Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 84 of 150
Found at i:26105146 original size:17 final size:18
Alignment explanation
Indices: 26105124--26105164 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
26105114 AAAAAGAAAA
26105124 AGAAAAGAAAGAAAA-TTG
1 AGAAAA-AAAGAAAAGTTG
*
26105142 A-AAAAAAGGAAAAGTTG
1 AGAAAAAAAGAAAAGTTG
26105159 AGAAAA
1 AGAAAA
26105165 TTGAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (18 bp):
AGAAAAAAAGAAAAGTTG
Found at i:26105148 original size:30 final size:30
Alignment explanation
Indices: 26105082--26105155 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
26105072 AAGAGACTGT
*
26105082 AAAAAAGGAAAAAGAACAAGAAAAAAAGAG
1 AAAAAAAGAAAAAGAACAAGAAAAAAAGAG
* **
26105112 AGAAAAAGAAAAAGAA-AAGAAAGAAAATTG
1 AAAAAAAGAAAAAGAACAAGAAA-AAAAGAG
*
26105142 AAAAAAAGGAAAAG
1 AAAAAAAGAAAAAG
26105156 TTGAGAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (30 bp):
AAAAAAAGAAAAAGAACAAGAAAAAAAGAG
Found at i:26110927 original size:51 final size:50
Alignment explanation
Indices: 26110808--26110990 Score: 172
Period size: 51 Copynumber: 3.6 Consensus size: 50
26110798 AGTTGCTAGG
* * *
26110808 TCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * * * *
26110858 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTA-CTGAATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGA
* * * * * *
26110909 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGCATC-GGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATG-ATA-GA
*
26110960 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
26110991 TGTGAACCGG
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
49 5 0.05
50 34 0.31
51 68 0.63
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:26113743 original size:17 final size:18
Alignment explanation
Indices: 26113717--26113755 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26113707 TCTTAGTTGA
* *
26113717 TTTTTGAGATTTTATT-T
1 TTTTTCAGATTTGATTAT
26113734 TTTTTCAGATTTGATTAT
1 TTTTTCAGATTTGATTAT
26113752 TTTT
1 TTTT
26113756 ATTCTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTTTCAGATTTGATTAT
Found at i:26116489 original size:14 final size:13
Alignment explanation
Indices: 26116470--26116505 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
26116460 ACGAGTTTGT
26116470 AAAAAAAATTCAA
1 AAAAAAAATTCAA
**
26116483 AAAAAAAATTCCG
1 AAAAAAAATTCAA
26116496 AAAAAAAATT
1 AAAAAAAATT
26116506 TATTTTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:26134121 original size:26 final size:27
Alignment explanation
Indices: 26134075--26134126 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
26134065 AGTATCAAAT
*
26134075 TCTCTTAGAGTTTTCTCCAAA-AGTTC
1 TCTCTTAGAGTTTTCTACAAATAGTTC
*
26134101 TCTCTT-GAGTTTCTTTACAAATAGTT
1 TCTCTTAGAGTTT-TCTACAAATAGTT
26134127 TTAACAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 12 0.55
27 4 0.18
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (27 bp):
TCTCTTAGAGTTTTCTACAAATAGTTC
Found at i:26148176 original size:22 final size:22
Alignment explanation
Indices: 26148148--26148190 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26148138 AATAGGGCTA
26148148 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
26148170 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
26148191 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:26149318 original size:52 final size:50
Alignment explanation
Indices: 26149211--26149372 Score: 152
Period size: 50 Copynumber: 3.2 Consensus size: 50
26149201 ATGATGCTTA
* * *
26149211 AATGCATGATTTAA-TTA-AGATGCAAAC-TAAATGAACA-AATGAGTTACTT
1 AATGCATGACTTAATTTATA-ATGCAAACTTAACT-AACATAA-GAGTTACAT
* * **
26149260 ATTGCATGACTTAATTTAATAATGCAGACTTAAACTAACATGGGAGTTACAT
1 AATGCATGACTTAATTT-ATAATGCAAACTT-AACTAACATAAGAGTTACAT
* * * *
26149312 AATGCATGTCATAATTTATGATTCAAACTTAACTAACATAAGAGTTACAT
1 AATGCATGACTTAATTTATAATGCAAACTTAACTAACATAAGAGTTACAT
26149362 AATGCATGACT
1 AATGCATGACT
26149373 ATATTAAATG
Statistics
Matches: 90, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
49 12 0.13
50 29 0.32
51 18 0.20
52 28 0.31
53 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (50 bp):
AATGCATGACTTAATTTATAATGCAAACTTAACTAACATAAGAGTTACAT
Found at i:26149361 original size:50 final size:52
Alignment explanation
Indices: 26149230--26149371 Score: 150
Period size: 52 Copynumber: 2.8 Consensus size: 52
26149220 TTTAATTAAG
* * *
26149230 ATGCAAAC-TAAA-TGAACA-AATGAGTTACTTATTGCATGACTTAATTTAATA
1 ATGCAAACTTAAACT-AACATAA-GAGTTACATAATGCATGACATAATTTAATA
* ** * *
26149281 ATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGTCATAATTT-ATG
1 ATGCAAACTTAAACTAACATAAGAGTTACATAATGCATGACATAATTTAATA
*
26149332 ATTCAAACTT-AACTAACATAAGAGTTACATAATGCATGAC
1 ATGCAAACTTAAACTAACATAAGAGTTACATAATGCATGAC
26149372 TATATTAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
50 27 0.36
51 17 0.23
52 30 0.40
53 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (52 bp):
ATGCAAACTTAAACTAACATAAGAGTTACATAATGCATGACATAATTTAATA
Found at i:26161142 original size:21 final size:21
Alignment explanation
Indices: 26161077--26161148 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
26161067 AAAACAAGTG
*
26161077 AGGAAAAAGAAAAAGAAGAGAA
1 AGGAAAATGAAAAAGAAGA-AA
*
26161099 A-AATACAAGTGAAAAAGAAGAAA
1 AGGA-A-AA-TGAAAAAGAAGAAA
* **
26161122 ATGAAAATGAAAAAGGTGAAA
1 AGGAAAATGAAAAAGAAGAAA
26161143 AGGAAA
1 AGGAAA
26161149 GCGAGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.68, C:0.01, G:0.24, T:0.07
Consensus pattern (21 bp):
AGGAAAATGAAAAAGAAGAAA
Found at i:26161247 original size:36 final size:33
Alignment explanation
Indices: 26161182--26161248 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
26161172 GTGAATGAAG
*
26161182 TGAGTGAACAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
* *
26161215 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAACAAG-AGAGAGAGCT-AAA-ACAAGG
26161249 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
Found at i:26165134 original size:117 final size:117
Alignment explanation
Indices: 26164928--26165153 Score: 407
Period size: 117 Copynumber: 1.9 Consensus size: 117
26164918 AGATGCGTAC
* *
26164928 TGTAACACCCCTTACCCGTATCCGTCGCCGGAATAGGATACGAGGTCTTACCAGATTTTACTAAT
1 TGTAACACCCCTTACCCGTATCCGTCGCCGGAATAGGATACAAGGTATTACCAGATTTTACTAAT
*
26164993 TTTTTTTCCAACTCAATATAACCCCTTTATAAATATCTAATCCTTCAACAAA
66 TTTTTTTACAACTCAATATAACCCCTTTATAAATATCTAATCCTTCAACAAA
* *
26165045 TGTAACACCCCTTACCCGTATCCGTCGCTGGAATAGGATACAAGGTATTACCAGATTTTACTGAT
1 TGTAACACCCCTTACCCGTATCCGTCGCCGGAATAGGATACAAGGTATTACCAGATTTTACTAAT
26165110 TTTTTTTACAACTCAATATAACCCCTTTATAAATATCTAATCCT
66 TTTTTTTACAACTCAATATAACCCCTTTATAAATATCTAATCCT
26165154 CCCTGCAAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (117 bp):
TGTAACACCCCTTACCCGTATCCGTCGCCGGAATAGGATACAAGGTATTACCAGATTTTACTAAT
TTTTTTTACAACTCAATATAACCCCTTTATAAATATCTAATCCTTCAACAAA
Found at i:26166723 original size:15 final size:17
Alignment explanation
Indices: 26166703--26166736 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
26166693 TCATTAAGTA
26166703 TTATAAC-CAT-ATAAT
1 TTATAACTCATAATAAT
26166718 TTATAACTCATAATAAT
1 TTATAACTCATAATAAT
26166735 TT
1 TT
26166737 TTGTACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATAACTCATAATAAT
Found at i:26168761 original size:34 final size:34
Alignment explanation
Indices: 26168718--26168785 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26168708 TCTCCCAATT
26168718 ACCTTCAAACTCTAATATACAACATCGGAGCATA
1 ACCTTCAAACTCTAATATACAACATCGGAGCATA
26168752 ACCTTCAAACTCTAATATACAACATCGGAGCATA
1 ACCTTCAAACTCTAATATACAACATCGGAGCATA
26168786 TCTTCCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (34 bp):
ACCTTCAAACTCTAATATACAACATCGGAGCATA
Found at i:26183718 original size:24 final size:26
Alignment explanation
Indices: 26183691--26183744 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
26183681 TTTCAGATTT
*
26183691 GTTTAAGTCC-AGAATTCTC-CTTGA
1 GTTTAACTCCAAGAATTCTCTCTTGA
**
26183715 GTTTTTCTCCAAGAATTCTCTCTTGA
1 GTTTAACTCCAAGAATTCTCTCTTGA
26183741 GTTT
1 GTTT
26183745 TCTTTAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 9 0.36
26 9 0.36
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.44
Consensus pattern (26 bp):
GTTTAACTCCAAGAATTCTCTCTTGA
Found at i:26185733 original size:13 final size:12
Alignment explanation
Indices: 26185707--26185739 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
26185697 AAATTGTAGT
26185707 TTCGAAAAAAAA
1 TTCGAAAAAAAA
26185719 TTCGAAAATAAAA
1 TTCGAAAA-AAAA
26185732 TT-GAAAAA
1 TTCGAAAAA
26185740 GAAAATTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 13 0.65
13 6 0.30
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (12 bp):
TTCGAAAAAAAA
Found at i:26206850 original size:27 final size:27
Alignment explanation
Indices: 26206799--26206850 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26206789 CTCATCTTAG
** *
26206799 TTTAATTAATAAGTATTTTTTTTAAAC
1 TTTAATTAATAAGTATTGCTCTTAAAC
*
26206826 TTTAATTAATAAGTGTTGCTCTTAA
1 TTTAATTAATAAGTATTGCTCTTAA
26206851 TTAATCTAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (27 bp):
TTTAATTAATAAGTATTGCTCTTAAAC
Found at i:26209011 original size:274 final size:274
Alignment explanation
Indices: 26208522--26209047 Score: 989
Period size: 274 Copynumber: 1.9 Consensus size: 274
26208512 NNNNNNNNNN
26208522 GTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTTGGAGGGGAGATTAGAGTCGATT
1 GTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTTGGAGGGGAGATTAGAGTCGATT
*
26208587 GAAGGGAATTGTGAAATCTTTTAGGATTTCAAGGCTTCTTAGGACTTTTAATTTATTTTCTTCCT
66 GAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGGACTTTTAATTTATTTTCTTCCT
* *
26208652 GATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTATTGATTTAATTGCTCTTCTTGTT
131 GATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTATTAATTTAATTACTCTTCTTGTT
*
26208717 TTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTCTCCTCTTATTGGCAGCTTGTTTTA
196 TTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTATCCTCTTATTGGCAGCTTGTTTTA
26208782 ACAATCTTTTGATT
261 ACAATCTTTTGATT
