Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 91
Found at i:2984187 original size:41 final size:41
Alignment explanation
Indices: 2984122--2984315 Score: 169
Period size: 41 Copynumber: 4.7 Consensus size: 41
2984112 TATCCAAAAC
* * * * * *
2984122 TTGCAGCGTTTGTATTTAAAACGCCACTACTTCACTAACTTA
1 TTGCGGCGTTTGT-TTAAAAACGCCGCTAATTCACTGATTTA
** * *
2984164 TTGCGGCGTTTGTTTAAAAACGCCGCTAATGGACCGATTTC
1 TTGCGGCGTTTGTTTAAAAACGCCGCTAATTCACTGATTTA
* *
2984205 TTGCGGCGTTTTTTTAAAAACGCCGCTAATGTTACT-A-TT-
1 TTGCGGCGTTTGTTTAAAAACGCCGCTAAT-TCACTGATTTA
* *
2984244 TTGTGGCGTTTGTATTTAAAAACGCTGCTAATTCACTGATTTA
1 TTGCGGCGTTTG--TTTAAAAACGCCGCTAATTCACTGATTTA
* ** *
2984287 TTGCGGCATTTGTAGAAAAATGCCGCTAA
1 TTGCGGCGTTTGTTTAAAAACGCCGCTAA
2984316 AGTACTACGT
Statistics
Matches: 122, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
39 10 0.08
40 6 0.05
41 80 0.66
42 16 0.13
43 10 0.08
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
TTGCGGCGTTTGTTTAAAAACGCCGCTAATTCACTGATTTA
Found at i:2984581 original size:41 final size:41
Alignment explanation
Indices: 2984446--2984608 Score: 143
Period size: 42 Copynumber: 3.9 Consensus size: 41
2984436 TGAACAAACC
* * * *
2984446 CTATTGCGACGTTTGTATAAAAATTCACTGCTAAAGTACTAAT
1 CTATAGCGGCGTTTGTATAAAAA--CGCCGCTAAAGTACTAAT
* * * *
2984489 CTATCGCTGCGTTTGTTAGAAAAACGCCACTATAA--AC-AAT
1 CTATAGCGGCGTTTG-TATAAAAACGCCGCTA-AAGTACTAAT
* *
2984529 CCCTATTGCGGCATTTGTATAAAAACGCCGCTAAAGTACTAAT
1 --CTATAGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTAAT
*
2984572 CTATAGCGGCGTTTGTTTAAGAAACGCCGCTAAAGTA
1 CTATAGCGGCGTTTGTATAA-AAACGCCGCTAAAGTA
2984609 TCATTTTGTG
Statistics
Matches: 97, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
40 5 0.05
41 33 0.34
42 35 0.36
43 17 0.18
44 7 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (41 bp):
CTATAGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTAAT
Found at i:2984595 original size:85 final size:82
Alignment explanation
Indices: 2984354--2984588 Score: 267
Period size: 85 Copynumber: 2.8 Consensus size: 82
2984344 ATAAACGCCG
* * * * * * *
2984354 ATAAAGAACCCTATTGCGGTGTTTATATAAAAACGCTACTAAAGTACT-CTTTATTA-CGACGTT
1 ATAAACAACCCTATTGCGGCGTTTGTATAAAAACGCTGCTAAAGTACTAATCTA-TAGCGGCGTT
* *
2984417 TGTTGGAAAAATGCCACT
65 TGTTAGAAAAACGCCACT
* * * * *
2984435 ATGAACAAACCCTATTGCGACGTTTGTATAAAAATTCACTGCTAAAGTACTAATCTATCGCTGCG
1 ATAAAC-AACCCTATTGCGGCGTTTGTATAAAAA--CGCTGCTAAAGTACTAATCTATAGCGGCG
2984500 TTTGTTAGAAAAACGCCACT
63 TTTGTTAGAAAAACGCCACT
* *
2984520 ATAAACAATCCCTATTGCGGCATTTGTATAAAAACGCCGCTAAAGTACTAATCTATAGCGGCGTT
1 ATAAACAA-CCCTATTGCGGCGTTTGTATAAAAACGCTGCTAAAGTACTAATCTATAGCGGCGTT
2984585 TGTT
65 TGTT
2984589 TAAGAAACGC
Statistics
Matches: 127, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
81 4 0.03
82 24 0.19
83 31 0.24
84 16 0.13
85 52 0.41
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (82 bp):
ATAAACAACCCTATTGCGGCGTTTGTATAAAAACGCTGCTAAAGTACTAATCTATAGCGGCGTTT
GTTAGAAAAACGCCACT
Found at i:2986108 original size:21 final size:20
Alignment explanation
Indices: 2986069--2986108 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2986059 CAACTTACAA
*
2986069 TGCATTATGAACCATTATTT
1 TGCATTATCAACCATTATTT
*
2986089 TGCATTATACAACTATTATT
1 TGCATTAT-CAACCATTATT
2986109 AGTTGCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (20 bp):
TGCATTATCAACCATTATTT
Found at i:2986136 original size:20 final size:20
Alignment explanation
Indices: 2986111--2986148 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2986101 CTATTATTAG
2986111 TTGCATGACAACTAATAATT
1 TTGCATGACAACTAATAATT
2986131 TTGCATGACAACTAATAA
1 TTGCATGACAACTAATAA
2986149 CACTTTGTTA
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:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
TTGCATGACAACTAATAATT
Found at i:2989998 original size:30 final size:30
Alignment explanation
Indices: 2989946--2990054 Score: 98
Period size: 30 Copynumber: 3.6 Consensus size: 30
2989936 CCCCATGAAT
* *
2989946 ACAAACCAAAGAAAGA-AGAAACCCACCACA
1 ACAAACCAAAGAAA-ACAAAAACCCATCACA
2989976 ACAAACCAAAGAAAACAAAAACCC-TCACA
1 ACAAACCAAAGAAAACAAAAACCCATCACA
** * * *
2990005 GTAGAAGCAAAGGAAACAAAAGCCCATCACA
1 ACA-AACCAAAGAAAACAAAAACCCATCACA
*
2990036 ACAAAAACAAAG-AAACAAA
1 AC-AAACCAAAGAAAACAAA
