969 original size:39 final size:40
Alignment explanation
Indices: 14058852--14059074 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
14058842 GCTCCTCGTT
* *
14058852 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
14058892 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14058932 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14058971 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
14059010 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
14059051 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14059075 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:14066945 original size:79 final size:78
Alignment explanation
Indices: 14066843--14067065 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
14066833 GCTCCTCGTT
* *
14066843 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14066908 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
14066923 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
14066986 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
14067001 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
14067064 GA
63 GA
14067066 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:14066960 original size:39 final size:40
Alignment explanation
Indices: 14066843--14067065 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
14066833 GCTCCTCGTT
* *
14066843 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
14066883 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14066923 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
14066962 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
14067001 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
14067042 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
14067066 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:14074518 original size:15 final size:15
Alignment explanation
Indices: 14074498--14074537 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
14074488 TATCAGATCA
14074498 ACATAATGCACATAT
1 ACATAATGCACATAT
14074513 ACATAATGCACATAT
1 ACATAATGCACATAT
14074528 ACATAATGCA
1 ACATAATGCA
14074538 ATGCTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (15 bp):
ACATAATGCACATAT
Found at i:14075613 original size:23 final size:23
Alignment explanation
Indices: 14075562--14075616 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
14075552 AATAGTGATC
14075562 ATATAACCAGAATGACACAAATT
1 ATATAACCAGAATGACACAAATT
* * * *
14075585 ACATAACTAGAATGACATAGATT
1 ATATAACCAGAATGACACAAATT
*
14075608 GTATAACCA
1 ATATAACCA
14075617 AAACAAAACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (23 bp):
ATATAACCAGAATGACACAAATT
Found at i:14084073 original size:29 final size:29
Alignment explanation
Indices: 14084031--14084088 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
14084021 TCTTATTAAG
14084031 GAGATCTAAACCACGATACTATAGTGGAA
1 GAGATCTAAACCACGATACTATAGTGGAA
* *
14084060 GAGATCTAAGCCACGATACTGTAGTGGAA
1 GAGATCTAAACCACGATACTATAGTGGAA
14084089 TAACTTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (29 bp):
GAGATCTAAACCACGATACTATAGTGGAA
Found at i:14086647 original size:74 final size:75
Alignment explanation
Indices: 14086514--14086664 Score: 241
Period size: 74 Copynumber: 2.0 Consensus size: 75
14086504 TGAGTTCTAC
* *
14086514 AAGGTGACGATCTATAAGGAAAAGAGAAAACAAACTAGGTAAGCATATAAGATGCTTAGTAAGTT
1 AAGGTGACGATCTACAAGGAAAAGAGAAAACAAACTAGGTAAACATATAAGATGCTTAGTAAGTT
14086579 CATAGCCATT
66 CATAGCCATT
* * *
14086589 AAGGTGACTATCTACAAGGAAAAGGGAAAA-AAACTAGGTAAATATATAAGATGCTTAGTAAGTT
1 AAGGTGACGATCTACAAGGAAAAGAGAAAACAAACTAGGTAAACATATAAGATGCTTAGTAAGTT
*
14086653 CATAGGCATT
66 CATAGCCATT
14086663 AA
1 AA
14086665 ACAAAACTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 43 0.61
75 27 0.39
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (75 bp):
AAGGTGACGATCTACAAGGAAAAGAGAAAACAAACTAGGTAAACATATAAGATGCTTAGTAAGTT
CATAGCCATT
Found at i:14097453 original size:28 final size:28
Alignment explanation
Indices: 14097421--14097478 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
14097411 CGTCATTTTG
14097421 TATCACAAATTATCTATCATTTATATCA
1 TATCACAAATTATCTATCATTTATATCA
*
14097449 TATCACAAATTATTTATCATTTATATCA
1 TATCACAAATTATCTATCATTTATATCA
14097477 TA
1 TA
14097479 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.45
Consensus pattern (28 bp):
TATCACAAATTATCTATCATTTATATCA
Found at i:14098292 original size:9 final size:9
Alignment explanation
Indices: 14098278--14098318 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
14098268 TTATATATAC
14098278 CTTAATTAA
1 CTTAATTAA
14098287 CTTAATTAA
1 CTTAATTAA
*
14098296 CTTGATTTAA
1 CTT-AATTAA
14098306 -TTAATTAA
1 CTTAATTAA
14098314 CTTAA
1 CTTAA
14098319 GTATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 5 0.18
9 18 0.64
10 5 0.18
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (9 bp):
CTTAATTAA
Found at i:14098904 original size:22 final size:23
Alignment explanation
Indices: 14098865--14098913 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
14098855 GTAATTAAAC
14098865 TTAGTTAATCATGATTAC-TTAT
1 TTAGTTAATCATGATTACATTAT
*
14098887 TTAGTTAATC-TTATTTACATTTAT
1 TTAGTTAATCATGA-TTACA-TTAT
14098911 TTA
1 TTA
14098914 ATTTGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 2 0.09
22 14 0.61
24 7 0.30
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTAGTTAATCATGATTACATTAT
Found at i:14099565 original size:30 final size:29
Alignment explanation
Indices: 14099524--14099583 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
14099514 AGGCTAAATA
*
14099524 AGGCTTATAGGCCCATTTTGAAATTTATTT
1 AGGCTTATAGGCCCATTTT-AAAATTATTT
* **
14099554 AGGCTTTTAGGCCGGTTTTAAAATTATTT
1 AGGCTTATAGGCCCATTTTAAAATTATTT
14099583 A
1 A
14099584 AGGAAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (29 bp):
AGGCTTATAGGCCCATTTTAAAATTATTT