26208796 GTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTTGGAGGGGAGATTAGAGTCGATT
1 GTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTTGGAGGGGAGATTAGAGTCGATT
* * *
26208861 GAAGGGAATTGTGAAATCTTTCGGGATTTCAAGGCTTCTTAGGACTTTTAATTTGTTTTCTTGCT
66 GAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGGACTTTTAATTTATTTTCTTCCT
26208926 GATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTATTAATTTAATTACTCTTCTTGTT
131 GATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTATTAATTTAATTACTCTTCTTGTT
26208991 TTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTATCCTCTTATTGGCAGC
196 TTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTATCCTCTTATTGGCAGC
26209048 ACATAGTCGG
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
274 245 1.00
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (274 bp):
GTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTTGGAGGGGAGATTAGAGTCGATT
GAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGGACTTTTAATTTATTTTCTTCCT
GATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTATTAATTTAATTACTCTTCTTGTT
TTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTATCCTCTTATTGGCAGCTTGTTTTA
ACAATCTTTTGATT
Found at i:26213195 original size:12 final size:12
Alignment explanation
Indices: 26213178--26213213 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
26213168 GGTGAAGTGC
26213178 AAAAAAAA-TCA
1 AAAAAAAATTCA
*
26213189 AAAAAAAATTCG
1 AAAAAAAATTCA
26213201 AAAAAAAATTCA
1 AAAAAAAATTCA
26213213 A
1 A
26213214 GTTGTATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:26214588 original size:17 final size:18
Alignment explanation
Indices: 26214561--26214596 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
26214551 AGGCAGCAAT
26214561 AGAAGAAAAACATGGAGA
1 AGAAGAAAAACATGGAGA
*
26214579 AGAA-AAAAACATTGAGA
1 AGAAGAAAAACATGGAGA
26214596 A
1 A
26214597 AATGAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (18 bp):
AGAAGAAAAACATGGAGA
Found at i:26223590 original size:12 final size:12
Alignment explanation
Indices: 26223575--26223617 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
26223565 TTCACTCGTT
* *
26223575 TCTTTTGCAAAC
1 TCTTTTTCAATC
*
26223587 TCTTTTTCAATT
1 TCTTTTTCAATC
26223599 TCTTTTTCAATC
1 TCTTTTTCAATC
26223611 TCTTTTT
1 TCTTTTT
26223618 GCTTTTCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.16, C:0.21, G:0.02, T:0.60
Consensus pattern (12 bp):
TCTTTTTCAATC
Found at i:26223641 original size:18 final size:18
Alignment explanation
Indices: 26223601--26223640 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
26223591 TTTCAATTTC
26223601 TTTTTCAATCTCTTTTTG
1 TTTTTCAATCTCTTTTTG
* *
26223619 CTTTTCACTCTC-TTTTG
1 TTTTTCAATCTCTTTTTG
26223636 TTTTT
1 TTTTT
26223641 TAAATCTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTTCAATCTCTTTTTG
Found at i:26223702 original size:12 final size:12
Alignment explanation
Indices: 26223660--26223701 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
26223650 TTTTCATCTT
26223660 TTTCTTTTTC-A
1 TTTCTTTTTCAA
26223671 TTTC--TTTCAA
1 TTTCTTTTTCAA
26223681 TTTCTTTTTCAA
1 TTTCTTTTTCAA
26223693 TGTTCTTTT
1 T-TTCTTTT
26223702 CTCGCTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 4 0.15
12 7 0.26
13 7 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:26229999 original size:14 final size:14
Alignment explanation
Indices: 26229980--26230019 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
26229970 TTGTTTGGCA
26229980 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
26229994 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
26230008 GGAAAATGTTTT
1 GTAAAATGTTTT
26230020 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:26232506 original size:23 final size:23
Alignment explanation
Indices: 26232463--26232508 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26232453 GCACATACTC
*
26232463 CAAACAAAAAGAGTTAAAAAAAT
1 CAAACAAAAAGAGTAAAAAAAAT
* *
26232486 CAAACAAATAGAGAAACAAAAAA
1 CAAACAAAAAGAGTAA-AAAAAA
26232509 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.72, C:0.11, G:0.09, T:0.09
Consensus pattern (23 bp):
CAAACAAAAAGAGTAAAAAAAAT
Found at i:26233941 original size:274 final size:274
Alignment explanation
Indices: 26233452--26233999 Score: 1015
Period size: 274 Copynumber: 2.0 Consensus size: 274
26233442 TCTTTAGAAG
* *
26233452 TTGTTTTAGCAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATATTCTTT
1 TTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATAATCTTT
* *
26233517 GGAGGGGAGATTAGAGTCGATTGAAGGGAATTGTGAAATCTTTTAGGATTTCAAGGCTTCTTAGG
66 GGAGGGGAGATTAGAGCCGATTGAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGG
*
26233582 ACTTTTAATTTATTTTCTTCCTGATCAATTTTCTTTTAGTTTCTGTTTGTGCCGATTATCGTTAT
131 ACTTTTAATTTATTTTCTTCCTGATCAATTTTCTTTTAATTTCTGTTTGTGCCGATTATCGTTAT
26233647 TGATTTAATTGCTCTTCTTGTTTTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTCTC
196 TGATTTAATTGCTCTTCTTGTTTTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTCTC
26233712 CTCTTATTGGCAGC
261 CTCTTATTGGCAGC
26233726 TTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATAATCTTT
1 TTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATAATCTTT
*
26233791 GGAGGGGAGATTAGAGCCGATTGAAGGGAATTGTGAAATCTTTCGGGATTTCAAGGCTTCTTAGG
66 GGAGGGGAGATTAGAGCCGATTGAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGG
* *
26233856 ACTTTTAATTTGTTTTCTTGCTGATCAATTTTCTTTTAATTTCTGTTTGTGCCGATTATCGTTAT
131 ACTTTTAATTTATTTTCTTCCTGATCAATTTTCTTTTAATTTCTGTTTGTGCCGATTATCGTTAT
*
26233921 TGATTTAATTGCTCTTCTTGTTTTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGGTCAATTCTC
196 TGATTTAATTGCTCTTCTTGTTTTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTCTC
26233986 CTCTTATTGGCAGC
261 CTCTTATTGGCAGC
26234000 ACATAGTCGG
Statistics
Matches: 265, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
274 265 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.45
Consensus pattern (274 bp):
TTGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCATTGATAATCTTT
GGAGGGGAGATTAGAGCCGATTGAAGGGAATTGTGAAATCTTTCAGGATTTCAAGGCTTCTTAGG
ACTTTTAATTTATTTTCTTCCTGATCAATTTTCTTTTAATTTCTGTTTGTGCCGATTATCGTTAT
TGATTTAATTGCTCTTCTTGTTTTGTTTTCAGCCTCTTTCAATCTTAAAGATTCGATCAATTCTC
CTCTTATTGGCAGC
Found at i:26239070 original size:23 final size:23
Alignment explanation
Indices: 26238984--26239057 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
26238974 TTTTGAATCT
26238984 TTACCATTTCGTACCAAATCACA
1 TTACCATTTCGTACCAAATCACA
**
26239007 TTACCATTTCGTACCAAATCGTA
1 TTACCATTTCGTACCAAATCACA
*
26239030 ATACCATTTCGTACCAAATCACA
1 TTACCATTTCGTACCAAATCACA
26239053 TTACC
1 TTACC
26239058 CTTTTGTAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.31
Consensus pattern (23 bp):
TTACCATTTCGTACCAAATCACA
Found at i:26241555 original size:13 final size:14
Alignment explanation
Indices: 26241528--26241587 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
26241518 GAAAATTCGG
26241528 AAAAAGAGAATGAAA
1 AAAAAGAG-ATGAAA
*
26241543 AAAAAGTGA-GAAA
1 AAAAAGAGATGAAA
*
26241556 AACAAGAGATGAAA
1 AAAAAGAGATGAAA
*
26241570 AAGAAAAAGAGTGAAA
1 AA-AAAGAGA-TGAAA
26241586 AA
1 AA
26241588 TTGAGTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
13 11 0.30
14 7 0.19
15 12 0.32
16 7 0.19
ACGTcount: A:0.70, C:0.02, G:0.22, T:0.07
Consensus pattern (14 bp):
AAAAAGAGATGAAA
Found at i:26245797 original size:23 final size:23
Alignment explanation
Indices: 26245711--26245784 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
26245701 TTTTAAATCT
*
26245711 TTACCATTTTGTACCAAATCACA
1 TTACCATTTCGTACCAAATCACA
**
26245734 TTACCATTTCGTACCAAATCGTA
1 TTACCATTTCGTACCAAATCACA
*
26245757 ATACCATTTCGTACCAAATCACA
1 TTACCATTTCGTACCAAATCACA
26245780 TTACC
1 TTACC
26245785 CTTTTGTAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.32
Consensus pattern (23 bp):
TTACCATTTCGTACCAAATCACA
Found at i:26247080 original size:62 final size:62
Alignment explanation
Indices: 26246980--26247104 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
26246970 CGTCTAGGGC
* * * * * *
26246980 CTTTCATAGGAGTTTCTCATGTCTTGGCAACTCGATCTTGGTCCGTGCGCAACCCCCTATCA
1 CTTTCATAGGAGTTTCCCATGACTTGACAACTCAATCTTGGTCCGCGCACAACCCCCTATCA
* * *
26247042 CTTTCGTAGGAGTTTCCCGTGACTTGACAACTCAATCTTGGTCCGCGCACAACCCTCTATCA
1 CTTTCATAGGAGTTTCCCATGACTTGACAACTCAATCTTGGTCCGCGCACAACCCCCTATCA
26247104 C
1 C
26247105 CTTGGGTAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.30
Consensus pattern (62 bp):
CTTTCATAGGAGTTTCCCATGACTTGACAACTCAATCTTGGTCCGCGCACAACCCCCTATCA
Found at i:26250436 original size:18 final size:20
Alignment explanation
Indices: 26250415--26250464 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
26250405 AAAGAATCAC
26250415 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
26250433 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
26250453 AGAAAAAAGAGA
1 AG-AAAAAGAGA
26250465 TTGAGAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:26253793 original size:24 final size:25
Alignment explanation
Indices: 26253764--26253822 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
26253754 TGGTCTATTA
** *
26253764 CGTACCAAAATTTCCA-TACCATTT
1 CGTACCAAAATCCCCATTACCATAT
26253788 CGTACC-AAA-CCCCATTACCATAT
1 CGTACCAAAATCCCCATTACCATAT
26253811 CGTACCAAAATC
1 CGTACCAAAATC
26253823 AACATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 16 0.55
24 9 0.31
25 1 0.03
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (25 bp):
CGTACCAAAATCCCCATTACCATAT
Found at i:26262454 original size:24 final size:25
Alignment explanation
Indices: 26262425--26262483 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
26262415 TGGTCTACTA
** *
26262425 CGTACCAAAATTTCCA-TACCATTT
1 CGTACCAAAATCCCCATTACCATAT
26262449 CGTACC-AAA-CCCCATTACCATAT
1 CGTACCAAAATCCCCATTACCATAT
26262472 CGTACCAAAATC
1 CGTACCAAAATC
26262484 AACATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 16 0.55
24 9 0.31
25 1 0.03
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (25 bp):
CGTACCAAAATCCCCATTACCATAT
Found at i:26268769 original size:16 final size:18
Alignment explanation
Indices: 26268738--26268771 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