2990055 TATAGGGGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.09
30 46 0.71
31 12 0.18
32 1 0.02
ACGTcount: A:0.61, C:0.26, G:0.10, T:0.03
Consensus pattern (30 bp):
ACAAACCAAAGAAAACAAAAACCCATCACA
Found at i:2990358 original size:22 final size:22
Alignment explanation
Indices: 2990332--2990377 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
2990322 ATTGGTTTAA
*
2990332 TTATAAATTTAGTCCTTTAACT
1 TTATAAATTTAGTCCTTCAACT
2990354 TTATAAATTTAGTCCTTCAACT
1 TTATAAATTTAGTCCTTCAACT
2990376 TT
1 TT
2990378 GAAGTATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.50
Consensus pattern (22 bp):
TTATAAATTTAGTCCTTCAACT
Found at i:2995907 original size:120 final size:120
Alignment explanation
Indices: 2995694--2995932 Score: 451
Period size: 120 Copynumber: 2.0 Consensus size: 120
2995684 TTTCCAGTAT
* *
2995694 CTGCAGAGTTTTCATCCAAATTCACAGAAACACCCTGAATATCTTCAGAGAGAGCTTTAATGATT
1 CTGCAGAGTTATCATCCAAATTCACAGAAACACCCTGAATATCTTCAAAGAGAGCTTTAATGATT
*
2995759 GGAGAGACACACCCTAAAACAGACTCAGATTTGGTCACATCACTCTTCAGATGCG
66 GGAGACACACACCCTAAAACAGACTCAGATTTGGTCACATCACTCTTCAGATGCG
2995814 CTGCAGAGTTATCATCCAAATTCACAGAAACACCCTGAATATCTTCAAAGAGAGCTTTAATGATT
1 CTGCAGAGTTATCATCCAAATTCACAGAAACACCCTGAATATCTTCAAAGAGAGCTTTAATGATT
2995879 GGAGACACACACCCTAAAACAGACTCAGATTTGGTCACATCACTCTTCAGATGC
66 GGAGACACACACCCTAAAACAGACTCAGATTTGGTCACATCACTCTTCAGATGC
2995933 TCTTTATTTA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (120 bp):
CTGCAGAGTTATCATCCAAATTCACAGAAACACCCTGAATATCTTCAAAGAGAGCTTTAATGATT
GGAGACACACACCCTAAAACAGACTCAGATTTGGTCACATCACTCTTCAGATGCG
Found at i:3000708 original size:24 final size:25
Alignment explanation
Indices: 3000680--3000733 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
3000670 CATTATACTG
3000680 CTTCAAACTGATGTCAGAACTTGAA
1 CTTCAAACTGATGTCAGAACTTGAA
3000705 -TTCAAACTGATGTCAGAACTTGAA
1 CTTCAAACTGATGTCAGAACTTGAA
3000729 CTTCA
1 CTTCA
3000734 TCAAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (25 bp):
CTTCAAACTGATGTCAGAACTTGAA
Found at i:3003865 original size:20 final size:20
Alignment explanation
Indices: 3003832--3003934 Score: 89
Period size: 20 Copynumber: 5.1 Consensus size: 20
3003822 ATGAGAATAT
**
3003832 AACAGGTTGAAATTTGACAA
1 AACAGGTTTCAATTTGACAA
* *
3003852 ATCCGGTTTCAATTTGACAA
1 AACAGGTTTCAATTTGACAA
* **
3003872 AAGAGGTAACGAATTTGACAA
1 AACAGGTTTC-AATTTGACAA
* **
3003893 AACCGGTTGAAATTTGACAA
1 AACAGGTTTCAATTTGACAA
* *
3003913 AATAGGTTTCAATTTGAGAA
1 AACAGGTTTCAATTTGACAA
3003933 AA
1 AA
3003935 TCGGTAAAGA
Statistics
Matches: 63, Mismatches: 19, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
20 48 0.76
21 15 0.24
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (20 bp):
AACAGGTTTCAATTTGACAA
Found at i:3003899 original size:41 final size:41
Alignment explanation
Indices: 3003842--3003919 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
3003832 AACAGGTTGA
* **
3003842 AATTTGACAAATCCGGTTTCAATTTGACAAAAGAGGTAACG
1 AATTTGACAAAACCGGTTGAAATTTGACAAAAGAGGTAACG
*
3003883 AATTTGACAAAACCGGTTGAAATTTGACAAAATAGGT
1 AATTTGACAAAACCGGTTGAAATTTGACAAAAGAGGT
3003920 TTCAATTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (41 bp):
AATTTGACAAAACCGGTTGAAATTTGACAAAAGAGGTAACG
Found at i:3005408 original size:16 final size:16
Alignment explanation
Indices: 3005387--3005425 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3005377 CTTGACAGTA
3005387 TGTGTAACAATGTATT
1 TGTGTAACAATGTATT
*
3005403 TGTGTATCAATGTATT
1 TGTGTAACAATGTATT
*
3005419 TGAGTAA
1 TGTGTAA
3005426 TTTTTGTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (16 bp):
TGTGTAACAATGTATT
Found at i:3005628 original size:280 final size:280
Alignment explanation
Indices: 3005126--3005657 Score: 1010
Period size: 280 Copynumber: 1.9 Consensus size: 280
3005116 CTTCTAGTAA
*
3005126 GTATCAATGTATTTGTGTAATTTTTGTTGAAATGATAATTGAAATAAAGTATTTAAGAACTTTAA
1 GTATCAATGTATTTGAGTAATTTTTGTTGAAATGATAATTGAAATAAAGTATTTAAGAACTTTAA
3005191 ATTGATTACAAATTTCAAATCTTGACAGTATGTGTAACACCCCCATCCCGCATCCGACCCGGATA
66 ATTGATTACAAATTTCAAATCTTGACAGTATGTGTAACACCCCCATCCCGCATCCGACCCGGATA
*
3005256 TGAATATGAGGTGTCACATTGACTTTTCAAAATCATTTTCTTTTATAATATCATTGAAAATACAA
131 TGAATATGAGGTGTCACATTAACTTTTCAAAATCATTTTCTTTTATAATATCATTGAAAATACAA
*