Found at i:14101731 original size:3 final size:3
Alignment explanation
Indices: 14101723--14101748 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14101713 AAAGCGTCTG
14101723 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
14101749 TTGGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:14101756 original size:21 final size:21
Alignment explanation
Indices: 14101732--14101771 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14101722 GTTCTTCTTC
14101732 TTCTTCTTCTTCTTCTTTTGG
1 TTCTTCTTCTTCTTCTTTTGG
* *
14101753 TTCTTTTTCTTTTTCTTTT
1 TTCTTCTTCTTCTTCTTTT
14101772 TGATAACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (21 bp):
TTCTTCTTCTTCTTCTTTTGG
Found at i:14102453 original size:63 final size:63
Alignment explanation
Indices: 14102283--14102453 Score: 218
Period size: 63 Copynumber: 2.7 Consensus size: 63
14102273 CAAGGCCGTG
* * * * ** *
14102283 TAACTCATTATTTTGGAATTAGAGTCACACGAGCTAGAGACACGAGCGTGTGTCCAGGCTGTG
1 TAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGGGCGTGTGTCCAAGCCATA
* * * *
14102346 TAACTCACTGTTTTGGAATTAGAA-TCACACGGGCCAAAGACACGGGCGTGTGTCCAAGCCATA
1 TAACTCATTGTTTTGGAATTA-AAGTCACACGAGCTAGAGACACGGGCGTGTGTCCAAGCCATA
*
14102409 TAACTCATTGTTTTGGAATTAAAGTCACACAAGCTAGAGACACGG
1 TAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGG
14102454 ATGTGTGCTA
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
62 2 0.02
63 87 0.97
64 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (63 bp):
TAACTCATTGTTTTGGAATTAAAGTCACACGAGCTAGAGACACGGGCGTGTGTCCAAGCCATA
Found at i:14103089 original size:44 final size:44
Alignment explanation
Indices: 14103039--14103122 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
14103029 TGCATATCAC
*
14103039 ACAAGATATAAACATTACACTCAACTATAGTCGCAAGCTATGTT
1 ACAAGATATAAACATTACACTCAACCATAGTCGCAAGCTATGTT
14103083 ACAAGATATAAACATTACACTCAACCATAGTCGCAAGCTA
1 ACAAGATATAAACATTACACTCAACCATAGTCGCAAGCTA
14103123 GTCTTTTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.24
Consensus pattern (44 bp):
ACAAGATATAAACATTACACTCAACCATAGTCGCAAGCTATGTT
Found at i:14104546 original size:51 final size:50
Alignment explanation
Indices: 14104476--14104671 Score: 171
Period size: 51 Copynumber: 3.9 Consensus size: 50
14104466 CAATGATGTT
* * *
14104476 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTCCCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATT-CCATC
* * * ** ** *
14104527 CGATACACGTAGTATCCTGCACATAGTACTATACACGTGATTGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTCCATC
* ** * * **
14104578 CGGTACGCAAAGTAGCCTACACATAGTACTACACATGCAACC-TAT-CATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-TCCA-TC
*
14104628 CGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
14104672 CATTTTCACT
Statistics
Matches: 107, Mismatches: 34, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
49 1 0.01
50 36 0.34
51 69 0.64
52 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTCCATC
Found at i:14115566 original size:13 final size:13
Alignment explanation
Indices: 14115548--14115622 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 13
14115538 TTCTTCATTG
14115548 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
14115561 CTTTTGAGAAGT-
1 CTTTTGAAAAGTA
* * * *
14115573 GTTGTGGAAAACTG
1 CTT-TTGAAAAGTA
* *
14115587 CTTTTGAGAATTA
1 CTTTTGAAAAGTA
* *
14115600 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
14115613 CTTTTGAAAA
1 CTTTTGAAAA
14115623 ATTTGAGTGC
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
12 2 0.04
13 43 0.91
14 2 0.04
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:14125552 original size:21 final size:22
Alignment explanation
Indices: 14125519--14125565 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
14125509 TTTTCATCAT
14125519 ATTACTAAATTAATTTAAAATA
1 ATTACTAAATTAATTTAAAATA
* * *
14125541 ATTA-TAATTTAATTTAGAATT
1 ATTACTAAATTAATTTAAAATA
14125562 ATTA
1 ATTA
14125566 GTTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTACTAAATTAATTTAAAATA
Found at i:14126893 original size:27 final size:27
Alignment explanation
Indices: 14126853--14126930 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
14126843 TAGTATTGGC
*
14126853 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
* * **
14126880 GCCTATCTGGGAGGCGCCATTATTGGT
1 GCCTATCTGAGAGGCGCCAATGGTGGT
*
14126907 GTCATAT-TGAGAGGCGCCAATGGT
1 G-CCTATCTGAGAGGCGCCAATGGT
14126931 CTGATTTTTC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.26
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGT
Found at i:14130175 original size:19 final size:19
Alignment explanation
Indices: 14130172--14130499 Score: 174
Period size: 19 Copynumber: 16.5 Consensus size: 19
14130162 CATACAAAAT
14130172 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
14130191 TACAAAAATATTGCAATATTCA
1 TAC--AAA-ATTACAATATTCA
* * *
14130213 TATAAAATTATAAAATT-A
1 TACAAAATTACAATATTCA
*
14130231 T--AATATTACAATATTCA
1 TACAAAATTACAATATTCA
14130248 TACAAAAAAATTACAATATTCA
1 TAC---AAAATTACAATATTCA
* *
14130270 TACAGAATTACGATATTCA
1 TACAAAATTACAATATTCA
14130289 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
14130310 TACAAAA-TACTA-ATCCGA
1 TACAAAATTACAATATTC-A
*
14130328 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
14130351 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
14130371 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
14130390 TACAAAA-TACTA-ATCCGA
1 TACAAAATTACAATATTC-A
*
14130408 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
14130431 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
14130451 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
14130470 TACAAAAAAATAGAATATTCA
1 TAC--AAAATTACAATATTCA
14130491 TACAAAATT
1 TACAAAATT
14130500 CTAATCCAAA
Statistics
Matches: 242, Mismatches: 32, Indels: 70
0.70 0.09 0.20
Matches are distributed among these distances:
16 11 0.05
17 8 0.03