26268728 ACTCTTCAAT
26268738 CCATCATCCAAATCAAAG
1 CCATCATCCAAATCAAAG
26268756 CCATCA-CC-AATCAAAG
1 CCATCATCCAAATCAAAG
26268772 ATTGATACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (18 bp):
CCATCATCCAAATCAAAG
Found at i:26269288 original size:15 final size:16
Alignment explanation
Indices: 26269263--26269294 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26269253 TATCTCACAC
26269263 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
26269279 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
26269294 T
1 T
26269295 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:26270320 original size:12 final size:11
Alignment explanation
Indices: 26270303--26270350 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
26270293 AATAATTAAC
26270303 TTTTTTTTCAA
1 TTTTTTTTCAA
*
26270314 TTTTTTTTTTGAA
1 --TTTTTTTTCAA
26270327 TTTTTTTTCGAA
1 TTTTTTTTC-AA
26270339 TTTTTTTTCAA
1 TTTTTTTTCAA
26270350 T
1 T
26270351 CTCGTAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 11 0.34
12 11 0.34
13 10 0.31
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:26270321 original size:13 final size:13
Alignment explanation
Indices: 26270303--26270346 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
26270293 AATAATTAAC
26270303 TTTTTTTTCAATT
1 TTTTTTTTCAATT
*
26270316 TTTTTTTTGAA--
1 TTTTTTTTCAATT
26270327 TTTTTTTTCGAATT
1 TTTTTTTTC-AATT
26270341 TTTTTT
1 TTTTTT
26270347 CAATCTCGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 10 0.38
14 6 0.23
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTTTTCAATT
Found at i:26280702 original size:13 final size:13
Alignment explanation
Indices: 26280686--26280720 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26280676 TTTAAACAAA
*
26280686 TTAATTAACTTAT
1 TTAATTAACTAAT
26280699 TTAATTAACTAAT
1 TTAATTAACTAAT
*
26280712 TTAACTAAC
1 TTAATTAAC
26280721 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:26302254 original size:22 final size:22
Alignment explanation
Indices: 26302226--26302378 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
26302216 TTTATTGTTC
*
26302226 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
26302248 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
26302270 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
26302292 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
26302314 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
26302336 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
26302358 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
26302379 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:26306434 original size:6 final size:6
Alignment explanation
Indices: 26306423--26306450 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26306413 AATAAATTAT
26306423 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
26306451 CTTGTCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:26324971 original size:27 final size:27
Alignment explanation
Indices: 26324911--26325212 Score: 334
Period size: 27 Copynumber: 11.2 Consensus size: 27
26324901 AGAGGTCAAT
* *
26324911 AAATGATCGAAATACCCCCATAGGGTG
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * *
26324938 AACTGACCGAAATGCTCCCGTAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
26324965 AAATGACAAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
26324992 AAATAACCTAAATACTCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
26325019 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
26325046 AAATGACCGAAATACCCCTATATAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
26325073 AAATAACCGAAATACCCTCACAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
26325100 AAATAACTGAAATACCCCTACAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
26325127 AAATGACCGAAATATCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
26325154 AAATGATTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
26325181 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
26325208 AAATG
1 AAATG
26325213 GCTGTTATAC
Statistics
Matches: 224, Mismatches: 51, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 224 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:26382879 original size:50 final size:50
Alignment explanation
Indices: 26382771--26382947 Score: 185
Period size: 50 Copynumber: 3.4 Consensus size: 50
26382761 ATTTGGGTAA
* * *
26382771 AGAGATCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-CT-AG---ATG
*
26382827 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
* * * * *
26382877 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATTGCATGGGCACCGATATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
**
26382927 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
26382948 ATTTGAGATA
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.04
50 54 0.51
51 4 0.04
53 2 0.02
54 1 0.01
55 1 0.01
56 40 0.38
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
Found at i:26389302 original size:22 final size:22
Alignment explanation
Indices: 26389259--26389303 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
26389249 ATAGGTGGAC
**
26389259 TAAGTGTTTTTATGTTATAAAA
1 TAAGTGTTTAAATGTTATAAAA
26389281 TAAGTGTTTAAATGGTTA-AAAA
1 TAAGTGTTTAAAT-GTTATAAAA
26389303 T
1 T
26389304 GGTTGGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (22 bp):
TAAGTGTTTAAATGTTATAAAA
Found at i:26394766 original size:7 final size:7
Alignment explanation
Indices: 26394754--26394780 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
26394744 TTGTTGTAAA
26394754 TGGACAT
1 TGGACAT
26394761 TGGACAT
1 TGGACAT
26394768 TGGACAT
1 TGGACAT
26394775 TGGACA
1 TGGACA
26394781 ATTTATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (7 bp):
TGGACAT
Found at i:26396226 original size:30 final size:30
Alignment explanation
Indices: 26396178--26396236 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
26396168 GCATATCACC
* *
26396178 CTTTTCATTAATTACAATTT-TTCCCTAAA
1 CTTTTCATTAATCACAATTTAGTCCCTAAA
*
26396207 CTTTTACATTTATCACAATTTAGTCCCTAA
1 CTTTT-CATTAATCACAATTTAGTCCCTAA
26396237 GCTCAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 13 0.52
31 7 0.28
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (30 bp):
CTTTTCATTAATCACAATTTAGTCCCTAAA
Found at i:26400869 original size:27 final size:27
Alignment explanation
Indices: 26400837--26400888 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26400827 ACAAGTGAGG
26400837 AAAAAGAAAAAGAGAATGAAAAAGAGA
1 AAAAAGAAAAAGAGAATGAAAAAGAGA
* ** *
26400864 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
26400889 AATTGAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGA
Found at i:26403972 original size:14 final size:14
Alignment explanation
Indices: 26403953--26403979 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26403943 ATTTCCATAA
26403953 CGTCAATAAATTGT
1 CGTCAATAAATTGT
26403967 CGTCAATAAATTG
1 CGTCAATAAATTG
26403980 AAGTGAAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
CGTCAATAAATTGT
Found at i:26413178 original size:43 final size:43
Alignment explanation
Indices: 26413066--26413196 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
26413056 ACGTCGCTAT
* * * **
26413066 AGAACATGACCTTTAGCGGCAC-TTCTCATAAAAATACCACTAA
1 AGAACATGACCTTTAGCGGCGCGTT-TCCTACAAACGCCACTAA
*
26413109 AGAACATGACCTTTAGCGGCGGGTTTCCTACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCGTTTCCTACAAACGCCACTAA
* * *
26413152 AGAACATGACTTTTAGCGGCGCGTTTCCCACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGCGTTTCCTACAAACGCCACTAA
26413195 AG
1 AG
26413197 GTCATGTTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 75 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCGTTTCCTACAAACGCCACTAA
Found at i:26413625 original size:66 final size:66
Alignment explanation
Indices: 26413503--26413636 Score: 155
Period size: 66 Copynumber: 2.0 Consensus size: 66
26413493 ATTCTGAAGC
* ** * * * *
26413503 TGTAGTTAGAGTTCATCATATTTTCTTGTTTCCTCTTTTTTCTTCGCTACTACCTCCATTTTAAG
1 TGTAGCTAGAGTTCATCATATTTTCTTGTAGCCTCTCTTCTCTTCGATACTACCTCCACTTTAAG
26413568 T
66 T
* *
26413569 TGTAGCTAGAGTTCATCATATTTTCTT-TGAGCCTCTGCTTCTC-TCGATGCTGCCTCCACTTTA
1 TGTAGCTAGAGTTCATCATATTTTCTTGT-AGCCTCT-CTTCTCTTCGATACTACCTCCACTTTA
26413632 AGT
64 AGT
26413635 TG
1 TG
26413637 AGCAATTTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
65 1 0.02
66 52 0.91
67 4 0.07
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.46
Consensus pattern (66 bp):
TGTAGCTAGAGTTCATCATATTTTCTTGTAGCCTCTCTTCTCTTCGATACTACCTCCACTTTAAG
T
Found at i:26416963 original size:150 final size:149
Alignment explanation
Indices: 26416681--26417005 Score: 404
Period size: 150 Copynumber: 2.2 Consensus size: 149
26416671 CAATGTCATA
* * * * * *
26416681 TCCCAGATATGGTCTTACGTGGGA-GTTCTCATATAGGTGCCCATGCCATGTCCTAGACATGGTC
1 TCCCAGACATGGTCTTACATGGGACCTTCTCATATAGGTGCCAATGCCATGTCCCAGACAGGGTC
* * *
26416745 TTACGAGGGATTTCATCTCGGTGCCAACACCAAGTACCAGACATGGTCTTAAATGGGACCTCTTA
66 TTACAAGGGATTTCATCTCGGCGCCAACACCAAGTACCAGACATAGTCTTAAATGGGACCTCTTA
*
26416810 TCTCGGCGCCAACGCCATG
131 TCTCCGCGCCAACGCCATG
* * * *
26416829 TCCCAGACATGGTCTTACATGGGACCTT-TCATCTTGGTGTCAATGCCATGTCCCAGACAGGGTT
1 TCCCAGACATGGTCTTACATGGGACCTTCTCATATAGGTGCCAATGCCATGTCCCAGACAGGGTC
* * * * *
26416893 TTACAAGGGACCTCTT-TTCTCGGCGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTC
66 TTACAAGGGA--T-TTCATCTCGGCGCCAACACCAAGTACCAGACATAGTCTTAAATGGGACCTC
* *
26416957 TTATCTCCGTGCCAATGCCATG
128 TTATCTCCGCGCCAACGCCATG
*
26416979 TCCCAGACATGGTATTACATGGGACCT
1 TCCCAGACATGGTCTTACATGGGACCT
26417006 CTTTACCCAA
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
148 60 0.40
149 2 0.01
150 87 0.58
151 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (149 bp):
TCCCAGACATGGTCTTACATGGGACCTTCTCATATAGGTGCCAATGCCATGTCCCAGACAGGGTC
TTACAAGGGATTTCATCTCGGCGCCAACACCAAGTACCAGACATAGTCTTAAATGGGACCTCTTA
TCTCCGCGCCAACGCCATG
Found at i:26417004 original size:50 final size:50
Alignment explanation
Indices: 26416681--26417008 Score: 351
Period size: 50 Copynumber: 6.6 Consensus size: 50
26416671 CAATGTCATA
* * ** * * * * *