3005321 TTTTATATTAAAATAAAACTGAATAATTTACATAATTACAAAAAAAAATTACAAAACTTGACAGT
196 TTTTATATTAAAATAAAACTAAATAATTTACATAATTACAAAAAAAAATTACAAAACTTGACAGT
3005386 ATGTGTAACAATGTATTTGT
261 ATGTGTAACAATGTATTTGT
*
3005406 GTATCAATGTATTTGAGTAATTTTTGTTGAAATGATAATTGAAATAAAGTATTTAAGAATTTTAA
1 GTATCAATGTATTTGAGTAATTTTTGTTGAAATGATAATTGAAATAAAGTATTTAAGAACTTTAA
*
3005471 ATTGATTACGAATTTCAAATCTTGACAGTATGTGTAACACCCCCATCCCGCATCCGACCCGGATA
66 ATTGATTACAAATTTCAAATCTTGACAGTATGTGTAACACCCCCATCCCGCATCCGACCCGGATA
*
3005536 TGAATCTGAGGTGTCACATTAACTTTTCAAAATCATTTTCTTTTATAATATCATTGAAAATACAA
131 TGAATATGAGGTGTCACATTAACTTTTCAAAATCATTTTCTTTTATAATATCATTGAAAATACAA
3005601 TTTTATATTAAAATAAAACTAAATAATTTACATAATTACAAAAAAAAATTACAAAAC
196 TTTTATATTAAAATAAAACTAAATAATTTACATAATTACAAAAAAAAATTACAAAAC
3005658 CAATCAGAGC
Statistics
Matches: 246, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
280 246 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (280 bp):
GTATCAATGTATTTGAGTAATTTTTGTTGAAATGATAATTGAAATAAAGTATTTAAGAACTTTAA
ATTGATTACAAATTTCAAATCTTGACAGTATGTGTAACACCCCCATCCCGCATCCGACCCGGATA
TGAATATGAGGTGTCACATTAACTTTTCAAAATCATTTTCTTTTATAATATCATTGAAAATACAA
TTTTATATTAAAATAAAACTAAATAATTTACATAATTACAAAAAAAAATTACAAAACTTGACAGT
ATGTGTAACAATGTATTTGT
Found at i:3005931 original size:23 final size:23
Alignment explanation
Indices: 3005878--3005924 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
3005868 GAACTAATGA
* * *
3005878 AACATGCAATTACTTACTTTCAT
1 AACATACAGTTACATACTTTCAT
3005901 AACATACAGTTACATACTTTCAT
1 AACATACAGTTACATACTTTCAT
3005924 A
1 A
3005925 TCTTACATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
AACATACAGTTACATACTTTCAT
Found at i:3006193 original size:23 final size:23
Alignment explanation
Indices: 3006134--3006227 Score: 90
Period size: 21 Copynumber: 4.3 Consensus size: 23
3006124 TGAGTGCCAT
3006134 ATAGAATTGTCCCGAAGGACCAC
1 ATAGAATTGTCCCGAAGGACCAC
* *
3006157 ATA-TA-TGTCCCGAAGGACCTC
1 ATAGAATTGTCCCGAAGGACCAC
* *
3006178 GTAGAATTGTCTCGAAGGAACC-C
1 ATAGAATTGTCCCGAAGG-ACCAC
* *
3006201 ATA-TA-TGTCCCGAAGGACCGC
1 ATAGAATTGTCCCGAAGGACCAC
3006222 ATAGAA
1 ATAGAA
3006228 CCCTCAACTT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 3 0.05
21 31 0.54
22 4 0.07
23 16 0.28
24 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.20
Consensus pattern (23 bp):
ATAGAATTGTCCCGAAGGACCAC
Found at i:3006204 original size:44 final size:44
Alignment explanation
Indices: 3006135--3006219 Score: 145
Period size: 44 Copynumber: 1.9 Consensus size: 44
3006125 GAGTGCCATA
3006135 TAGAATTGTCCCGAAGGACCACATATATGTCCCGAAGGACCTCG
1 TAGAATTGTCCCGAAGGACCACATATATGTCCCGAAGGACCTCG
*
3006179 TAGAATTGTCTCGAAGGAACC-CATATATGTCCCGAAGGACC
1 TAGAATTGTCCCGAAGG-ACCACATATATGTCCCGAAGGACC
3006220 GCATAGAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (44 bp):
TAGAATTGTCCCGAAGGACCACATATATGTCCCGAAGGACCTCG
Found at i:3009589 original size:20 final size:20
Alignment explanation
Indices: 3009543--3009612 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
3009533 AAAATGTTGT
**
3009543 TATGAATAGTAATG-TACTG
1 TATGAATAGTACCGATACTG
* *
3009562 TATCAATAGTACCGATATTG
1 TATGAATAGTACCGATACTG
3009582 TATGAATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
* *
3009602 TGTGAACAGTA
1 TATGAATAGTA
3009613 ATGAACATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:3011171 original size:17 final size:17
Alignment explanation
Indices: 3011138--3011172 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3011128 TGTTGAAGGA
* *
3011138 AGAAGAAAAAGACGAAG
1 AGAAGAAAAACAAGAAG
3011155 AGAAGAAAAACAAGAAG
1 AGAAGAAAAACAAGAAG
3011172 A
1 A
3011173 ATAAGGGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.26, T:0.00
Consensus pattern (17 bp):
AGAAGAAAAACAAGAAG
Found at i:3013037 original size:20 final size:20
Alignment explanation
Indices: 3012995--3013042 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
3012985 AATACTGTAT
* * *
3012995 TGTATGAATATTATCGATAC
1 TGTATGAATAGTACCGAGAC
*
3013015 TGTATGAATAGTACCGAGGC
1 TGTATGAATAGTACCGAGAC
*
3013035 TGTGTGAA
1 TGTATGAA
3013043 CATTAATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (20 bp):
TGTATGAATAGTACCGAGAC
Found at i:3018529 original size:199 final size:200
Alignment explanation
Indices: 3018181--3018609 Score: 589