18 16 0.07
19 81 0.33
20 29 0.12
21 41 0.17
22 42 0.17
23 10 0.04
25 4 0.02
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:14130307 original size:40 final size:41
Alignment explanation
Indices: 14130146--14130313 Score: 143
Period size: 41 Copynumber: 4.1 Consensus size: 41
14130136 GTTCTCCTCA
*
14130146 ACAGTATTACAATATTCATACAAAATTACAAAATTACAATATTCAT
1 ACAGAATTACAATATTCATAC--AA--A-AAAATTACAATATTCAT
* * * * *
14130192 ACAAAAATATTGCAATATTCAT---ATAAAATTATAAAATT-AT
1 AC--AGA-ATTACAATATTCATACAAAAAAATTACAATATTCAT
*
14130232 A-A-TATTACAATATTCATACAAAAAAATTACAATATTCAT
1 ACAGAATTACAATATTCATACAAAAAAATTACAATATTCAT
*
14130271 ACAGAATTACGATATTCATAC-AAAAAATTACAATATTCAT
1 ACAGAATTACAATATTCATACAAAAAAATTACAATATTCAT
14130311 ACA
1 ACA
14130314 AAATACTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
35 13 0.13
37 1 0.01
38 13 0.13
39 3 0.03
40 26 0.26
41 27 0.27
44 1 0.01
46 2 0.02
48 1 0.01
49 13 0.13
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.32
Consensus pattern (41 bp):
ACAGAATTACAATATTCATACAAAAAAATTACAATATTCAT
Found at i:14130380 original size:101 final size:98
Alignment explanation
Indices: 14130175--14130396 Score: 263
Period size: 101 Copynumber: 2.2 Consensus size: 98
14130165 ACAAAATTAC
* * *
14130175 AAAATTACAATATTCATACAAAAATATTGCAATATTCATATAAAATTATAAAATTATAATATTAC
1 AAAATTACAATATTCATACAAAAATATTACAATATTCATACAAAATTATAAAACTATAATATTAC
* *
14130240 AATATTCATACAAAAAAATTACAATATTCATAC
66 AATATTAATACAAAAAAATTACAATATTCATAA
* * *
14130273 AGAATTACGATATTCATACAAAAA-ATTACAATATTCATACAAAATACTAATCCGAAACTATAA-
1 AAAATTACAATATTCATACAAAAATATTACAATATTCATACAAAAT--T-AT--AAAACTATAAT
* *
14130336 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAA
61 ATTACAATA-TTAA-TACAAAAAAATTACAATATTCATAA
14130374 AAAATTACAATATTCATACAAAA
1 AAAATTACAATATTCATACAAAA
14130397 TACTAATCCG
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
97 19 0.18
98 22 0.21
99 2 0.02
100 10 0.10
101 44 0.42
102 8 0.08
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (98 bp):
AAAATTACAATATTCATACAAAAATATTACAATATTCATACAAAATTATAAAACTATAATATTAC
AATATTAATACAAAAAAATTACAATATTCATAA
Found at i:14130410 original size:80 final size:80
Alignment explanation
Indices: 14130275--14130476 Score: 377
Period size: 80 Copynumber: 2.5 Consensus size: 80
14130265 ATTCATACAG
*
14130275 AATTACGATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCGAAACTATAAATAC
1 AATTACAATATTCAT--AAAAAATTACAATATTCATACAAAATACTAATCCGAAACTATAAATAC
14130340 AAATTTAATTATAAAAT
64 AAATTTAATTATAAAAT
14130357 AATTACAATATTCATAAAAAATTACAATATTCATACAAAATACTAATCCGAAACTATAAATACAA
1 AATTACAATATTCATAAAAAATTACAATATTCATACAAAATACTAATCCGAAACTATAAATACAA
14130422 ATTTAATTATAAAAT
66 ATTTAATTATAAAAT
14130437 AATTACAATATTCATAAAAAATTACAATATTCATACAAAA
1 AATTACAATATTCATAAAAAATTACAATATTCATACAAAA
14130477 AAATAGAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
80 105 0.88
82 14 0.12
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (80 bp):
AATTACAATATTCATAAAAAATTACAATATTCATACAAAATACTAATCCGAAACTATAAATACAA
ATTTAATTATAAAAT
Found at i:14130557 original size:101 final size:96
Alignment explanation
Indices: 14130344--14130568 Score: 242
Period size: 101 Copynumber: 2.3 Consensus size: 96
14130334 AAATACAAAT
* * *
14130344 TTAATTATA-AAATAATTACAATATTCATAAAAAATTACAATATTCATACAAAATACTAATCCGA
1 TTAAATATACAAAAAATTACAATATTCATAAAAAAATACAATATTCATACAAAATACTAATCCGA
* *
14130408 AACTATAAATACAAATTTAATTATAAAATAA
66 AACTATAAACACAAATATAATTATAAAATAA
* * *
14130439 TTACAATATTCATAAAAAATTACAATATTCATACAAAAAAATAGAATATTCATACAAAATTCTAA
1 TTA-AATA-T-ACAAAAAATTACAATATTCAT--AAAAAAATACAATATTCATACAAAATACTAA
14130504 TCC-AAACTATAAACACTAAATAGATAATTTATAATTAATAA
61 TCCGAAACTATAAACAC-AAAT--ATAA-TTATAA--AATAA
14130545 TT-AATA-ACAAAAAATTCACAATAT
1 TTAAATATACAAAAAATT-ACAATAT
14130569 CTTCTAAAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
95 3 0.03
96 3 0.03
97 1 0.01
98 1 0.01
99 18 0.17
100 12 0.11
101 44 0.40
102 7 0.06
103 3 0.03
104 10 0.09
106 7 0.06
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.32
Consensus pattern (96 bp):
TTAAATATACAAAAAATTACAATATTCATAAAAAAATACAATATTCATACAAAATACTAATCCGA
AACTATAAACACAAATATAATTATAAAATAA
Found at i:14130581 original size:12 final size:12
Alignment explanation
Indices: 14130564--14130589 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14130554 AAAAATTCAC
14130564 AATATCTTCTAA
1 AATATCTTCTAA
14130576 AATATCTTCTAA
1 AATATCTTCTAA
14130588 AA
1 AA
14130590 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:14130673 original size:3 final size:3
Alignment explanation
Indices: 14130665--14130694 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14130655 TTTTCTTTCT
14130665 TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
14130695 CGTCTTCTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:14130683 original size:14 final size:14
Alignment explanation
Indices: 14130661--14130702 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
14130651 CCTTTTTTCT
14130661 TTCTT-TCTTCTTC
1 TTCTTCTCTTCTTC
14130674 TTCTTCTCTTCTTC
1 TTCTTCTCTTCTTC
*
14130688 TTCTTCTCGTCTTC
1 TTCTTCTCTTCTTC
14130702 T
1 T
14130703 CCTTTCTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (14 bp):
TTCTTCTCTTCTTC
Found at i:14130702 original size:17 final size:17
Alignment explanation
Indices: 14130661--14130694 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14130651 CCTTTTTTCT
14130661 TTCT-TTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
14130677 TTCTCTTCTTCTTCTTC
1 TTCTCTTCTTCTTCTTC
14130694 T
1 T
14130695 CGTCTTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
TTCTCTTCTTCTTCTTC
Found at i:14134531 original size:14 final size:15
Alignment explanation
Indices: 14134512--14134556 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
14134502 TTATCTTGAG
*
14134512 TTTAAATTTAGATT-
1 TTTAAATTTAAATTA