26416681 TCCCAGATATGGTCTTACGTGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
26416731 TCCTAGACATGGTCTTACGA-GGGA--T-TTCATCTCGGTGCCAACACCAAG
1 TCCCAGACATGGTCTTAC-ATGGGACCTCTT-ATCTCGGTGCCAACGCCATG
* * *
26416779 TACCAGACATGGTCTTAAATGGGACCTCTTATCTCGGCGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
26416829 TCCCAGACATGGTCTTACATGGGACCT-TTCATCTTGGTGTCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTT-ATCTCGGTGCCAACGCCATG
* * * * *
26416879 TCCCAGACAGGGTTTTACAAGGGACCTCTTTTCTCGGCGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
* * *
26416929 TCCCAGACATAGTCTTACATGGGACCTCTTATCTCCGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
*
26416979 TCCCAGACATGGTATTACATGGGACCTCTT
1 TCCCAGACATGGTCTTACATGGGACCTCTT
26417009 TACCCAAATT
Statistics
Matches: 230, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 34 0.15
49 2 0.01
50 188 0.82
51 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATG
Found at i:26417009 original size:100 final size:100
Alignment explanation
Indices: 26416725--26417009 Score: 389
Period size: 100 Copynumber: 2.9 Consensus size: 100
26416715 AGGTGCCCAT
* ** * *
26416725 GCCATGTCCTAGACATGGTCTTACGA-GGGA--TTTCATCTCGGTGCCAACACCAAGTACCAGAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTTTCATCTCGGTGCCAATGCCATGTCCCAGAC
* * *
26416787 ATGGTCTTAAATGGGACCTCTTATCTCGGCGCCAAC
65 ATGGTATTACATGGGACCTCTTTTCTCGGCGCCAAC
* *
26416823 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTTGGTGTCAATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAATGCCATGTCCCAGACA
* * *
26416888 GGGTTTTACAAGGGACCTCTTTTCTCGGCGCCAAC
66 TGGTATTACATGGGACCTCTTTTCTCGGCGCCAAC
* *
26416923 GCCATGTCCCAGACATAGTCTTACATGGGACCTCTT-ATCTCCGTGCCAATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCT-TTCATCTCGGTGCCAATGCCATGTCCCAGAC
26416987 ATGGTATTACATGGGACCTCTTT
65 ATGGTATTACATGGGACCTCTTT
26417010 ACCCAAATTT
Statistics
Matches: 164, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
97 1 0.01
98 27 0.16
100 134 0.82
101 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAATGCCATGTCCCAGACA
TGGTATTACATGGGACCTCTTTTCTCGGCGCCAAC
Found at i:26420098 original size:20 final size:20
Alignment explanation
Indices: 26420073--26420110 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
26420063 TCCTGTATAA
26420073 GTACACAACCCAATCCGTAT
1 GTACACAACCCAATCCGTAT
26420093 GTACACAACCCAATCCGT
1 GTACACAACCCAATCCGT
26420111 TCAAGGATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.11, T:0.18
Consensus pattern (20 bp):
GTACACAACCCAATCCGTAT
Found at i:26422773 original size:50 final size:50
Alignment explanation
Indices: 26422698--26422837 Score: 138
Period size: 50 Copynumber: 2.8 Consensus size: 50
26422688 TTTTGTACTT
* *** ** *
26422698 CCAATGTCATATCCCATTTATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGATG
* * * * *
26422748 CCCATGCGATATCCTAGACATGGTCTTACGA-GGGACCTCTCATCTCGATG
1 CCAATGCCATATCCCAGACATGGTCTTAC-ATGAGACCTCTCATATCGATG
* *
26422798 CCAATGCCATTTCCCAGACATGGTCTTACATGGGACCTCT
1 CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCT
26422838 TTACCCAAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 70 0.97
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATATCGATG
Found at i:26428597 original size:21 final size:23
Alignment explanation
Indices: 26428572--26428620 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
26428562 ATAACATAAT
*
26428572 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
26428593 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
26428615 AAAAAT
1 AAAAAT
26428621 AGATGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:26428801 original size:25 final size:25
Alignment explanation
Indices: 26428755--26428853 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 25
26428745 TTATTTCGGG
* *
26428755 GTAGAGGAGTGTCGATGATGATGCA
1 GTAGAGGAGTGTCGACGGTGATGCA
**
26428780 GTAGAGGAGTGTCGACGGTGATGGG
1 GTAGAGGAGTGTCGACGGTGATGCA
* * *
26428805 GCAGAGGAGTGTTGACGGCGATGCA
1 GTAGAGGAGTGTCGACGGTGATGCA
* *
26428830 G-CGAGGTGATAGTCGACGGTGATG
1 GTAGAGGAG-T-GTCGACGGTGATG
26428854 AAACAAATGG
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
24 5 0.08
25 43 0.73
26 11 0.19
ACGTcount: A:0.23, C:0.11, G:0.45, T:0.20
Consensus pattern (25 bp):
GTAGAGGAGTGTCGACGGTGATGCA
Found at i:26429099 original size:41 final size:40
Alignment explanation
Indices: 26429005--26429099 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
26428995 AACATGATAC
** * *
26429005 TTTGTGGCATTTTTCTCATAAACTTCGCTATTGGTTACCT
1 TTTGTGGCATTTTTCTCATAAACGCCGCTACTGCTTACCT
* *
26429045 TTTGCGGCATTTTTCTCATAAACGCCTCTACTGCTTGACCT
1 TTTGTGGCATTTTTCTCATAAACGCCGCTACTGCTT-ACCT
*
26429086 TTTGTGGCGTTTTT
1 TTTGTGGCATTTTT
26429100 TCGTTAGCGC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 30 0.65
41 16 0.35
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (40 bp):
TTTGTGGCATTTTTCTCATAAACGCCGCTACTGCTTACCT
Found at i:26430907 original size:43 final size:42
Alignment explanation
Indices: 26430773--26431012 Score: 188
Period size: 41 Copynumber: 5.7 Consensus size: 42
26430763 TTTGAATGTA
* * * * *
26430773 AAGG-GGTTGCTAAGTGCAGATTCC-CTGAATCATTGATCAAA
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGAT-TAT
* * *
26430814 AAAG-GGTTGCTAAGTGCAGATTCC-CCAG-ATTATTGATTAAT
1 AAGGTGGTTGCTAAGTGCTGATTCCACC-GTATCATTGATT-AT
* * * *
26430855 AATGTGGTTGCTAAGTACTGATTCCACCGTATCCTTGATTGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
* *
26430897 GAAAGG-GGTTGCTATGTGCTGATTCC-TCGTATCATTGATTAT
1 --AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
* * **
26430939 AAGGTGGTTGCTAAGTGCTGATTCCACCGGGATCCTTTGAACAT
1 AAGGTGGTTGCTAAGTGCTGATTCCACC-GTAT-CATTGATTAT
* *
26430983 GAGGTGGTTGCTAAGTGCTGATTTCACCGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGT
26431013 GTGACGGTTA
Statistics
Matches: 162, Mismatches: 26, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
40 4 0.02
41 55 0.34
42 35 0.22
43 32 0.20
44 36 0.22
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT
Found at i:26430992 original size:85 final size:84
Alignment explanation
Indices: 26430817--26431005 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 84
26430807 GATCAAAAAA
* * *
26430817 GGGTTGCTAAGTGCAGATTCCCCAGATTATTGATTAATAATGTGGTTGCTAAGTACTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCAGATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
* ***
26430882 CGTATCCTTGATTGTGAAAG
66 CGGATCCTTGAACATG-AAG
* * *
26430902 GGGTTGCTATGTGCTGATTCCTC-GTATCATTGATT-ATAAGGTGGTTGCTAAGTGCTGATTCCA
1 GGGTTGCTAAGTGCTGATTCCCCAG-ATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCA
26430965 CCGGGATCCTTTGAACATG-AG
65 CC-GGATCC-TTGAACATGAAG
26430986 GTGGTTGCTAAGTGCTGATT
1 G-GGTTGCTAAGTGCTGATT
26431006 TCACCGTGTG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
84 32 0.36
85 51 0.57
86 6 0.07
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCAGATCATTGATTAATAAGGTGGTTGCTAAGTACTGATTCCAC
CGGATCCTTGAACATGAAG
Found at i:26440624 original size:26 final size:26
Alignment explanation
Indices: 26440585--26440639 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
26440575 AAGCTCTCTT
*
26440585 GAAAATTGGAAGAATGGA-AATGAGA
1 GAAAATAGGAAGAATGGAGAATGAGA
26440610 GAAAATAGAGAAGAATGGATGAATGAGA
1 GAAAATAG-GAAGAATGGA-GAATGAGA
26440638 GA
1 GA
26440640 TGATGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.33, T:0.15
Consensus pattern (26 bp):
GAAAATAGGAAGAATGGAGAATGAGA
Found at i:26441768 original size:22 final size:22
Alignment explanation
Indices: 26441741--26441792 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26441731 GGACATGCCA
26441741 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
26441763 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
26441785 CCACTGAT
1 CCACTGAT
26441793 AGCACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:26450185 original size:40 final size:40
Alignment explanation
Indices: 26450140--26450320 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
26450130 GGAGATAAAC
* * *
26450140 AGGGGCACGGAAGTGCATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAT
* * *
26450180 AGGGGCACGTATGTGCATTTAGGGGTACTGCAGTACAAAT
1 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAT
* * * *
26450220 AAGGGCACATATGTGCATTAAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAT
*
26450260 AGGGGCACGCATGTGCATTCAGGGGTACCGAAGTACAAAT
1 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAT
*
26450300 AGGGGCATGTATGTGCATTCA
1 AGGGGCACGTATGTGCATTCA
26450321 TTCTATAATT
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.20
Consensus pattern (40 bp):
AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAT
Found at i:26450303 original size:20 final size:20
Alignment explanation
Indices: 26450240--26450304 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
26450230 ATGTGCATTA
*
26450240 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAT
* * * *
26450260 AGGGGCA-CGCATGTGC-ATT
1 AGGGGTACCG-AAGTACAAAT
26450279 CAGGGGTACCGAAGTACAAAT
1 -AGGGGTACCGAAGTACAAAT
26450300 AGGGG
1 AGGGG
26450305 CATGTATGTG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
19 3 0.09
20 25 0.78
21 4 0.12
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:26456917 original size:104 final size:104
Alignment explanation
Indices: 26456735--26456944 Score: 402
Period size: 104 Copynumber: 2.0 Consensus size: 104
26456725 GAGCTATTAA
26456735 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
* *
26456800 GGTACTGATAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTAATGAGAATCATTATTTGCTATCCTTTCCAGAATTT
26456839 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
1 CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
26456904 GGTAATGAGAATCATTATTTGCTATCCTTTCCAGAATTT
66 GGTAATGAGAATCATTATTTGCTATCCTTTCCAGAATTT
26456943 CG
1 CG
26456945 TATGCTTCAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (104 bp):
CGATGTAATTTCATCAAGTCCCATTCATCTAGTAAATCTTCTACCAGTACCAACTCTTGTGATAG
GGTAATGAGAATCATTATTTGCTATCCTTTCCAGAATTT
Found at i:26460194 original size:20 final size:20
Alignment explanation