Period size: 199 Copynumber: 2.1 Consensus size: 200
3018171 TTAAAGTAAT
* * * *
3018181 AGGCGCAAACATA-ATGTATCGATACTTATTATATAAGTATCGATACTTTTTTTACAGTATGCAT
1 AGGCGTAAACATAGA-GTATCAATACTTTTTATATAAGTATCGATACTTTTTTTA-AGTATACAT
3018245 CTCAAACAATTTGCACGTAAAAAAGTATCGATACATGTACAACAAGTATCGATACTTATAATTTC
64 CTCAAACAATTTGCACGTAAAAAAGTATCGATACATGTACAACAAGTATCGATACTTATAATTTC
* *
3018310 GAAACCAGTTACTTTAAAGTTATAGGTAAATCCACAATGTCAACGGTAAAAGTATA-CAGATTTA
129 GAAACCAATTACTTTAAAGTTATAGGTAAATCCACAATGCCAACGGTAAAAGTATATCAG-TTTA
3018374 ATGATAAA
193 ATGATAAA
* * * * *
3018382 AGGCGTAAACATAGAGTATCTATATTTTTTGTATAGGTATCGATACTTTTAGTTT-AGTATACTT
1 AGGCGTAAACATAGAGTATCAATACTTTTTATATAAGTATCGATACTTTT--TTTAAGTATACAT
* * * *
3018446 CTC-AACAATTTGCA-TTCACAAAGTATCGATACATGTATAACAAGTATCGATACTTATAATTTC
64 CTCAAACAATTTGCACGTAAAAAAGTATCGATACATGTACAACAAGTATCGATACTTATAATTTC
* * *
3018509 GAAACCAATTACTTTAAAGTTATAGGTAAATTCACAATGCCAATGGTAAAAGTCTATCAGTTTAA
129 GAAACCAATTACTTTAAAGTTATAGGTAAATCCACAATGCCAACGGTAAAAGTATATCAGTTTAA
*
3018574 TGATAAT
194 TGATAAA
* *
3018581 AGGCATAAATATAGAGTATCAATACTTTT
1 AGGCGTAAACATAGAGTATCAATACTTTT
3018610 AGTCCAATAT
Statistics
Matches: 202, Mismatches: 22, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
199 132 0.65
200 14 0.07
201 52 0.26
202 1 0.00
203 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (200 bp):
AGGCGTAAACATAGAGTATCAATACTTTTTATATAAGTATCGATACTTTTTTTAAGTATACATCT
CAAACAATTTGCACGTAAAAAAGTATCGATACATGTACAACAAGTATCGATACTTATAATTTCGA
AACCAATTACTTTAAAGTTATAGGTAAATCCACAATGCCAACGGTAAAAGTATATCAGTTTAATG
ATAAA
Found at i:3021400 original size:21 final size:21
Alignment explanation
Indices: 3021365--3021452 Score: 95
Period size: 21 Copynumber: 4.2 Consensus size: 21
3021355 GGTTCTACGC
*
3021365 GGTCCTTCGGGACATATATAT
1 GGTCCTTCGGAACATATATAT
* * **
3021386 GATCCTTTGGAACATATATGC
1 GGTCCTTCGGAACATATATAT
* * *
3021407 GGTCCTTCGGGACAAATATTT
1 GGTCCTTCGGAACATATATAT
*
3021428 GGTCCTTTGGAACATATATAT
1 GGTCCTTCGGAACATATATAT
3021449 GGTC
1 GGTC
3021453 ATATTGGATA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (21 bp):
GGTCCTTCGGAACATATATAT
Found at i:3021434 original size:42 final size:42
Alignment explanation
Indices: 3021363--3021446 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
3021353 AGGGTTCTAC
*
3021363 GCGGTCCTTCGGGACATATATATGATCCTTTGGAACATATAT
1 GCGGTCCTTCGGGACAAATATATGATCCTTTGGAACATATAT
* *
3021405 GCGGTCCTTCGGGACAAATATTTGGTCCTTTGGAACATATAT
1 GCGGTCCTTCGGGACAAATATATGATCCTTTGGAACATATAT
3021447 ATGGTCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
GCGGTCCTTCGGGACAAATATATGATCCTTTGGAACATATAT
Found at i:3025025 original size:21 final size:21
Alignment explanation
Indices: 3024995--3025103 Score: 103
Period size: 21 Copynumber: 5.2 Consensus size: 21
3024985 TTCTACGCGG
* *
3024995 TCCTTCGGGAGATATATGTGA
1 TCCTTTGGGACATATATGTGA
3025016 TCCTTTGGGACATATATGTGA
1 TCCTTTGGGACATATATGTGA
* * *
3025037 TCATTTGGAACATATATG-CA
1 TCCTTTGGGACATATATGTGA
* * * *
3025057 GTCCTTCGAGACATATATTTGG
1 -TCCTTTGGGACATATATGTGA
* *
3025079 TCCTTTGGAACATATATGTGG
1 TCCTTTGGGACATATATGTGA
3025100 TCCT
1 TCCT
3025104 ACTGGAAAAT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.01
21 69 0.99
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (21 bp):
TCCTTTGGGACATATATGTGA
Found at i:3025103 original size:42 final size:42
Alignment explanation
Indices: 3025006--3025103 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
3024996 CCTTCGGGAG
* * *
3025006 ATATATGTGATCCTTTGGGACATATATGTGATCATTTGGAAC
1 ATATATGTGGTCCTTCGAGACATATATGTGATCATTTGGAAC
** * * *
3025048 ATATATGCAGTCCTTCGAGACATATATTTGGTCCTTTGGAAC
1 ATATATGTGGTCCTTCGAGACATATATGTGATCATTTGGAAC
3025090 ATATATGTGGTCCT
1 ATATATGTGGTCCT
3025104 ACTGGAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (42 bp):
ATATATGTGGTCCTTCGAGACATATATGTGATCATTTGGAAC
Found at i:3025140 original size:23 final size:23
Alignment explanation
Indices: 3025114--3025181 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
3025104 ACTGGAAAAT
*
3025114 TCTACGTGGTCCTTTC-GGACAAC
1 TCTACGCGGTCC-TTCGGGACAAC
*
3025137 TCTATGCGGTCCTTCGGGACAAC
1 TCTACGCGGTCCTTCGGGACAAC
3025160 TCTACGCGGTCCTTCGGGACAA
1 TCTACGCGGTCCTTCGGGACAA
3025182 TTTTATATGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (23 bp):