14134526 TTTAAATTTAAATTA
1 TTTAAATTTAAATTA
14134541 TTATAAATTTTAAATT
1 TT-TAAA-TTTAAATT
14134557 TTTTTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.48
15 2 0.07
16 4 0.15
17 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TTTAAATTTAAATTA
Found at i:14141711 original size:14 final size:14
Alignment explanation
Indices: 14141692--14141718 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14141682 CGCCCACACG
14141692 CCGCACTCGTCGCT
1 CCGCACTCGTCGCT
14141706 CCGCACTCGTCGC
1 CCGCACTCGTCGC
14141719 GCGCTTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.22, T:0.19
Consensus pattern (14 bp):
CCGCACTCGTCGCT
Found at i:14142893 original size:18 final size:19
Alignment explanation
Indices: 14142849--14142902 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 19
14142839 TTATATATAG
14142849 TTTATATATACATAT--A-
1 TTTATATATACATATACAT
* *
14142865 TATATATATACATTTACAT
1 TTTATATATACATATACAT
14142884 TTTATA-ATACATATACAT
1 TTTATATATACATATACAT
14142902 T
1 T
14142903 CTTCCATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 13 0.42
18 13 0.42
19 5 0.16
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTATATATACATATACAT
Found at i:14144078 original size:41 final size:41
Alignment explanation
Indices: 14144033--14144114 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
14144023 TTGAATAAGT
14144033 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
1 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
14144074 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
1 GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
14144115 AATTGAAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (41 bp):
GAAACTATGAAAAATATAAATTTTTATAGAAACAAGGACTA
Found at i:14144178 original size:43 final size:43
Alignment explanation
Indices: 14144130--14144215 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
14144120 AAAGACTTAA
14144130 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
1 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
*
14144173 AAATTATATGTGTTGGAAATAATATAAGTGAAATTATGACGTC
1 AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
14144216 CCAAACTCGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.34
Consensus pattern (43 bp):
AAATTATATGTGGTGGAAATAATATAAGTGAAATTATGACGTC
Found at i:14145681 original size:34 final size:34
Alignment explanation
Indices: 14145627--14145710 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
14145617 ACCCACTCAA
* * *
14145627 ATATATTATACATATAACACCCATGCACGTAAAT
1 ATATATTATATATATTACACCCATGCACGCAAAT
* * *
14145661 TTATATTATATATATTACACCCATGCATGCATAT
1 ATATATTATATATATTACACCCATGCACGCAAAT
14145695 ATATATTAT-TATATTA
1 ATATATTATATATATTA
14145711 ATAACACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
33 7 0.16
34 36 0.84
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.39
Consensus pattern (34 bp):
ATATATTATATATATTACACCCATGCACGCAAAT
Found at i:14147486 original size:56 final size:50
Alignment explanation
Indices: 14147417--14147585 Score: 194
Period size: 50 Copynumber: 3.3 Consensus size: 50
14147407 ATGAGATCCC
* *
14147417 ATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATGAGAGGTCCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCA
* * *
14147473 ATTTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGGGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCA
* * *
14147523 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGGGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCA
**
14147573 CCGTAAGACCATG
1 ATGTAAGACCATG
14147586 CATGGGCACC
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 67 0.66
53 3 0.03
55 1 0.01
56 31 0.30
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCA
Found at i:14151566 original size:22 final size:20
Alignment explanation
Indices: 14151521--14151560 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
14151511 CCATTTTTAT
14151521 TTTATATTTAAAATCAATGTA
1 TTTATATTTAAAA-CAATGTA
14151542 TTTATATTTTAAAA-AATGT
1 TTTATA-TTTAAAACAATGT
14151561 TAATTTGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATATTTAAAACAATGTA
Found at i:14154658 original size:36 final size:34
Alignment explanation
Indices: 14154570--14154647 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
14154560 ACCCAGTCAA
* *
14154570 ATATATTATACATATAACATCCATGCACCCAAAT
1 ATATATTATACATATAACACCCATGAACCCAAAT
* **
14154604 ATATATTATAGATATAACACCCATGAACGTAAAT
1 ATATATTATACATATAACACCCATGAACCCAAAT
14154638 ATATATTATA
1 ATATATTATA
14154648 TATAAATAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (34 bp):
ATATATTATACATATAACACCCATGAACCCAAAT
Found at i:14155932 original size:18 final size:17
Alignment explanation
Indices: 14155879--14155935 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
14155869 TAATGCCTTA
*
14155879 ATTATTAATACTA-TTAT
1 ATTATTATTA-TATTTAT
14155896 ATTA-TATTATATTTA-
1 ATTATTATTATATTTAT
*
14155911 ATTATTATTATTTTTACT
1 ATTATTATTATATTTA-T
14155929 ATTATTA
1 ATTATTA
14155936 ACTAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 6 0.18
16 17 0.50
17 4 0.12
18 7 0.21
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATTATTATATTTAT
Found at i:14156229 original size:19 final size:19
Alignment explanation
Indices: 14156201--14156240 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14156191 TATAATTTAC
* *
14156201 AAGAAAATATTGATAAATA
1 AAGAAAATATTAAAAAATA
*
14156220 AAGAATATATTAAAAAATA
1 AAGAAAATATTAAAAAATA
14156239 AA
1 AA
14156241 ATAATATATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (19 bp):
AAGAAAATATTAAAAAATA
Found at i:14157805 original size:18 final size:18
Alignment explanation
Indices: 14157782--14157816 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14157772 AGCCAAAATG
*
14157782 CATTTTTGGTATCGATAA
1 CATTTTCGGTATCGATAA
*
14157800 CATTTTCGGTATTGATA
1 CATTTTCGGTATCGATA