Indices: 26460171--26460256 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 20
26460161 ACAAGCCACC
*
26460171 AGTAATGCAGACAAGCTGCT
1 AGTAATGCAGACAAGCTGCA
** * ** *
26460191 AGTAATGTGGTCAAGCCACT
1 AGTAATGCAGACAAGCTGCA
* * * *
26460211 AGTAATGTATATAAACTGCA
1 AGTAATGCAGACAAGCTGCA
* *
26460231 AGTAGTGCAAACAAGCTGCA
1 AGTAATGCAGACAAGCTGCA
26460251 AGTAAT
1 AGTAAT
26460257 ATGGAGAAGC
Statistics
Matches: 47, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (20 bp):
AGTAATGCAGACAAGCTGCA
Found at i:26460285 original size:60 final size:60
Alignment explanation
Indices: 26460171--26460294 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 60
26460161 ACAAGCCACC
* * * * * *
26460171 AGTAATGCAGACAAGCTGCTAGTAATGTGGTCAAGCCACTAGTAATGTATATAAACTGCA
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACTAGTAATGCAAATAAACTGCA
* * * *
26460231 AGTAGTGCAAACAAGCTGCAAGTAATATGGAGAAGCCACTAGTGATGCAAATAAACTGCC
1 AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACTAGTAATGCAAATAAACTGCA
26460291 AGTA
1 AGTA
26460295 CTTCCTCCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.22
Consensus pattern (60 bp):
AGTAATGCAAACAAGCTGCAAGTAATATGGACAAGCCACTAGTAATGCAAATAAACTGCA
Found at i:26461374 original size:22 final size:23
Alignment explanation
Indices: 26461338--26461380 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
26461328 AGCATGATAC
*
26461338 CATATAAAATATATTTTTTATCA
1 CATATAAAATATATTGTTTATCA
*
26461361 CATAT-AAATCTATTGTTTAT
1 CATATAAAATATATTGTTTAT
26461381 TCAAATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
CATATAAAATATATTGTTTATCA
Found at i:26462321 original size:51 final size:49
Alignment explanation
Indices: 26462141--26462485 Score: 339
Period size: 51 Copynumber: 6.8 Consensus size: 49
26462131 AGTTTTATCA
* ** *
26462141 TTCGTTACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* * *
26462190 TTACGATTCACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAATT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* * * *
26462240 TTACGGTTCTCATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAA--TT
* * * * ** *
26462292 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AATT
* * * * **
26462342 CATCGATACACGTAGTAGCCTTCACACAGTACAACACACGTGACTAAAAC
1 -TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
* * * *
26462392 TTCTATGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCAATATT
1 TTCGA--TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA-ATT
*
26462444 TATCGATACACGTAGTAGCCTTCACAGAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
26462486 TTCATCGATA
Statistics
Matches: 242, Mismatches: 45, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
49 5 0.02
50 88 0.36
51 139 0.57
52 7 0.03
53 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (49 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAATT
Found at i:26462382 original size:102 final size:100
Alignment explanation
Indices: 26462146--26462485 Score: 405
Period size: 102 Copynumber: 3.4 Consensus size: 100
26462136 TATCATTCGT
* * * *
26462146 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-TGAAG-TTTTACGATTCACGTAGTAGC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTTTT-CGGTACACATAGTAGC
* * * * * *
26462209 CTTTACATAGTACTACACACGTGATCAAATTTTACGG
65 CTTCACTTAGTACTACACATGTGATCATATTAT-CGA
* * * *
26462246 TTCTCATAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTTTTCGGTACACATAGTAGCC
*
26462311 TTCACTTAGTACTACACATGTGTTCATCATTCATCGA
66 TTCACTTAGTACTACACATGTGATCAT-ATT-ATCGA
* * * * **
26462348 TACACGTAGTAGCCTTCACACAGTACAACACACGTGACTAAAACTTCTATGTACACATAGTAGCC
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTTTTCGGTACACATAGTAGCC
*
26462413 TTCACTTAGTACTACACATGTGACCAATATTTATCGA
66 TTCACTTAGTACTACACATGTGATC-ATA-TTATCGA
*
26462450 TACACGTAGTAGCCTTCACAGAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
26462486 TTCATCGATA
Statistics
Matches: 205, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
100 34 0.17
101 39 0.19
102 127 0.62
103 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (100 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACTAAAGCTTTTCGGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGATCATATTATCGA
Found at i:26462436 original size:153 final size:150
Alignment explanation
Indices: 26462141--26462491 Score: 427
Period size: 153 Copynumber: 2.3 Consensus size: 150
26462131 AGTTTTATCA
* * * *** * *
26462141 TTCGTTACACGTAGTAGCCTTCACATAGTACTACACACGTGATGAAGTTTTACGATTCACGTAGT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCACGATACACGTAGT
* * * * * * *
26462206 AGCCTTTACATAGTACTACACACGTGATCAAATTTTACGGTTCTCATAGTAGCCTTCACATAGTA
66 AGCCTTCACACAGTACAACACACGTGATAAAATTCTACGGTACACATAGTAGCCTTCACATAGTA
26462271 CTACACACGTGACCAA-AGCTT
131 CTACACACGTGACCAATA--TT
* * * *
26462292 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGTTCATCATTCATCGATACACGTAG
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCA-CGATACACGTAG
* *
26462357 TAGCCTTCACACAGTACAACACACGTGACTAAAACTTCTA-TGTACACATAGTAGCCTTCACTTA
65 TAGCCTTCACACAGTACAACACACGTGA-TAAAA-TTCTACGGTACACATAGTAGCCTTCACATA
*
26462421 GTACTACACATGTGACCAATATT
128 GTACTACACACGTGACCAATATT
*
26462444 TATCGATACACGTAGTAGCCTTCACAGAGTACTACACACGTGTTCATC
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATC
26462492 GATACCTTAT
Statistics
Matches: 169, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
151 42 0.25
152 39 0.23
153 83 0.49
154 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (150 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGTTCATCATTCACGATACACGTAGT
AGCCTTCACACAGTACAACACACGTGATAAAATTCTACGGTACACATAGTAGCCTTCACATAGTA
CTACACACGTGACCAATATT
Found at i:26462990 original size:30 final size:30
Alignment explanation
Indices: 26462956--26463017 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
26462946 TCGACTCAAC
26462956 CTTTTACAAAATTACGA-TTTTGTCCCCAAA
1 CTTTTACAAAATTAC-ATTTTTGTCCCCAAA
* ** *
26462986 CTTTTGCGTATTTACATTTTTGTCCCCAAA
1 CTTTTACAAAATTACATTTTTGTCCCCAAA
26463016 CT
1 CT
26463018 CAAAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (30 bp):
CTTTTACAAAATTACATTTTTGTCCCCAAA
Found at i:26464634 original size:20 final size:20
Alignment explanation
Indices: 26464608--26464664 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
26464598 AAGACGATGA
26464608 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
26464628 ACGATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
26464648 TCCATTCCAATTACTTA
1 ACCATTCCATTTACTTA
26464665 GCATAAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:26479471 original size:32 final size:32
Alignment explanation
Indices: 26479369--26479584 Score: 156
Period size: 32 Copynumber: 6.8 Consensus size: 32
26479359 GAATGGCTAC
* * * *
26479369 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * * * * *
26479400 AATCCATCAATAGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
26479432 CAA-CCATCAGTAACAGTAACT-TGATCGACACA
1 -AAGCCATCAGTAACAGTAA-TATGATCGACACA
* * * *
26479464 AAGCCATCAGTAAAAGTGATAAGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGACACA
* * *
26479496 CAA-CCATTAGTAACAGTGAA-ATGATCGGCAGA
1 -AAGCCATCAGTAACAGT-AATATGATCGACACA
* *
26479528 CAGCCATC-GTTAACGGTAATATGATCGACACA
1 AAGCCATCAG-TAACAGTAATATGATCGACACA
* *
26479560 AAGCCATCAGTAACGGTACTATGAT
1 AAGCCATCAGTAACAGTAATATGAT
26479585 TTGTACAAAG
Statistics
Matches: 147, Mismatches: 27, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
31 15 0.10
32 125 0.85
33 7 0.05
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:26479886 original size:27 final size:27
Alignment explanation
Indices: 26479854--26480081 Score: 321
Period size: 27 Copynumber: 8.4 Consensus size: 27
26479844 AGGGCAATAT
* *
26479854 GGTCATCTTACCCTACAGGGGTAATAC
1 GGTCATTTTACCCTACAGGGGTATTAC
26479881 GGTCATTTTACCCTACAGGGGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
* * * *
26479908 AGTCATTTTACCCTATAGGGGCATTAT
1 GGTCATTTTACCCTACAGGGGTATTAC
* *
26479935 GGTCATTTTACCTTATAGGGGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
* *
26479962 GGTCATTTTCCCCTACAGGAGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
*
26479989 GGTCATTTTACCCCACAGGGGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
*
26480016 GGTCATTTTACCCTACACGGGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
* *
26480043 GGCCATTTTACCCTATAGGGGTATTAC
1 GGTCATTTTACCCTACAGGGGTATTAC
*
26480070 GTTCATTTTACC
1 GGTCATTTTACC
26480082 ATTTGAGGGT
Statistics
Matches: 177, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTCATTTTACCCTACAGGGGTATTAC
Found at i:26480091 original size:27 final size:26
Alignment explanation
Indices: 26479872--26480107 Score: 156
Period size: 27 Copynumber: 8.8 Consensus size: 26
26479862 TACCCTACAG
* *
26479872 GGGTAATACGGTCATTTTACC-CTAC
1 GGGTATTACGGTCATTTTACCTTTAC
* * *
26479897 AGGGGTATTACAGTCATTTTACCCTATAG
1 --GGGTATTACGGTCATTTTA-CCTTTAC
* * *
26479926 GGGCATTATGGTCATTTTACCTTATAG
1 GGGTATTACGGTCATTTTACCTT-TAC
**
26479953 GGGTATTACGGTCATTTT-CCCCTAC
1 GGGTATTACGGTCATTTTACCTTTAC
**
26479978 AGGAGTATTACGGTCATTTTACC-CCAC
1 -GG-GTATTACGGTCATTTTACCTTTAC
**
26480005 AGGGGTATTACGGTCATTTTACCCTACAC
1 --GGGTATTACGGTCATTTTA-CCTTTAC
* * *
26480034 GGGTATTACGGCCATTTTACCCTATAG
1 GGGTATTACGGTCATTTTA-CCTTTAC
*
26480061 GGGTATTACGTTCATTTTACCATTTGA-
1 GGGTATTACGGTCATTTTACC-TTT-AC
* *
26480088 GGGTATTTCGGTAATTTTAC
1 GGGTATTACGGTCATTTTAC
26480108 AACTTTTCCG
Statistics
Matches: 173, Mismatches: 25, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.01
26 9 0.05
27 148 0.86
28 9 0.05
29 5 0.03
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (26 bp):
GGGTATTACGGTCATTTTACCTTTAC
Found at i:26480092 original size:81 final size:80
Alignment explanation
Indices: 26479854--26480107 Score: 289
Period size: 81 Copynumber: 3.1 Consensus size: 80
26479844 AGGGCAATAT
* *
26479854 GGTCATCTTACCCTACAGGGGTAATACGGTCATTTTACCCTACAGGGGTATTACAGTCATTTTAC
1 GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTAC-GTCATTTTAC
* * *
26479919 CCTAT-AGGGGCATTAT
65 CATATGA-GGGTATTAC
* * * *
26479935 GGTCATTTTACCTTATAGGGGTATTACGGTCATTTTCCCCTACAGGAGTATTACGGTCATTTTAC
1 GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTAC-GTCATTTTA-