TCTACGCGGTCCTTCGGGACAAC
Found at i:3026283 original size:193 final size:196
Alignment explanation
Indices: 3025956--3026567 Score: 704
Period size: 193 Copynumber: 3.1 Consensus size: 196
3025946 CTTTTCGTCC
3025956 AGTATGCTTCTTAACAATTTGCACGCACAAAGTATCGATACATGTATAGCAAGTATCGATACTTA
1 AGTATGCTTCTTAACAATTTGCACGCACAAAGTATCGATACATGTATA-CAAGTATCGA-ACTTA
** * *
3026021 TAATTTCGAAACCAATTACTTTAAAGTTATAGGTAAATTAAAATGTCAACGGTAAAAGTTTATCG
64 TAATTTCGAAACTGATTACTTTAAAGTTATAGGTAAATTAAAATGTCAACGGTAAAAGTCTACCG
*
3026086 GTTTAATGATGATAGGCGTAAACATAGAGTATTGATAATTTTTGTATAGATATCGATACTTTTAC
129 GTTTAATGATAATAGGCGTAAACATAGAGTATTGATAATTTTTGTATAG-TATCGATACTTTTAC
3026151 CCCG
193 CCCG
* * * *
3026155 A-TATGTTTCTTAACAATTTGCACACACAAAGTATTGATACACATGTATA-AAGTATCG-A-TGA
1 AGTATGCTTCTTAACAATTTGCACGCACAAAGTATCGAT--ACATGTATACAAGTATCGAACTTA
*
3026216 -AA-TTCGAAACTGATTACTTTAAAGTTATAGGTAAATTAAAATGTCAACAGTAAAAGTCTACCG
64 TAATTTCGAAACTGATTACTTTAAAGTTATAGGTAAATTAAAATGTCAACGGTAAAAGTCTACCG
* * * * * *
3026279 GTTTAATGATAATAGGCAG-AATCATAAAGTATTTAT-ATTTTCTTTATATGTATTGAAACTTTT
129 GTTTAATGATAATAGGC-GTAAACATAGAGTATTGATAATTTT-TGTATA-GTATCGATACTTTT
***
3026342 -CGTTG
191 ACCCCG
* * * *
3026347 AGTATGCTTCTCAACAATTTGCACGCACAAAATATCGATACATGTATAATAAGTATCGATATTTA
1 AGTATGCTTCTTAACAATTTGCACGCACAAAGTATCGATACATGTAT-ACAAGTATCGA-ACTTA
* * * *
3026412 TAATTTTGAAACTGACTACTTTAAAGTTATAGGTAAATTCACAATGTCAACGGTAAAAGTCCACC
64 TAATTTCGAAACTGATTACTTTAAAGTTATAGGTAAATT-AAAATGTCAACGGTAAAAGTCTACC
* * * * * *
3026477 GGTTTAATGATAATAGACGTAAATATAGAGTATCGACACTTTTTGTATAGTTATCGATATTTTTA
128 GGTTTAATGATAATAGGCGTAAACATAGAGTATTGATAATTTTTGTATAG-TATCGATACTTTTA
** *
3026542 -GTCT
192 CCCCG
*
3026546 AGTATGCTTCTCAAACAATTTG
1 AGTATGCTTCT-TAACAATTTG
3026568 TTCGCAAAAT
Statistics
Matches: 349, Mismatches: 45, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
191 8 0.02
192 9 0.03
193 142 0.41
194 4 0.01
195 3 0.01
196 3 0.01
197 2 0.01
198 77 0.22
199 79 0.23
200 22 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (196 bp):
AGTATGCTTCTTAACAATTTGCACGCACAAAGTATCGATACATGTATACAAGTATCGAACTTATA
ATTTCGAAACTGATTACTTTAAAGTTATAGGTAAATTAAAATGTCAACGGTAAAAGTCTACCGGT
TTAATGATAATAGGCGTAAACATAGAGTATTGATAATTTTTGTATAGTATCGATACTTTTACCCC
G
Found at i:3027302 original size:226 final size:225
Alignment explanation
Indices: 3026902--3027510 Score: 844
Period size: 226 Copynumber: 2.7 Consensus size: 225
3026892 ATGTACACGG
* * **
3026902 TAATATATTGATAATATTGATAACAAATCAAGTAATTAATCTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTTGGATTTCTA
* * * * * *
3026967 AGGCCCATCAGCTTTTAATAGGCACTACTTATTATATTAAATAAGCGCTACTTGTTATGTTATTA
66 AGGCCCATCAACTTTAAAAAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
*
3027032 TGGTTGATAATGTGTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAAGCTCCATCAGC
131 TGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAAGCTCCATCAGC
* *
3027097 TTAAACTTTGGTAACATTTTAGGCGCTACC
196 TTAAAATTTGGTAACACTTTAGGCGCTACC
3027127 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTTGGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTTGGATTTCTA
* * * * *
3027192 CGGCCTTATCAACTTTAAACAGGCGCTACCTATTACATTAAATAAACGTTACTTGTTATGTTATT
66 AGGCC-CATCAACTTTAAAAAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATT
** * *
3027257 ATTATTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTTTAAGGCTCCATCAG
130 ATGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAAGCTCCATCAG
* * * *
3027322 CTTAAAATTTGGTATCACTTTAGGTGTTACT
195 CTTAAAATTTGGTAACACTTTAGGCGCTACC
* * *
3027353 TCATCTGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTATC-TTCGGATTTCT
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTT-GGATTTCT
** * * * * *
3027417 AAAACCCCATCAACTTTAAAAAGGCGTTACCTATTACGTTACATAAGTGCTACTTGTT-TGCTAT
65 -AAGGCCCATCAACTTTAAAAAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTAT
*
3027481 TATGGTTGATAATGTTTCTAGTAATTAACC
129 TATGGTTGATAATGTTTCCAGTAATTAACC
3027511 GGTTATGTTA
Statistics
Matches: 338, Mismatches: 43, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
225 99 0.29
226 236 0.70
227 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (225 bp):
TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTTGGATTTCTA
AGGCCCATCAACTTTAAAAAGGCGCTACCTATTACATTAAATAAGCGCTACTTGTTATGTTATTA
TGGTTGATAATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAAGCTCCATCAGC
TTAAAATTTGGTAACACTTTAGGCGCTACC
Found at i:3030923 original size:32 final size:32
Alignment explanation
Indices: 3030882--3030950 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
3030872 GGCCTGAGAA
*
3030882 CCTACCCAATGGAGTACTTTAGGACCTAAGAG
1 CCTACCCAATGGAGTACCTTAGGACCTAAGAG
* *
3030914 CCTACCCAATGGAGTACCTTAGGGCCTTAGAG
1 CCTACCCAATGGAGTACCTTAGGACCTAAGAG
3030946 CCTAC
1 CCTAC
3030951 GCAAGGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (32 bp):
CCTACCCAATGGAGTACCTTAGGACCTAAGAG
Found at i:3032118 original size:90 final size:90
Alignment explanation
Indices: 3031965--3032145 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
3031955 GTTTTATGTC
3031965 GTTCTTTGTTGTATCTGTATAACTCATTCCGCTTTAAGGTTGGCATGGTGTAGACTAGACAAAGG
1 GTTCTTTGTTGTATCTGTATAACTCATTCCGCTTTAAGGTTGGCATGGTGTAGACTAGACAAAGG
*
3032030 AAATTCAGATCGAGCTGAGTCGTAT
66 AAATTCAGATCGAGCCGAGTCGTAT
* *
3032055 GTTCTTTGTTGTATCTGTATAGCTCATTTCGCTTTAAGGTTGGCATGGTGTAGACTAGACAAAGG
1 GTTCTTTGTTGTATCTGTATAACTCATTCCGCTTTAAGGTTGGCATGGTGTAGACTAGACAAAGG
* *
3032120 AGATTCGGATCGAGCCGAGTCGTAT
66 AAATTCAGATCGAGCCGAGTCGTAT
3032145 G
1 G
3032146 GGCAACCGTG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (90 bp):
GTTCTTTGTTGTATCTGTATAACTCATTCCGCTTTAAGGTTGGCATGGTGTAGACTAGACAAAGG
AAATTCAGATCGAGCCGAGTCGTAT
Found at i:3035667 original size:2 final size:2
Alignment explanation
Indices: 3035660--3035704 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3035650 AAAAAGAGTG
3035660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3035702 TA T
1 TA T
3035705 GTATCTTACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3040606 original size:39 final size:39
Alignment explanation
Indices: 3040563--3040648 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
3040553 AACTAAATAT
* * *
3040563 GAAGACTCCACAACTGCGTGATGTCTTTAGGTAAA-TGAA
1 GAAGACTCCACAACTGCATGACGTCTTCAGGTAAATTG-A
* * * *
3040602 GAAGATTCCACGATTGCATGGCGTCTTCAGGTAAATTGA
1 GAAGACTCCACAACTGCATGACGTCTTCAGGTAAATTGA
3040641 GAAGACTC
1 GAAGACTC
3040649 TAAGAGTGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (39 bp):
GAAGACTCCACAACTGCATGACGTCTTCAGGTAAATTGA
Found at i:3040667 original size:39 final size:39
Alignment explanation
Indices: 3040584--3040670 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
3040574 AACTGCGTGA
* * * * *
3040584 TGTCTTTAGGTAAATGAAGAAGATTCCACGATTGCATGG
1 TGTCTTCAGGTAAATGAAGAAGACTCCAAGAGTGCACGG
* *
3040623 CGTCTTCAGGTAAATTG-AGAAGACTCTAAGAGTGCACGG
1 TGTCTTCAGGTAAA-TGAAGAAGACTCCAAGAGTGCACGG
3040662 TGTCTTCAG
1 TGTCTTCAG
3040671 ACCAATAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
39 37 0.95
40 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (39 bp):
TGTCTTCAGGTAAATGAAGAAGACTCCAAGAGTGCACGG
Found at i:3042376 original size:110 final size:109
Alignment explanation
Indices: 3042199--3042431 Score: 324
Period size: 110 Copynumber: 2.1 Consensus size: 109
3042189 GCTAGGTTTG
* * * * *
3042199 ATTTTTAGAGGTTTCTTGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAAGGGTT
1 ATTTTTAGGGGTTTATTAATGTTTTCAAATAAGTTTATAGAAACTAAGCCTGATTTTCAAGGGTT
* * *
3042264 TCTTGATGA-TGATTTCCAATGAATTTTTAAAAGAAGGTAAACCTA
66 TCTTGACGATTG-TTTCCAAAGAATTTTT-AAAGAAGCTAAACCTA
* * *
3042309 ATTTTTAGGGGTTTATTAATGTTTTTAATTAAGTTTATAGAAACTAAGCCTGATTTTCAGGGGTT
1 ATTTTTAGGGGTTTATTAATGTTTTCAAATAAGTTTATAGAAACTAAGCCTGATTTTCAAGGGTT
* *
3042374 TCTTGACGATTGTTTCCAAAGAATTTTTAAATAAGCTAAGCCTA
66 TCTTGACGATTGTTTCCAAAGAATTTTTAAAGAAGCTAAACCTA
3042418 ATTTTTAGGGGTTT
1 ATTTTTAGGGGTTT
3042432 CTTGATGATA
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
109 27 0.25
110 80 0.73
111 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (109 bp):
ATTTTTAGGGGTTTATTAATGTTTTCAAATAAGTTTATAGAAACTAAGCCTGATTTTCAAGGGTT
TCTTGACGATTGTTTCCAAAGAATTTTTAAAGAAGCTAAACCTA
Found at i:3042422 original size:57 final size:54
Alignment explanation
Indices: 3042199--3042436 Score: 182
Period size: 52 Copynumber: 4.4 Consensus size: 54
3042189 GCTAGGTTTG
* * * * * *
3042199 ATTTTTAGAGGTTTCTT--GATGTTTTCAAATGAGTTTTTAGAAA-CTAAGCCTG
1 ATTTTCAGGGGTTTCTTGAGATG-TTTCCAATGAATTTTTAAAAAGCTAAGCCTA
* * *
3042251 ATTTTCAAGGGTTTCTTGATGATGATTTCCAATGAATTTTTAAAAGAAGGTAAACCTA