14157817 GGTAGCGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (18 bp):
CATTTTCGGTATCGATAA
Found at i:14159187 original size:31 final size:31
Alignment explanation
Indices: 14159152--14159213 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14159142 GTCAAAATAT
14159152 TAGGGTTTGATAGTGAATTTAACATTCATTA
1 TAGGGTTTGATAGTGAATTTAACATTCATTA
14159183 TAGGGTTTGATAGTGAATTTAACATTCATTA
1 TAGGGTTTGATAGTGAATTTAACATTCATTA
14159214 AGGACTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (31 bp):
TAGGGTTTGATAGTGAATTTAACATTCATTA
Found at i:14159893 original size:35 final size:35
Alignment explanation
Indices: 14159789--14159914 Score: 123
Period size: 35 Copynumber: 3.6 Consensus size: 35
14159779 AGTCTCTATT
* * * *
14159789 TTGGTATGTTTCGGTTGGATTAGCTCTTACAAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTTCGAGCA
* *
14159824 TTGGTGTGTTCCGGAGGGATTAGCT-TTTCCGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTT-CGAGCA
*
14159859 TTGGTGTGTTTCGGATGGATT-GACTCTTTGGAGCA
1 TTGGTGTGTTTCGGATGGATTAG-CTCTTTCGAGCA
* *
14159894 TCTAGTGTGTTT-GGTTGGATT
1 T-TGGTGTGTTTCGGATGGATT
14159915 TTCGATGCAC
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 61 0.80
36 12 0.16
ACGTcount: A:0.15, C:0.13, G:0.32, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTTCGAGCA
Found at i:14162058 original size:38 final size:35
Alignment explanation
Indices: 14162006--14162103 Score: 108
Period size: 38 Copynumber: 2.7 Consensus size: 35
14161996 CAAGAAGATT
* * *
14162006 GTCTATAGGTTCTACGGAGCGACACCATGAAAATG
1 GTCTATAGGCTCTACGGAGCGACACCATAAAAATA
* *
14162041 GTTATCTATAGGCTCTACGAAGCGACAGCATAAAAATA
1 G---TCTATAGGCTCTACGGAGCGACACCATAAAAATA
*
14162079 GTCTATAGGCTCTA-GGAGTGACACC
1 GTCTATAGGCTCTACGGAGCGACACC
14162104 TCGAAAGAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
34 8 0.15
35 14 0.27
38 30 0.58
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (35 bp):
GTCTATAGGCTCTACGGAGCGACACCATAAAAATA
Found at i:14162585 original size:28 final size:28
Alignment explanation
Indices: 14162548--14162604 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
14162538 AGTAAAAAGG
* *
14162548 AAGTCTGCCA-AAGATTGTCTTATGTGGA
1 AAGTCTGCCACAA-ACTATCTTATGTGGA
14162576 AAGTCTGCCACAAACTATCTTATGTGGA
1 AAGTCTGCCACAAACTATCTTATGTGGA
14162604 A
1 A
14162605 TGTTCATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (28 bp):
AAGTCTGCCACAAACTATCTTATGTGGA
Found at i:14170894 original size:41 final size:41
Alignment explanation
Indices: 14170841--14171102 Score: 418
Period size: 41 Copynumber: 6.4 Consensus size: 41
14170831 AGATTCACTA
*
14170841 GCACTTCA-CCTGCTAGGCTTATAGCCTGATTTAGTTCACCG
1 GCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* *
14170882 ACACTTAGCCTGCTGGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* *
14170923 GCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGTTCACCA
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
14170964 GCACTTAGCCTGCAAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
14171005 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
* * *
14171046 GCACTTAGCCTGTTAGGCTTATAGCCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
14171087 GCACTTAGCCTGCTAG
1 GCACTTAGCCTGCTAG
14171103 ACGTAAAGTC
Statistics
Matches: 205, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 1 0.00
41 204 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
Found at i:14171125 original size:123 final size:123
Alignment explanation
Indices: 14170873--14171128 Score: 361
Period size: 123 Copynumber: 2.1 Consensus size: 123
14170863 AGCCTGATTT
* * *
14170873 AGTTCACCGACACTTAGCCTGCTGGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTA
* * * * * **
14170938 GGCTTATAGCTTGATTCAGTTCACCAGCACTTAGCCTGCAAGGCTTATAGCCTGATTC
66 GGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCAAGACGTAAAGCCTGAAAC
*
14170996 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGTTA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTA
* * *
14171061 GGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGACGTAAAGTCC-GAAAC
66 GGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCAAGACGTAAAG-CCTGAAAC
*
14171119 ATTTCACCGG
1 AGTTCACCGG
14171129 TAATTAATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
123 115 0.98
124 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (123 bp):
AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTA
GGCTTATAGCCTGATTCAGATCACCAGCACTTAGCCTGCAAGACGTAAAGCCTGAAAC
Found at i:14181929 original size:16 final size:16
Alignment explanation
Indices: 14181908--14181941 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14181898 ATTATCAAAT
*
14181908 TCCAATCAAAATAGAA
1 TCCAATCAAAACAGAA
14181924 TCCAATCAAAACAGAA
1 TCCAATCAAAACAGAA
14181940 TC
1 TC
14181942 AAATACCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (16 bp):
TCCAATCAAAACAGAA
Found at i:14183354 original size:16 final size:16
Alignment explanation
Indices: 14183333--14183366 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
14183323 ATTATCAAAT
14183333 TCCAATCAAAACAGAA
1 TCCAATCAAAACAGAA
14183349 TCCAATCAAAACAGAA
1 TCCAATCAAAACAGAA
14183365 TC
1 TC
14183367 AAATACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.26, G:0.06, T:0.15
Consensus pattern (16 bp):
TCCAATCAAAACAGAA
Found at i:14185091 original size:272 final size:272
Alignment explanation
Indices: 14184600--14185152 Score: 1063
Period size: 272 Copynumber: 2.0 Consensus size: 272
14184590 TAAACACTTA
14184600 TATAA-TTAATTTGCTCATTTTCACTCCTATATTTTTGCAAATTCATTAAACAACCCCTATTTTT
1 TATAATTTAATTTGCTCATTTTCACTCCTATATTTTTGCAAATTCATTAAACAACCCCTATTTTT
*
14184664 CAATATTACAGAATTTAAAAAATATTCCCTAAAATTCTAGTTTTGCAGTTTTTATGATTTAGTCG
66 CAATATTACAGAATTTAAAAAATATTCCCGAAAATTCTAGTTTTGCAGTTTTTATGATTTAGTCG
14184729 TTGAAGTCCAAAATTTACACATTTTACAATTCAATCCCTAGGAATCATATTTTCTATATTTTTAT
131 TTGAAGTCCAAAATTTACACATTTTACAATTCAATCCCTAGGAATCATATTTTCTATATTTTTAT