*
26480000 CCCACA-G-GGGTATTAC
64 -CCATATGAGGGTATTAC
* * *
26480016 GGTCATTTTACCCTACACGGGTATTACGGCCATTTTACCCTATAGGGGTATTACGTTCATTTTAC
1 GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACG-TCATTTTAC
* *
26480081 CATTTGAGGGTATTTC
65 CATATGAGGGTATTAC
*
26480097 GGTAATTTTAC
1 GGTCATTTTAC
26480108 AACTTTTCCG
Statistics
Matches: 145, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
79 3 0.02
80 2 0.01
81 137 0.94
83 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.35
Consensus pattern (80 bp):
GGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACGTCATTTTACC
ATATGAGGGTATTAC
Found at i:26482224 original size:24 final size:24
Alignment explanation
Indices: 26482195--26482243 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
26482185 GTCATATTAA
*
26482195 ACTAAACATAAACACCTAATGTTT
1 ACTAAACATAAACACCTAATATTT
26482219 ACTAAACATAAACACCTAATATTT
1 ACTAAACATAAACACCTAATATTT
26482243 A
1 A
26482244 AACATAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (24 bp):
ACTAAACATAAACACCTAATATTT
Found at i:26487177 original size:40 final size:40
Alignment explanation
Indices: 26487089--26487166 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
26487079 GTCAAGCCAC
* ** *
26487089 CAGTTATGTAGATAAACTGCCGGTAGTGTAGACAAGCTAA
1 CAGTAATGTAGATAAACTGCCCATAATGTAGACAAGCTAA
*
26487129 CAGTAATGTATATAAACTGCCCATAATGTAGACAAGCT
1 CAGTAATGTAGATAAACTGCCCATAATGTAGACAAGCT
26487167 GTAAGTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.26
Consensus pattern (40 bp):
CAGTAATGTAGATAAACTGCCCATAATGTAGACAAGCTAA
Found at i:26490136 original size:20 final size:20
Alignment explanation
Indices: 26490103--26490147 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26490093 TAAATTCACA
26490103 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
26490123 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
26490143 TAATT
1 TAATT
26490148 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:26492373 original size:26 final size:27
Alignment explanation
Indices: 26492337--26492391 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
26492327 CACTCATTAA
26492337 TATTTAATATA-TTCTCAAATCCAATT
1 TATTTAATATATTTCTCAAATCCAATT
* *
26492363 TATTTAATATATTTCTCTAATTCAATT
1 TATTTAATATATTTCTCAAATCCAATT
26492390 TA
1 TA
26492392 ATTTTAGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTTAATATATTTCTCAAATCCAATT
Found at i:26493716 original size:2 final size:2
Alignment explanation
Indices: 26493709--26493738 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26493699 ACGCACATGC
26493709 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
26493739 GTATGTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26530512 original size:11 final size:11
Alignment explanation
Indices: 26530493--26530528 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
26530483 AACGATTTAG
*
26530493 AAATTTTTGAT
1 AAATCTTTGAT
26530504 AAATCTTTGAT
1 AAATCTTTGAT
*
26530515 AAATCTTCGAT
1 AAATCTTTGAT
26530526 AAA
1 AAA
26530529 AATCGGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (11 bp):
AAATCTTTGAT
Found at i:26545051 original size:50 final size:50
Alignment explanation
Indices: 26544809--26545051 Score: 215
Period size: 50 Copynumber: 4.9 Consensus size: 50
26544799 TGATAATAAC
* * * *
26544809 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTT-TTTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
** * * * * ** * * *
26544856 TACTGCCAATACCATATCCCATATATGGTCTTACATGAGAGTTCTCATATTG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
* * * * *
26544908 GTGCCCATGCCATGTCCCAGGCATGGTCTTACGA-GGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTTATCTCG
* *
26544958 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
* *
26545008 ATGCCTACGCCGTGTCCCAGACATGGTCTTACATGGGACCTCTT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
26545052 TATGTAAATG
Statistics
Matches: 159, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 32 0.20
50 119 0.75
51 3 0.02
52 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG
Found at i:26550213 original size:13 final size:13
Alignment explanation
Indices: 26550195--26550224 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26550185 TGATTATCAT
26550195 CTTTAAATATTAA
1 CTTTAAATATTAA
*
26550208 CTTTAAATATTGA
1 CTTTAAATATTAA
26550221 CTTT
1 CTTT
26550225 TTTAATTATA
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:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (13 bp):
CTTTAAATATTAA
Found at i:26551286 original size:71 final size:71
Alignment explanation
Indices: 26551053--26551356 Score: 281
Period size: 72 Copynumber: 4.2 Consensus size: 71
26551043 CATATTACCG
* * * * * * * * *
26551053 AATAAATGATTTTACTTAATATCAAAACTCAATAAA-TCAAATTAATTTAATCTTCTCAAAACAT
1 AATAAACGATTTCACTTAATATCAAAACTCAATAAATTGAACTAAATTAAAT-TTTTAAAAACAC
*
26551117 ATAACTTG
65 ATAA-TTA
* * * * * ** *
26551125 AATAAACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATAC
1 AATAAACGATTTCACTTAATATCAAAACTCAATAAATTGAACTAAATTA-AATTTTTAAAAACAC
*
26551190 ATAATTG
65 ATAATTA
* * *
26551197 GATAAACG-GTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAAATTTTTAAAAACAC
1 AATAAACGATTTC-ACTTAATATCAAAACTCAATAAATTGAACTAAATTAAATTTTTAAAAACAC
26551261 ATAATTA
65 ATAATTA
* * * * * *
26551268 AATAAACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACTAAATCAACCTTTTTAAAAACAC
1 AATAAACGATTTCACTTAATATCAAAACTCAATAAATTGAACTAAATTAA-ATTTTTAAAAACAC
26551333 ATAATTA
65 ATAATTA
26551340 AATAAACGACTTT-ACTT
1 AATAAACGA-TTTCACTT
26551357 GATAATTAAT
Statistics
Matches: 190, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
71 58 0.31
72 109 0.57
73 22 0.12
74 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (71 bp):
AATAAACGATTTCACTTAATATCAAAACTCAATAAATTGAACTAAATTAAATTTTTAAAAACACA
TAATTA
Found at i:26551335 original size:143 final size:144
Alignment explanation
Indices: 26551065--26551347 Score: 338
Period size: 143 Copynumber: 2.0 Consensus size: 144
26551055 TAAATGATTT
* * * * *
26551065 TACTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACATATAACTTGAATAA
1 TACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACACATAACTTAAATAA
* * * * * * *
26551130 ACGGTTTTACTTAATATCGAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAATACATAAT
66 ACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTAAAAACACATAAT
**
26551195 TGGATAAACGGTTC
131 TAAATAAACGGTTC
* * * *
26551209 TACTTAATATCAAAATTCAATAAATTGAACTAAATTAAAT-TTTTAAAAACACATAA-TTAAATA
1 TACTTAATATCAAAACTCAATAAA-TCAAATAAATTAAATCTTCTAAAAACACATAACTTAAATA
* * *
26551272 AACGATTTCGCTTAAGATCAAAACTTAATAAATTTAACT-AAATCAACCTTTTTAAAAACACATA
65 AACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAAT-AACCTTTTTAAAAACACATA
26551336 ATTAAATAAACG
129 ATTAAATAAACG
26551348 ACTTTACTTG
Statistics
Matches: 116, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
142 4 0.03
143 65 0.56
144 36 0.31
145 11 0.09
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.33
Consensus pattern (144 bp):
TACTTAATATCAAAACTCAATAAATCAAATAAATTAAATCTTCTAAAAACACATAACTTAAATAA
ACGATTTCACTTAAGATCAAAACTCAATAAATTGAACTAAAATAACCTTTTTAAAAACACATAAT
TAAATAAACGGTTC
Found at i:26553464 original size:21 final size:23
Alignment explanation
Indices: 26553439--26553487 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
26553429 ATAACATAAT
*
26553439 AAAAATTAAT-GATA-TAACCCA
1 AAAAATTAATAAATATTAACCCA
26553460 AAAAA-TAATAAATATTAACCCA
1 AAAAATTAATAAATATTAACCCA
26553482 AAAAAT
1 AAAAAT
26553488 AGATGTTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 8 0.33
22 12 0.50
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAATTAATAAATATTAACCCA
Found at i:26553650 original size:25 final size:25
Alignment explanation
Indices: 26553622--26553721 Score: 119
Period size: 25 Copynumber: 3.9 Consensus size: 25
26553612 TTGTTTCGGG
*
26553622 GTAGAGGAGTGTTGACGATGATGCA
1 GTAGAGGAGTGTTGACGGTGATGCA
* **
26553647 GTAGAGGAGTGTCGACGGTGATGGG
1 GTAGAGGAGTGTTGACGGTGATGCA
* *
26553672 GCAGAGGAGTGTTGACGGCGATGCA
1 GTAGAGGAGTGTTGACGGTGATGCA
*
26553697 GTAGAGGTGATAGTTGACGGTGATG
1 GTAGAGGAG-T-GTTGACGGTGATG
26553722 AAACAAATGG
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
25 48 0.79
26 1 0.02
27 12 0.20
ACGTcount: A:0.24, C:0.09, G:0.45, T:0.22
Consensus pattern (25 bp):
GTAGAGGAGTGTTGACGGTGATGCA
Found at i:26553699 original size:50 final size:52
Alignment explanation
Indices: 26553619--26553721 Score: 147
Period size: 50 Copynumber: 2.0 Consensus size: 52
26553609 TTGTTGTTTC
* *
26553619 GGGGTAGAGGAGTGTTGACGATGATGCAGTAGAGGAG-T-GTCGACGGTGAT
1 GGGGCAGAGGAGTGTTGACGACGATGCAGTAGAGGAGATAGTCGACGGTGAT
* * *
26553669 GGGGCAGAGGAGTGTTGACGGCGATGCAGTAGAGGTGATAGTTGACGGTGAT
1 GGGGCAGAGGAGTGTTGACGACGATGCAGTAGAGGAGATAGTCGACGGTGAT
26553721 G
1 G
26553722 AAACAAATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 33 0.72
51 1 0.02
52 12 0.26
ACGTcount: A:0.23, C:0.09, G:0.47, T:0.21
Consensus pattern (52 bp):
GGGGCAGAGGAGTGTTGACGACGATGCAGTAGAGGAGATAGTCGACGGTGAT
Found at i:26553812 original size:35 final size:34
Alignment explanation
Indices: 26553734--26553823 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 34
26553724 ACAAATGGTT
** *
26553734 GGGG-AAAATCTAAGGGATTTGGGGAGTTTTGATTT
1 GGGGAAAAAT-TAAGGGATTTGGGGAAATTT-ATTA
26553769 GGGGAAAAATTAAGGGATTTGGGGAAAATTT-TTA
1 GGGGAAAAATTAAGGGATTTGGGG-AAATTTATTA
*
26553803 GGGGAAAAAAATAAGGGATTT
1 GGGG-AAAAATTAAGGGATTT
26553824 CGAGGATATG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
34 6 0.12
35 33 0.69
36 9 0.19
ACGTcount: A:0.36, C:0.01, G:0.34, T:0.29
Consensus pattern (34 bp):
GGGGAAAAATTAAGGGATTTGGGGAAATTTATTA
Found at i:26553842 original size:35 final size:35
Alignment explanation
Indices: 26553763--26553852 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 35
26553753 TGGGGAGTTT
* *
26553763 TGATTTGGGG-AAAAATTAAGGGATTTGGGGAAAA
1 TGATTTGGGGAAAAAAATAAGGGATTTGAGGAAAA
* *
26553797 T-TTTTAGGGGAAAAAAATAAGGGATTTCGAGG-ATA
1 TGATTT-GGGGAAAAAAATAAGGGATTT-GAGGAAAA
* *
26553832 TGATTTGGGGATAAAACTAAG
1 TGATTTGGGGAAAAAAATAAG
26553853 CAGAGCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