1 ATTTTCAGGGGTTTCTTGA-GATG-TTTCCAATGAATTTTT-AAA-AAGCTAAGCCTA
* * ** * * * *
3042309 ATTTTTAGGGGTTTATT-A-ATGTTTTTAATTAAGTTTATAGAAA-CTAAGCCTG
1 ATTTTCAGGGGTTTCTTGAGATGTTTCCAATGAA-TTTTTAAAAAGCTAAGCCTA
*
3042361 ATTTTCAGGGGTTTCTTGACGATTGTTTCCAAAGAATTTTTAAATAAGCTAAGCCTA
1 ATTTTCAGGGGTTTCTTGA-GA-TGTTTCCAATGAATTTTTAAA-AAGCTAAGCCTA
*
3042418 ATTTTTAGGGGTTTCTTGA
1 ATTTTCAGGGGTTTCTTGA
3042437 TGATAACTAA
Statistics
Matches: 142, Mismatches: 31, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
52 35 0.25
53 3 0.02
54 10 0.07
55 32 0.23
56 13 0.09
57 29 0.20
58 20 0.14
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (54 bp):
ATTTTCAGGGGTTTCTTGAGATGTTTCCAATGAATTTTTAAAAAGCTAAGCCTA
Found at i:3043866 original size:24 final size:24
Alignment explanation
Indices: 3043856--3043970 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
3043846 CATAATTCAC
* * *
3043856 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
* *
3043880 GTCAAGTATCAGATAAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
3043904 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
3043928 GTC-AGATATCAGATCATAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
3043952 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
3043971 ATCAAATCAA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 77 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:3043987 original size:48 final size:49
Alignment explanation
Indices: 3043832--3043987 Score: 156
Period size: 48 Copynumber: 3.2 Consensus size: 49
3043822 AAACGGATAT
* * * * *
3043832 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCA-AAATCCAG
1 ATCAAAAATCAGATCATAATCCAAGTCAAGTATCAGATCAGAAATCCAA
* ** * * *
3043880 GTCAAGTATCAGATAAGAATCCAAGTCAAGTATCAGATCAG-AATCCAT
1 ATCAAAAATCAGATCATAATCCAAGTCAAGTATCAGATCAGAAATCCAA
* * * *
3043928 GTCAGATATCAGATCATAATCCATGTCAAGTATCAGATCAGAAAT-CAA
1 ATCAAAAATCAGATCATAATCCAAGTCAAGTATCAGATCAGAAATCCAA
3043976 ATCAAAAATCAG
1 ATCAAAAATCAG
3043988 GTAAAATATT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
48 84 0.97
49 3 0.03
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (49 bp):
ATCAAAAATCAGATCATAATCCAAGTCAAGTATCAGATCAGAAATCCAA
Found at i:3043987 original size:72 final size:72
Alignment explanation
Indices: 3043832--3043987 Score: 181
Period size: 72 Copynumber: 2.2 Consensus size: 72
3043822 AAACGGATAT
* * * *
3043832 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATAAG
1 ATCAAAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATAAG
3043897 AATCCAA
66 AATCCAA
* ** * * * *
3043904 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCATAATCCATGTCAAGTATCAGATCA
1 ATCAAAAATCAGATCAGAATCCACGTCAAG-TATCAGATCAAAATCCAGGTCAAGTATCAGATAA
3043968 GAAAT-CAA
65 G-AATCCAA
3043976 ATCAAAAATCAG
1 ATCAAAAATCAG
3043988 GTAAAATATT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
71 2 0.03
72 63 0.93
73 3 0.04
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (72 bp):
ATCAAAAATCAGATCAGAATCCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATAAG
AATCCAA
Found at i:3046415 original size:13 final size:13
Alignment explanation
Indices: 3046397--3046438 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
3046387 GGTCAACACC
3046397 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3046410 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3046423 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3046436 GGT
1 GGT
3046439 TATGACCGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.14, C:0.21, G:0.48, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3055801 original size:21 final size:21
Alignment explanation
Indices: 3055725--3055802 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
3055715 CTTTCGGGAT
*
3055725 ATATATGTAATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * *
3055746 ATATATGCGGTTCTTCGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * * *
3055767 ACATATTTGGTCCTTTAGAAT
1 ATATATGTGATCCTTTGGAAC
3055788 ATATATGTGATCCTT
1 ATATATGTGATCCTT
3055803 AAAGAGTGGT
Statistics
Matches: 42, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:3059081 original size:20 final size:20
Alignment explanation
Indices: 3059056--3059109 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3059046 CGATACCAAG