*
14184794 TTTCAATTCAATCTTAAATCTCAATTTGCACAATTTGCAAAATAGTCTCTCTCTCTCTCTTCAAA
196 TTTCAATTCAATCTTAAATCTCAATTTGCACAATTTGCAAAATAGTCTCTCTCTCTCTCCTCAAA
14184859 ATCTTGAGATTT
261 ATCTTGAGATTT
*
14184871 TATAATTTAATTTGCTCATTTTCACTCTTATATTTTTGCAAATTCATTAAACAACCCCTATTTTT
1 TATAATTTAATTTGCTCATTTTCACTCCTATATTTTTGCAAATTCATTAAACAACCCCTATTTTT
14184936 CAATATTACAGAATTTAAAAAATATTCCCGAAAATTCTAGTTTTGCAGTTTTTATGATTTAGTCG
66 CAATATTACAGAATTTAAAAAATATTCCCGAAAATTCTAGTTTTGCAGTTTTTATGATTTAGTCG
14185001 TTGAAGTCCAAAATTTACACATTTTACAATTCAATCCCTAGGAATCATATTTTCTATATTTTTAT
131 TTGAAGTCCAAAATTTACACATTTTACAATTCAATCCCTAGGAATCATATTTTCTATATTTTTAT
*
14185066 TTTCAGTTCAATCTTAAATCTCAATTTGCACAATTTGCAAAATAGTCTCTCTCTCTCTCCTCAAA
196 TTTCAATTCAATCTTAAATCTCAATTTGCACAATTTGCAAAATAGTCTCTCTCTCTCTCCTCAAA
14185131 ATCTTGAGATTT
261 ATCTTGAGATTT
14185143 TATAATTTAA
1 TATAATTTAA
14185153 CCCCTACTAT
Statistics
Matches: 277, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
271 5 0.02
272 272 0.98
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (272 bp):
TATAATTTAATTTGCTCATTTTCACTCCTATATTTTTGCAAATTCATTAAACAACCCCTATTTTT
CAATATTACAGAATTTAAAAAATATTCCCGAAAATTCTAGTTTTGCAGTTTTTATGATTTAGTCG
TTGAAGTCCAAAATTTACACATTTTACAATTCAATCCCTAGGAATCATATTTTCTATATTTTTAT
TTTCAATTCAATCTTAAATCTCAATTTGCACAATTTGCAAAATAGTCTCTCTCTCTCTCCTCAAA
ATCTTGAGATTT
Found at i:14195118 original size:18 final size:19
Alignment explanation
Indices: 14195076--14195128 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
14195066 CTTGAAAAAT
*
14195076 GATATGCAATCTTAGATAG
1 GATATGCAATCTTAGATAA
14195095 GATATGCAATCTTA-ATAA
1 GATATGCAATCTTAGATAA
14195113 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
14195129 AGATAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:14196045 original size:24 final size:22
Alignment explanation
Indices: 14195988--14196163 Score: 79
Period size: 24 Copynumber: 7.6 Consensus size: 22
14195978 AGTGTATTGT
14195988 ATATTATTA-TTTTAGATTTATC
1 ATATTATTATTTTTA-ATTTATC
* *
14196010 ATGTTTTATATTTTGTAATTTATC
1 ATATTAT-TATTTT-TAATTTATC
* *
14196034 AATATTATTATTTTAAATTTATTT
1 -ATATTATTATTTTTAATTTA-TC
* ** *
14196058 TTAACATTATTTTAAATTTATC
1 ATATTATTATTTTTAATTTATC
* **
14196080 ATGTATATCTATTTCAAATTTAT-
1 ATAT-TAT-TATTTTTAATTTATC
* *
14196103 A-ATTAATATTTTTAAATTTATT
1 ATATTATTATTTTT-AATTTATC
**
14196125 ATATACTATTATTTTGGATTTATC
1 ATAT--TATTATTTTTAATTTATC
*
14196149 AAGTATGATTATTTT
1 -A-TATTATTATTTT
14196164 AGAATTATCA
Statistics
Matches: 116, Mismatches: 24, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
20 5 0.04
21 9 0.08
22 9 0.08
23 30 0.26
24 44 0.38
25 16 0.14
26 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATTATTATTTTTAATTTATC
Found at i:14196057 original size:11 final size:11
Alignment explanation
Indices: 14196041--14196078 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
14196031 ATCAATATTA
14196041 TTATTTTAAAT
1 TTATTTTAAAT
14196052 TTATTTTTAACA-
1 TTA-TTTTAA-AT
14196064 TTATTTTAAAT
1 TTATTTTAAAT
14196075 TTAT
1 TTAT
14196079 CATGTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 13 0.54
12 9 0.38
13 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:14196100 original size:70 final size:68
Alignment explanation
Indices: 14195993--14196124 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 68
14195983 ATTGTATATT
* * ** *
14195993 ATTATTTTAGATTTATCATGTTTTATATTTTGTAATTTATCAA-TATTATTATTTTAAATTTATT
1 ATTATTTTAAATTTATCATGTTATATATTTTCAAATTTAT-AATTAATA-T-TTTTAAATTTATT
14196057 TTTAAC
63 TTTAAC
*
14196063 ATTATTTTAAATTTATCATG-TATATCTATTTCAAATTTATAATTAATATTTTTAAATTTATT
1 ATTATTTTAAATTTATCATGTTATATAT-TTTCAAATTTATAATTAATATTTTTAAATTTATT
14196125 ATATACTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
68 13 0.24
69 8 0.15
70 33 0.61
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (68 bp):
ATTATTTTAAATTTATCATGTTATATATTTTCAAATTTATAATTAATATTTTTAAATTTATTTTT
AAC
Found at i:14196184 original size:69 final size:69
Alignment explanation
Indices: 14196044--14196216 Score: 169
Period size: 69 Copynumber: 2.5 Consensus size: 69
14196034 AATATTATTA
* * *
14196044 TTTTAAATTTATT-TTTAAC-ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATAATT
1 TTTTAAATTTATTATAT-ACTATTATTTTAAATTTATCAAGTATATCTATTTCAAATTTATAATA
14196107 AATAT
65 AATAT
** * *
14196112 TTTTAAATTTATTATATACTATTATTTTGGATTTATCAAGTATGAT-TATTTTAGAA-TTATCAT
1 TTTTAAATTTATTATATACTATTATTTTAAATTTATCAAGTAT-ATCTATTTCA-AATTTATAAT
14196175 CAAAT-T
64 -AAATAT
* * *
14196181 TTTTAAATTT-TATATGTATTATTATTTCAAATTTAT
1 TTTTAAATTTAT-TATATACTATTATTTTAAATTTAT
14196217 TATATATTAG
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
68 16 0.18
69 64 0.74
70 7 0.08
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (69 bp):
TTTTAAATTTATTATATACTATTATTTTAAATTTATCAAGTATATCTATTTCAAATTTATAATAA
ATAT
Found at i:14196240 original size:24 final size:23
Alignment explanation
Indices: 14196182--14196240 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 23
14196172 CATCAAATTT
14196182 TTTAAATT-TTATATGTATTATTA
1 TTTAAATTATTATA-GTATTATTA
14196205 TTTCAAATTTATTATA-TATTAGTTA
1 TTT-AAA-TTATTATAGTATTA-TTA
14196230 TTGTAAATTAT
1 TT-TAAATTAT
14196241 GCAATTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 3 0.10
24 12 0.39
25 10 0.32
26 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTAAATTATTATAGTATTATTA
Found at i:14196314 original size:23 final size:23
Alignment explanation
Indices: 14196278--14196331 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
14196268 TTTGTATTAA
*
14196278 ATTTTACATTCATATATATTATTT
1 ATTTTA-ACTCATATATATTATTT
* *
14196302 GTTTTAACTCATATATATTGTTT
1 ATTTTAACTCATATATATTATTT
14196325 ATTTTAA
1 ATTTTAA
14196332 AATTTTGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTTTAACTCATATATATTATTT
Found at i:14197830 original size:16 final size:16
Alignment explanation