33 3 0.07
34 5 0.11
35 31 0.69
36 6 0.13
ACGTcount: A:0.39, C:0.02, G:0.31, T:0.28
Consensus pattern (35 bp):
TGATTTGGGGAAAAAAATAAGGGATTTGAGGAAAA
Found at i:26553987 original size:40 final size:40
Alignment explanation
Indices: 26553894--26553987 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
26553884 AAAATGATAC
* * *
26553894 TTTGTGGCATTTTTCTCATAAACGCCGCTATTGGTTACCT
1 TTTGTGGCATTTTTCTCATAAACGCCACTACTGCTTACCT
* * *
26553934 GTTGCGGCGTTTTTCTCATAAACGCCACTACTGCTTGA-CT
1 TTTGTGGCATTTTTCTCATAAACGCCACTACTGCTT-ACCT
26553974 TTTGTGGCATTTTT
1 TTTGTGGCATTTTT
26553988 TCGTTAGCGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTGTGGCATTTTTCTCATAAACGCCACTACTGCTTACCT
Found at i:26555304 original size:22 final size:22
Alignment explanation
Indices: 26555225--26555296 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
26555215 ATTGTTCAAA
* **
26555225 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
26555247 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
26555269 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
26555291 CATGAG
1 CATGAG
26555297 GGTTTAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:26555785 original size:43 final size:42
Alignment explanation
Indices: 26555643--26555890 Score: 186
Period size: 40 Copynumber: 5.9 Consensus size: 42
26555633 CCGGGATTCT
* * * *
26555643 TTGAATGTAAAGG-GGTTGCTAAGTGCAGATTCC-CTGAATCA
1 TTGAATAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* * * * *
26555684 TTG-ATAAAAAAG-GGTTGCTAAGTGCAGATTCC-CCGAATTA
1 TTGAAT-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* * * *
26555724 TTGATTAATAATGTGGTTGCTAAGTACTGATTCCACCGTATCC
1 TTGAAT-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* * * *
26555767 TTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-CCGTATCA
1 TTGAATAT--AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
* * *
26555809 TTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACTGGGATCCT
1 TTGAATATAAGGTGGTTGCTAAGTGCTGATTCCAC-CGTAT-CA
* *
26555853 TTGAACATGAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 TTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
26555891 GTGATGGTTA
Statistics
Matches: 167, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
40 38 0.23
41 27 0.16
42 33 0.20
43 32 0.19
44 37 0.22
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TTGAATATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCA
Found at i:26555870 original size:85 final size:84
Alignment explanation
Indices: 26555695--26555890 Score: 216
Period size: 85 Copynumber: 2.3 Consensus size: 84
26555685 TGATAAAAAA
* * * * *
26555695 GGGTTGCTAAGTGCAGATTCCCCGAATTATTGATTAATAATGTGGTTGCTAAGTACTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATAATAAGGTGGTTGCTAAGTACTGATTCCAC
* ***
26555760 CGTATCCTTGATTGTGAAAG
66 CGGATCCTTGAACATG-AAG
* * *
26555780 GGGTTGCTATGTGTTGATTCCCCGTATCATTGAAT-ATAAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATAATAAGGTGGTTGCTAAGTACTGATTCCAC
*
26555844 TGGGATCCTTTGAACATG-AG
66 -CGGATCC-TTGAACATGAAG
26555864 GTGGTTGCTAAGTGCTGATTCCACCGT
1 G-GGTTGCTAAGTGCTGATTCC-CCGT
26555891 GTGATGGTTA
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
84 30 0.33
85 52 0.57
86 10 0.11
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCGTATCATTGAATAATAAGGTGGTTGCTAAGTACTGATTCCAC
CGGATCCTTGAACATGAAG
Found at i:26569765 original size:20 final size:20
Alignment explanation
Indices: 26569740--26569921 Score: 53
Period size: 20 Copynumber: 9.1 Consensus size: 20
26569730 TGGAGATAAA
26569740 CAGGGGCACGGAAGTGCATT
1 CAGGGGCACGGAAGTGCATT
* ** * *
26569760 CAGGGGTACCAAAGTACAAAT
1 CAGGGGCACGGAAGTGC-ATT
* *
26569781 -AGGGGCACGTATGTGCATT
1 CAGGGGCACGGAAGTGCATT
* * * * **
26569800 TAGGGGTACTGAAGTACAAA
1 CAGGGGCACGGAAGTGCATT
* ** *
26569820 CAAGGGCACATATGTGCATT
1 CAGGGGCACGGAAGTGCATT
* * * **
26569840 CAGGGGTACCGAAGTACAAA
1 CAGGGGCACGGAAGTGCATT
* *
26569860 CAGGGGCACGCATGTGCATT
1 CAGGGGCACGGAAGTGCATT
* * * * *
26569880 TAGGGGTACCGAAGTACAAAT
1 CAGGGGCACGGAAGTGC-ATT
* *
26569901 -AGGGGCACGTATGTGCATT
1 CAGGGGCACGGAAGTGCATT
26569920 CA
1 CA
26569922 TTCTATAATT
Statistics
Matches: 103, Mismatches: 55, Indels: 8
0.62 0.33 0.05
Matches are distributed among these distances:
19 4 0.04
20 95 0.92
21 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.19
Consensus pattern (20 bp):
CAGGGGCACGGAAGTGCATT
Found at i:26569786 original size:40 final size:40
Alignment explanation
Indices: 26569737--26569921 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
26569727 TACTGGAGAT
* * *
26569737 AAACAGGGGCACGGAAGTGCATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* * *
26569777 AAATAGGGGCACGTATGTGCATTTAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* *
26569817 AAACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* *
26569857 AAACAGGGGCACGCATGTGCATTTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
*
26569897 AAATAGGGGCACGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
26569922 TTCTATAATT
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.32, C:0.18, G:0.31, T:0.19
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
Found at i:26574680 original size:27 final size:27
Alignment explanation
Indices: 26574650--26574817 Score: 160
Period size: 27 Copynumber: 6.2 Consensus size: 27
26574640 CCTTAAAAGA
26574650 TAAAATTACCAAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
26574677 TAAAATTACCAAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
* * * * *
26574704 TGAAATTATCGAAATAACCTCAAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
* * * *
26574731 TAAAATTATCGATATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
*** *
26574758 TAAAATTATTGAAATACCCTC-AATAGG
1 TAAAATTACCAAAATACCCTCGAA-GGG
* * *
26574785 TAAAATGACCAAAATATCCTTGATA-GG
1 TAAAATTACCAAAATACCCTCGA-AGGG
26574812 TAAAAT
1 TAAAAT
26574818 GATAGAATTA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 117 0.97
28 1 0.01
29 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGAAGGG
Found at i:26574719 original size:54 final size:53
Alignment explanation
Indices: 26574634--26574800 Score: 181
Period size: 54 Copynumber: 3.1 Consensus size: 53
26574624 AGAATGACTC
* * * * *
26574634 AAATACCCTTAAAAGATAAAATTACCAAAATACCCTCGAAGGGTAAAATTACCA
1 AAATACCCTCAAAGGGTAAAATTATCGAAATACCCTC-AAGGGTAAAATTACCA
* * * * *
26574688 AAATACCCTCGAAGGGTGAAATTATCGAAATAACCTCAAAGGGTAAAATTATCG
1 AAATACCCTCAAAGGGTAAAATTATCGAAATACCCTC-AAGGGTAAAATTACCA
* * * *
26574742 ATATACCCTCAAAGGGTAAAATTATTGAAATACCCTCAATAGGTAAAATGACCA
1 AAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCAA-GGGTAAAATTACCA
26574796 AAATA
1 AAATA
26574801 TCCTTGATAG
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.02
54 89 0.98
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.22
Consensus pattern (53 bp):
AAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCAAGGGTAAAATTACCA
Found at i:26574814 original size:54 final size:53
Alignment explanation
Indices: 26574661--26574848 Score: 157
Period size: 54 Copynumber: 3.5 Consensus size: 53
26574651 AAAATTACCA
* * * * *
26574661 AAATACCCTCGAAGGGTAAAATTACCAAAATACCCTCGAAGGGTGAAATTATCG
1 AAATACCCTCAAAGGGTAAAATGACCAAAATA-CCTTGAAGGGTAAAATTATAG
* * * * * ** *
26574715 AAATAACCTCAAAGGGTAAAATTATCGATATACCCTCAAAGGGTAAAATTATTG
1 AAATACCCTCAAAGGGTAAAATGACCAAAATA-CCTTGAAGGGTAAAATTATAG
*
26574769 AAATACCCTCAATA-GGTAAAATGACCAAAATATCCTTGATA-GGTAAAATGATAG
1 AAATACCCTCAA-AGGGTAAAATGACCAAAATA-CCTTGA-AGGGTAAAATTATAG
* *
26574823 AATTACCC-CTATAGGGTAAAATGACC
1 AAATACCCTC-AAAGGGTAAAATGACC
26574849 GTAATGCCCC
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.02
54 106 0.96
55 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (53 bp):
AAATACCCTCAAAGGGTAAAATGACCAAAATACCTTGAAGGGTAAAATTATAG
Found at i:26574974 original size:24 final size:23
Alignment explanation
Indices: 26574917--26574966 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
26574907 CCTGATGTAA
26574917 ATGACTGATTTGTCTGGGATTGGT
1 ATGACTGATTTGTCTGGGATT-GT
*
26574941 ATGACTGATTTGTCTGTGATT-T
1 ATGACTGATTTGTCTGGGATTGT
26574963 ATGA
1 ATGA
26574967 GACTGATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
24 20 0.80
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (23 bp):
ATGACTGATTTGTCTGGGATTGT
Found at i:26581681 original size:19 final size:20
Alignment explanation
Indices: 26581657--26581698 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
26581647 AAAACATGGG
26581657 AAAGAAAACTATGTAA-CAT
1 AAAGAAAACTATGTAAGCAT
26581676 AAAGAAAACTATGTAAGCAT
1 AAAGAAAACTATGTAAGCAT
26581696 AAA
1 AAA
26581699 ATGCTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.19
Consensus pattern (20 bp):
AAAGAAAACTATGTAAGCAT
Found at i:26611859 original size:50 final size:50
Alignment explanation
Indices: 26611618--26611859 Score: 238
Period size: 50 Copynumber: 4.9 Consensus size: 50
26611608 GATAATAACA
** * * *
26611618 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTTTGTAC--
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCT-CGG
* * * * * *** ** * *
26611667 TGCCAATGTCATATCCCATATATGGTCTTACATAATAGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
26611717 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTTATCTCGG
* *
26611767 TGCCAAAGCAATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
26611817 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
26611860 TACCCAAATG
Statistics
Matches: 156, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 120 0.77
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:26614472 original size:21 final size:21
Alignment explanation
Indices: 26614448--26614489 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26614438 CAAAACATGA
26614448 GTTGAAATAAACAGATATAAT
1 GTTGAAATAAACAGATATAAT
* *
26614469 GTTGAAATAAATAGATTTAAT
1 GTTGAAATAAACAGATATAAT
26614490 TTTAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.33
Consensus pattern (21 bp):
GTTGAAATAAACAGATATAAT
Found at i:26614497 original size:21 final size:21
Alignment explanation
Indices: 26614452--26614497 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