Indices: 14197805--14197839 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14197795 TTATGTTTTG
*
14197805 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
14197821 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
14197837 TTT
1 TTT
14197840 CATCATAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:14198295 original size:19 final size:19
Alignment explanation
Indices: 14198271--14198319 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
14198261 AACGTTTTTT
*
14198271 TTTGCATT-AATTTCATTCA
1 TTTGCATTAAATTAC-TTCA
*
14198290 TTTGCACTAAATTACTTCA
1 TTTGCATTAAATTACTTCA
*
14198309 TATGCATTAAA
1 TTTGCATTAAA
14198320 ATCCATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTGCATTAAATTACTTCA
Found at i:14200441 original size:6 final size:6
Alignment explanation
Indices: 14200432--14200496 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
14200422 AATCAAAAAT
*
14200432 ATGAAA ATGAAA ATGAAA ATG--- ATGGAAA AAGAAA A-GAAA ATGAAA
1 ATGAAA ATGAAA ATGAAA ATGAAA AT-GAAA ATGAAA ATGAAA ATGAAA
* *
14200477 A--AAA AAGAAA AGGAAA ATGA
1 ATGAAA ATGAAA ATGAAA ATGA
14200497 GAGGCCAAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
3 2 0.04
4 5 0.10
5 5 0.10
6 36 0.73
7 1 0.02
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (6 bp):
ATGAAA
Found at i:14200450 original size:21 final size:23
Alignment explanation
Indices: 14200420--14200493 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 23
14200410 AAAAATCAAA
* *
14200420 AAAATCAAAAAT-AT-GAAAATG
1 AAAATGAAAAATGATGGAAAAAG
14200441 AAAATG-AAAATGATGGAAAAAG
1 AAAATGAAAAATGATGGAAAAAG
***
14200463 AAAA-G-AAAATGAAAAAAAAAG
1 AAAATGAAAAATGATGGAAAAAG
*
14200484 AAAAGGAAAA
1 AAAATGAAAA
14200494 TGAGAGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.11
21 25 0.57
22 11 0.25
23 3 0.07
ACGTcount: A:0.72, C:0.01, G:0.16, T:0.11
Consensus pattern (23 bp):
AAAATGAAAAATGATGGAAAAAG
Found at i:14200477 original size:16 final size:16
Alignment explanation
Indices: 14200455--14200493 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
14200445 TGAAAATGAT
14200455 GGAAAAAGAAAAGAAAA
1 GGAAAAA-AAAAGAAAA
*
14200472 TGAAAAAAAAAGAAAA
1 GGAAAAAAAAAGAAAA
14200488 GGAAAA
1 GGAAAA
14200494 TGAGAGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
GGAAAAAAAAAGAAAA
Found at i:14202016 original size:12 final size:12
Alignment explanation
Indices: 14201999--14202023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14201989 AAATTGAGAC
14201999 TATCCCTTCAGA
1 TATCCCTTCAGA
14202011 TATCCCTTCAGA
1 TATCCCTTCAGA
14202023 T
1 T
14202024 TTTGTTGTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCCCTTCAGA
Found at i:14202916 original size:46 final size:46
Alignment explanation
Indices: 14202849--14203081 Score: 268
Period size: 46 Copynumber: 5.0 Consensus size: 46
14202839 GAATAAATTG
* *
14202849 AAGCTGTGGGTAGCGAATCTCATTTCCATGGCGTCGTAGTAGATTA
1 AAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAGTAGATTA
*
14202895 AAGCTGAGGGCAGCGAGTCTCATTTCCATGGCGTCGTAGTAGATTA
1 AAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAGTAGATTA
*
14202941 AAGCTGAGGGCAGCGAATCTCATTTCCATGACGTCGTAGTAGATTA
1 AAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAGTAGATTA
** * * * * * *
14202987 AAGCTGAGGGTTGTGAATCTCATTTCCTTGGCATTGCAGTGGAATAAATTG
1 AAGCTGAGGGCAGCGAATCTCATTTCCATGGC-GT-C-GT--AGTAGATTA
* * * * *
14203038 AAGCTGAGGGCAGCAAATTTTATTTCCCTGGCGTCATAGTAGAT
1 AAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAGTAGAT
14203082 AGCAGTGAAT
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
46 119 0.76
47 1 0.01
48 2 0.01
49 3 0.02
50 1 0.01
51 31 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (46 bp):
AAGCTGAGGGCAGCGAATCTCATTTCCATGGCGTCGTAGTAGATTA
Found at i:14203357 original size:21 final size:21
Alignment explanation
Indices: 14203331--14203373 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14203321 CTAGTGTTGC
*
14203331 AGTGGAATGGGTTAAAGCTGA
1 AGTGGAATGGATTAAAGCTGA
*
14203352 AGTGGAGTGGATTAAAGCTGA
1 AGTGGAATGGATTAAAGCTGA
14203373 A
1 A
14203374 TACAGCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.37, T:0.23
Consensus pattern (21 bp):
AGTGGAATGGATTAAAGCTGA
Found at i:14203449 original size:51 final size:51
Alignment explanation
Indices: 14203361--14203493 Score: 135
Period size: 51 Copynumber: 2.6 Consensus size: 51
14203351 AAGTGGAGTG
** * * *
14203361 GATTAAAGCTGAATACAGCAAATCCTATCTCCTTGGCGTTGCAATG-A-AACA
1 GATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTG-AA-GCAGAACA
* * *
14203412 GATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTGTAGCAGAGCA
1 GATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTGAAGCAGAACA
* * *
14203463 GATTAAAGTTGAAGGCAACGAATCTCATCTC
1 GATTAAAGCTGAAGGCAGCGAATCTTATCTC
14203494 ATTGATATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 2 0.03
51 65 0.96
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (51 bp):
GATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCGTTGAAGCAGAACA
Found at i:14203827 original size:19 final size:19
Alignment explanation
Indices: 14203803--14203858 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
14203793 TACTTGAAAA
14203803 AGGATATGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
14203822 AGGATATGCAATCTTAGAT
1 AGGATATGCAATCTTAGAT
*
14203841 AAGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
14203859 AGATAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (19 bp):
AGGATATGCAATCTTAGAT
Found at i:14203884 original size:22 final size:22
Alignment explanation
Indices: 14203805--14203881 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
14203795 CTTGAAAAAG
*
14203805 GATATGCAATCTT---AGATAG
1 GATATGCAATCTTAGAAGATAA
14203824 GATATGCAATCTT---AGATAA
1 GATATGCAATCTTAGAAGATAA
14203843 GATATGCAATCTTAGAAGATAA
1 GATATGCAATCTTAGAAGATAA
* *
14203865 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
14203882 GATTTAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 31 0.61
22 8 0.16
23 12 0.24
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAA
Found at i:14204746 original size:24 final size:24
Alignment explanation
Indices: 14204715--14204964 Score: 157
Period size: 24 Copynumber: 10.7 Consensus size: 24
14204705 GTGTATTGTA
*
14204715 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
14204739 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
14204762 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
14204784 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
14204809 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
14204832 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
14204854 TACTATTATTTTGGATTTATCAAG
1 TATTATTATTTTAAATTTATCATG
*
14204878 TATGATTATTTTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
14204901 CA-AATT-TTTTAAATTTTAT-ATA
1 TATTATTATTTTAAA-TTTATCATG
* * *
14204923 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
14204947 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
14204965 ATCCAATTCA
Statistics
Matches: 176, Mismatches: 31, Indels: 37
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.01
21 20 0.11
22 14 0.08
23 47 0.27
24 79 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:14204888 original size:69 final size:69
Alignment explanation
Indices: 14204674--14204954 Score: 222
Period size: 69 Copynumber: 4.1 Consensus size: 69
14204664 TGTTTATACT
* * * * * * *
14204674 TATTA-TT-AAATTAATCATTAATATTATCTAAGTGTATTGTATATTATTATTTTAGATTTATCA
1 TATTATTTCAAATTTATCATTAATATTTTTTAAATTTATTATATACTATTATTTTAGATTTATCA
*
14204737 TGTTT
66 TG-TA
** * * * * *
14204742 TATTATTTGTAATTTATCAATATTATTATTTTAAATTCATTGT-TAAC-ATTATTTTAAATTTAT
1 TATTATTTCAAATTTATCATTAATATT-TTTTAAATTTATTATAT-ACTATTATTTTAGATTTAT
14204805 CATGTA
64 CATGTA
*
14204811 TATCTATTTCAAATTTATCATTAATA-TTTTTAAATTTATTATATACTATTATTTTGGATTTATC
1 TAT-TATTTCAAATTTATCATTAATATTTTTTAAATTTATTATATACTATTATTTTAGATTTATC
*
14204875 AAGTA
65 ATGTA
* * * * *
14204880 TGATTATTTTAGAA-TTATCATCAA-ATTTTTTAAATTT-TATATATATTATTATTTCAAATTTA
1 T-ATTATTTCA-AATTTATCATTAATATTTTTTAAATTTAT-TATATACTATTATTTTAGATTTA
*
14204942 T--TATA
63 TCATGTA
14204947 TATTATTT
1 TATTATTT
14204955 ATTGTAAATT
Statistics
Matches: 173, Mismatches: 29, Indels: 24
0.77 0.13 0.11
Matches are distributed among these distances:
66 7 0.04
67 3 0.02
68 22 0.13
69 74 0.43
70 56 0.32
71 11 0.06
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (69 bp):
TATTATTTCAAATTTATCATTAATATTTTTTAAATTTATTATATACTATTATTTTAGATTTATCA
TGTA
Found at i:14205040 original size:23 final size:23
Alignment explanation
Indices: 14205013--14205057 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14205003 AATTGTACAT
*
14205013 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
14205036 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
14205058 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:14218774 original size:17 final size:17
Alignment explanation
Indices: 14218752--14218794 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
14218742 AAATAGGTCA
14218752 TGTGGGCCCAATGGGCT
1 TGTGGGCCCAATGGGCT
14218769 TGTGGGCCCAATGGGCT
1 TGTGGGCCCAATGGGCT
14218786 TGTGGGCCC
1 TGTGGGCCC
14218795 CACACGGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.26, G:0.42, T:0.23
Consensus pattern (17 bp):
TGTGGGCCCAATGGGCT
Found at i:14226972 original size:29 final size:29
Alignment explanation
Indices: 14226939--14227001 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
14226929 ATTGTTTCAC
* * *
14226939 AAGTAGAAAGCATAGTTTAATGTTAGCCT
1 AAGTAGAAAGCATAGTTCAATGTCAGACT
14226968 AAGTAGAAAGCATAGTTCAATGTCAGACT
1 AAGTAGAAAGCATAGTTCAATGTCAGACT
14226997 AAGTA
1 AAGTA
14227002 TCACAGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (29 bp):
AAGTAGAAAGCATAGTTCAATGTCAGACT
Found at i:14232696 original size:20 final size:20
Alignment explanation
Indices: 14232658--14232696 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14232648 CCTTACAGTT
*
14232658 TGAAAAACTTTAACTTTTTC
1 TGAAAAACTTTAAATTTTTC
14232678 TGAAAAA-TTTAAATGTTTT
1 TGAAAAACTTTAAAT-TTTT
14232697 TGATTTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (20 bp):
TGAAAAACTTTAAATTTTTC
Found at i:14236838 original size:26 final size:26
Alignment explanation
Indices: 14236773--14236909 Score: 151
Period size: 26 Copynumber: 5.4 Consensus size: 26
14236763 CGAGAACACA
*
14236773 ATGAATTTTTT--TTGCATCTCACTC
1 ATGAATTTTTTCAATGCATCTCACTC
14236797 ATGAA-TTTTTCAATGCATCTCACTC
1 ATGAATTTTTTCAATGCATCTCACTC
14236822 ATGAATTTTTTCAATGCATCTCACTC
1 ATGAATTTTTTCAATGCATCTCACTC
* * * *
14236848 ATGAATTTTTTTTCAAT--TTTTCAATT
1 ATGAA--TTTTTTCAATGCATCTCACTC
* *
14236874 TTCAA-TTTTTCAATGCATCTCACTC
1 ATGAATTTTTTCAATGCATCTCACTC
14236899 ATGAATTTTTT
1 ATGAATTTTTT
14236910 TGCTGTCTCA
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
23 14 0.15
24 5 0.05
25 25 0.27
26 38 0.41
28 10 0.11
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (26 bp):
ATGAATTTTTTCAATGCATCTCACTC
Found at i:14236847 original size:51 final size:49
Alignment explanation
Indices: 14236773--14236908 Score: 143
Period size: 51 Copynumber: 2.7 Consensus size: 49
14236763 CGAGAACACA
* *
14236773 ATGAATTTTTT--TTGCATCTCACTCATGAATTTTTCAATGCATCTCACTC
1 ATGAATTTTTTCAATGCATCTCACTCATGAATTTTTCAAT--ATCTCAATC
* * *
14236822 ATGAATTTTTTCAATGCATCTCACTCATGAATTTTTTTTCAATTTTTCAATT
1 ATGAATTTTTTCAATGCATCTCACTCATGAA---TTTTTCAATATCTCAATC
* *
14236874 TTCAA-TTTTTCAATGCATCTCACTCATGAATTTTT
1 ATGAATTTTTTCAATGCATCTCACTCATGAATTTTT
14236909 TTGCTGTCTC
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
48 5 0.07
49 11 0.15
51 42 0.56
52 8 0.11
54 9 0.12
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (49 bp):
ATGAATTTTTTCAATGCATCTCACTCATGAATTTTTCAATATCTCAATC
Done.