26614442 ACATGAGTTG
*
26614452 AAATAAACAGATATAATGTTG
1 AAATAAACAGATATAATGTTA
* * *
26614473 AAATAAATAGATTTAATTTTA
1 AAATAAACAGATATAATGTTA
26614494 AAAT
1 AAAT
26614498 CATGTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (21 bp):
AAATAAACAGATATAATGTTA
Found at i:26615187 original size:22 final size:22
Alignment explanation
Indices: 26615160--26615211 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
26615150 GGACATGCCA
26615160 CCACTGATTTATAGATAAACTG
1 CCACTGATTTATAGATAAACTG
*
26615182 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTATAGATAAACTG
26615204 CCACTGAT
1 CCACTGAT
26615212 AACACTGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (22 bp):
CCACTGATTTATAGATAAACTG
Found at i:26623595 original size:40 final size:40
Alignment explanation
Indices: 26623546--26623731 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
26623536 TACTGGAGAT
* *
26623546 AAACAGGGGCACGGGA-GTGCATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCAC-GTATGTGCATTCAGGGGTACCGAAGTAC
* * *
26623586 AAATAGGGGCACGTATGTGCATTTAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
* *
26623626 AAACAAGGGCACATATGTGCATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
*
26623666 AAACAGGGGCACGCATGTGCATTCAGGGGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGCATTCA-GGGGTACCGAAGTAC
*
26623707 AAATAGGGGCACGTATGTGCATTCA
1 AAACAGGGGCACGTATGTGCATTCA
26623732 TTCTATAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.02
40 89 0.69
41 38 0.29
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (40 bp):
AAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTAC
Found at i:26623674 original size:20 final size:20
Alignment explanation
Indices: 26623649--26623715 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
26623639 TATGTGCATT
26623649 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * **
26623669 CAGGGGCA-CGCATGTGCATT
1 CAGGGGTACCG-AAGTACAAA
26623689 CAGGGGGTACCGAAGTACAAA
1 CA-GGGGTACCGAAGTACAAA
*
26623710 TAGGGG
1 CAGGGG
26623716 CACGTATGTG
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.55
21 11 0.33
22 2 0.06
ACGTcount: A:0.31, C:0.19, G:0.36, T:0.13
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:26626528 original size:14 final size:15
Alignment explanation
Indices: 26626506--26626538 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
26626496 TCCTTGTAAT
*
26626506 GCCTCGAAAT-TTGG
1 GCCTAGAAATATTGG
26626520 GCCTAGAAATATTGG
1 GCCTAGAAATATTGG
26626535 GCCT
1 GCCT
26626539 TGAGCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (15 bp):
GCCTAGAAATATTGG
Found at i:26627351 original size:14 final size:15
Alignment explanation
Indices: 26627315--26627355 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
26627305 GAATATTTAC
26627315 ATAAAAATTAAACTAA
1 ATAAAAA-TAAACTAA
*
26627331 GTAAAAATAAA-TAA
1 ATAAAAATAAACTAA
26627345 ATAAAAATAAA
1 ATAAAAATAAA
26627356 AATAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 4 0.17
16 6 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
ATAAAAATAAACTAA
Found at i:26627885 original size:25 final size:25
Alignment explanation
Indices: 26627857--26627910 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
26627847 TGTAGTGGAA
*
26627857 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGACGACACAGGTGTGGCAAGG
* *
26627882 AGGTGACGTCACAGGTGTGGTAAGG
1 AGGTGACGACACAGGTGTGGCAAGG
26627907 AGGT
1 AGGT
26627911 CAAAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.13, G:0.46, T:0.17
Consensus pattern (25 bp):
AGGTGACGACACAGGTGTGGCAAGG
Found at i:26629214 original size:17 final size:18
Alignment explanation
Indices: 26629182--26629216 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26629172 AATGGACTAG
26629182 AATGGGCTGAGTGGGCCC
1 AATGGGCTGAGTGGGCCC
*
26629200 AATGGGCT-CGTGGGCCC
1 AATGGGCTGAGTGGGCCC
26629217 TACGTGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.26, G:0.43, T:0.17
Consensus pattern (18 bp):
AATGGGCTGAGTGGGCCC
Found at i:26629462 original size:27 final size:27
Alignment explanation
Indices: 26629432--26629599 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
26629422 CCTTAAAAGA
26629432 TAAAATTACCAAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
26629459 TAAAATTACCAAAATACCCTCGAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
* * * *
26629486 TGAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
* * *
26629513 TAAAATTATCAATATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCGAAGGG
* ***
26629540 TGAAATTATTGAAATACCCTCGATA-GG
1 TAAAATTACCAAAATACCCTCGA-AGGG
* * * *
26629567 TAAAATGACCGAAATATCCTTGATA-GG
1 TAAAATTACCAAAATACCCTCGA-AGGG
26629594 TAAAAT
1 TAAAAT
26629600 GAACGAATTA
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 121 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGAAGGG
Found at i:26629501 original size:54 final size:54
Alignment explanation
Indices: 26629416--26629582 Score: 201
Period size: 54 Copynumber: 3.1 Consensus size: 54
26629406 AGAATGACCG
* * * * * *
26629416 AAATACCCTTAAAAGATAAAATTACCAAAATACCCTCGAAGGGTAAAATTACCA
1 AAATACCCTCAAAGGGTGAAATTATCGAAATACCCTCGAAGGGTAAAATTACCA
* * *
26629470 AAATACCCTCGAAGGGTGAAATTATCGAAATACCCTCAAAGGGTAAAATTATCA
1 AAATACCCTCAAAGGGTGAAATTATCGAAATACCCTCGAAGGGTAAAATTACCA
* * * *
26629524 ATATACCCTCAAAGGGTGAAATTATTGAAATACCCTCGATA-GGTAAAATGACCG
1 AAATACCCTCAAAGGGTGAAATTATCGAAATACCCTCGA-AGGGTAAAATTACCA
26629578 AAATA
1 AAATA
26629583 TCCTTGATAG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 94 0.99
55 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (54 bp):
AAATACCCTCAAAGGGTGAAATTATCGAAATACCCTCGAAGGGTAAAATTACCA
Found at i:26629580 original size:81 final size:81
Alignment explanation
Indices: 26629408--26629582 Score: 217
Period size: 81 Copynumber: 2.2 Consensus size: 81
26629398 ATGTTATTAG
* *
26629408 AATGACCGAAATACCCTTAAAAGATAAAATTACCAAAATACCCTCGAAGGGTAAAATTACCAAAA
1 AATGACCGAAATACCCTCAAAAGATAAAATTACCAAAATACCCTCAAAGGGTAAAATTACCAAAA
*
26629473 TACCCTCGAAGGGTGA
66 TACCCTCGAAGGGTAA
* * * * * * * ***
26629489 AATTATCGAAATACCCTCAAAGGGTAAAATTATCAATATACCCTCAAAGGGTGAAATTATTGAAA
1 AATGACCGAAATACCCTCAAAAGATAAAATTACCAAAATACCCTCAAAGGGTAAAATTACCAAAA
26629554 TACCCTCGATA-GGTAA
66 TACCCTCGA-AGGGTAA
26629570 AATGACCGAAATA
1 AATGACCGAAATA
26629583 TCCTTGATAG
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 77 0.99
82 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
AATGACCGAAATACCCTCAAAAGATAAAATTACCAAAATACCCTCAAAGGGTAAAATTACCAAAA
TACCCTCGAAGGGTAA
Found at i:26629600 original size:27 final size:27
Alignment explanation
Indices: 26629408--26629631 Score: 109
Period size: 27 Copynumber: 8.3 Consensus size: 27
26629398 ATGTTATTAG
* * *
26629408 AATGACCGAAATACCCTTAAAAGATAA
1 AATGACCGAAATACCCTTGATAGGTAA
* * *
26629435 AATTACCAAAATACCCTCGA-AGGGTAA
1 AATGACCGAAATACCCTTGATA-GGTAA
* * * *
26629462 AATTACCAAAATACCCTCGA-AGGGTGA
1 AATGACCGAAATACCCTTGATA-GGTAA
* * * *
26629489 AATTATCGAAATACCC-TCAAAGGGTAA
1 AATGACCGAAATACCCTTGATA-GGTAA
* * * * *
26629516 AATTATC-AATATACCC-TCAAAGGGTGA
1 AATGACCGAA-ATACCCTTGATA-GGTAA
* ** *
26629543 AATTATTGAAATACCCTCGATAGGTAA
1 AATGACCGAAATACCCTTGATAGGTAA
*
26629570 AATGACCGAAATATCCTTGATAGGTAA
1 AATGACCGAAATACCCTTGATAGGTAA
* * *
26629597 AATGAACGAATTACCCCTG-TAGGGTAA
1 AATGACCGAAATACCCTTGATA-GGTAA
26629624 AATGACCG
1 AATGACCG
26629632 TAATGCCCCT
Statistics
Matches: 164, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.04
27 154 0.94
28 4 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
AATGACCGAAATACCCTTGATAGGTAA
Found at i:26629612 original size:81 final size:79
Alignment explanation
Indices: 26629408--26629612 Score: 187
Period size: 81 Copynumber: 2.5 Consensus size: 79
26629398 ATGTTATTAG
* * * *
26629408 AATGACCGAAATACCCTTAAAAGATAAAATTACCAAAATACCCTCGAAGGGTAAAATTACCAAAA
1 AATGACCGAAATA-CCTTAAAAGGTAAAATTAAC-AATTACCCTCAAAGGGTAAAATTACCAAAA
*
26629473 TACCCTCGAAGGGTGA
64 TACCCTCGAAGGGTAA
* * * * * * ***
26629489 AATTATCGAAATACCCTCAAAGGGTAAAATTATCAATATACCCTCAAAGGGTGAAATTATTGAAA
1 AATGACCGAAATA-CCTTAAAAGGTAAAATTAACAAT-TACCCTCAAAGGGTAAAATTACCAAAA
26629554 TACCCTCGATA-GGTAA
64 TACCCTCGA-AGGGTAA
* * *
26629570 AATGACCGAAATATCCTTGATAGGTAAAATGAACGAATTACCC
1 AATGACCGAAATA-CCTTAAAAGGTAAAATTAAC-AATTACCC
26629613 CTGTAGGGTA
Statistics
Matches: 99, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
80 2 0.02
81 93 0.94
82 4 0.04
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.22
Consensus pattern (79 bp):
AATGACCGAAATACCTTAAAAGGTAAAATTAACAATTACCCTCAAAGGGTAAAATTACCAAAATA
CCCTCGAAGGGTAA
Found at i:26629640 original size:27 final size:26
Alignment explanation
Indices: 26629565--26629651 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
26629555 ACCCTCGATA
* *
26629565 GGTAAAATGACCGAAATATCCTTGATA-
1 GGTAAAATGACCG-AATACCCCTG-TAG
*
26629592 GGTAAAATGAACGAATTACCCCTGTAG
1 GGTAAAATGACCGAA-TACCCCTGTAG
* **
26629619 GGTAAAATGACCGTAATGCCCCTAAAG
1 GGTAAAATGACCG-AATACCCCTGTAG
26629646 GGTAAA
1 GGTAAA
26629652 TGATTTTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 4 0.08
27 44 0.88
28 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (26 bp):
GGTAAAATGACCGAATACCCCTGTAG
Found at i:26629757 original size:24 final size:23
Alignment explanation
Indices: 26629700--26629749 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
26629690 CGTGATGTAA
26629700 ATGACTGATTTGTCTGGGATTGGT
1 ATGACTGATTTGTCTGGGATT-GT
*
26629724 ATGACTGATTTGTCTGTGATT-T
1 ATGACTGATTTGTCTGGGATTGT
26629746 ATGA
1 ATGA
26629750 GACTGATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.20
24 20 0.80
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (23 bp):
ATGACTGATTTGTCTGGGATTGT
Found at i:26630939 original size:13 final size:13
Alignment explanation
Indices: 26630921--26630950 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
26630911 GAACTCTTCA
26630921 AGCTTAAGTAATC
1 AGCTTAAGTAATC
*
26630934 AGCTTAATTAATC
1 AGCTTAAGTAATC
26630947 AGCT
1 AGCT
26630951 GAATTGGAGC
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:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
AGCTTAAGTAATC
Done.