3059056 GGTACCGATACCATAGGTCA
1 GGTACCGATACCATAGGTCA
*
3059076 GGTACCAATACCATAGGTCA
1 GGTACCGATACCATAGGTCA
*
3059096 GGTATCGATACCAT
1 GGTACCGATACCAT
3059110 TTTAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (20 bp):
GGTACCGATACCATAGGTCA
Found at i:3061353 original size:21 final size:21
Alignment explanation
Indices: 3061327--3061367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3061317 TCGGAAAACG
*
3061327 TTTTCTATAAAATGTATTACA
1 TTTTCTAGAAAATGTATTACA
*
3061348 TTTTCTAGAAAATGTTTTAC
1 TTTTCTAGAAAATGTATTAC
3061368 TATATTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTTCTAGAAAATGTATTACA
Found at i:3061524 original size:14 final size:14
Alignment explanation
Indices: 3061505--3061551 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
3061495 TATTATAATA
3061505 ATTTATTCAATATT
1 ATTTATTCAATATT
*
3061519 ATTTATGTCAACATT
1 ATTTAT-TCAATATT
*
3061534 A-TTATTAAATTATT
1 ATTTATTCAA-TATT
3061548 ATTT
1 ATTT
3061552 CTACAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 3 0.11
14 14 0.52
15 10 0.37
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (14 bp):
ATTTATTCAATATT
Found at i:3068758 original size:54 final size:54
Alignment explanation
Indices: 3068582--3068757 Score: 235
Period size: 54 Copynumber: 3.3 Consensus size: 54
3068572 GGTTTTCGCA
* * * * *
3068582 TAAGGCGTGAGCACAACTTATTCGTCCCGAGCTATCGTAGAAGAAGTCATCAGT
1 TAAGGCGTGGGCACAACTTATTCATCCTGAGCTATCGCAGAAGAAGTCTTCAGT
* * *
3068636 TAAGGTGTGGGCACAACTTATGCATCCTGAGCTATCGCAGAAGAAGTATTCAGT
1 TAAGGCGTGGGCACAACTTATTCATCCTGAGCTATCGCAGAAGAAGTCTTCAGT
* * * *
3068690 TAAGGCGTAGGCACGACTTATTCATCCTGAGCTGTCACAGAAGAAGTCTTCAGT
1 TAAGGCGTGGGCACAACTTATTCATCCTGAGCTATCGCAGAAGAAGTCTTCAGT
*
3068744 TAAGGTGTGGGCAC
1 TAAGGCGTGGGCAC
3068758 GCCTTGTATC
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (54 bp):
TAAGGCGTGGGCACAACTTATTCATCCTGAGCTATCGCAGAAGAAGTCTTCAGT
Found at i:3073338 original size:78 final size:77
Alignment explanation
Indices: 3073187--3073338 Score: 180
Period size: 78 Copynumber: 2.0 Consensus size: 77
3073177 ATGGTTCCAT
* * * * * * *
3073187 CCAATAATGTCATGGTTCACTAAGAAATAGATTGCGATCTATAATGTTAATATTTTCATTAATAA
1 CCAAGAATGTCATGATTCACTAAGAAACAGATTGCAATCTAGAATCTTAATATTTTCAATAATAA
*
3073252 ATTAGGTTGTAC
66 AATAGGTTGTAC
* *
3073264 CCAAGAATGTCATGATTCACTAAGAAAGCATG-TTGCAATCTGGAATCTTAATATTTTTAATAAT
1 CCAAGAATGTCATGATTCACTAAGAAA-CA-GATTGCAATCTAGAATCTTAATATTTTCAATAAT
*
3073328 AAAATGGGTTG
64 AAAATAGGTTG
3073339 CGCCAAAATG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 25 0.40
78 36 0.58
79 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (77 bp):
CCAAGAATGTCATGATTCACTAAGAAACAGATTGCAATCTAGAATCTTAATATTTTCAATAATAA
AATAGGTTGTAC
Found at i:3076423 original size:33 final size:33
Alignment explanation
Indices: 3076378--3076491 Score: 122
Period size: 33 Copynumber: 3.5 Consensus size: 33
3076368 CTTACTGATT
* * * **
3076378 AGTTGTTTGTTGATTGCTCGAGATTTTTGGATG
1 AGTTGTTGGTTGATTGGTCAAGATTTTTCAATG
**
3076411 AGTTGTTGGTTGATTGGTCAAGATTTTTTTATG
1 AGTTGTTGGTTGATTGGTCAAGATTTTTCAATG
* *
3076444 AG-TGTTTAGTTAATTGGTCAAGATTTTTCAATG
1 AGTTG-TTGGTTGATTGGTCAAGATTTTTCAATG
*
3076477 TGTTGTTGGTTGATT
1 AGTTGTTGGTTGATT
3076492 TCTCAATTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.03
33 63 0.94
34 2 0.03
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.50
Consensus pattern (33 bp):
AGTTGTTGGTTGATTGGTCAAGATTTTTCAATG
Found at i:3077329 original size:3 final size:3
Alignment explanation
Indices: 3077321--3077382 Score: 88
Period size: 3 Copynumber: 19.7 Consensus size: 3
3077311 TTTGTTCAGG
*
3077321 TTA TTA TTA TTA ATA TTA TTA TTAA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT-A TTA TTA TTA
3077368 TTAA TTA TTA TTA TT
1 TT-A TTA TTA TTA TT
3077383 TATGTTTTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
3 45 0.83
4 9 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3077350 original size:10 final size:9
Alignment explanation
Indices: 3077321--3077382 Score: 88
Period size: 10 Copynumber: 6.6 Consensus size: 9
3077311 TTTGTTCAGG
3077321 TTATTATTA
1 TTATTATTA
*
3077330 TTAATATTA
1 TTATTATTA
3077339 TTATTAATTA
1 TTATT-ATTA
3077349 TTATTATTAA
1 TTATTATT-A
3077359 TTATTATTA
1 TTATTATTA
3077368 TTAATTATTA
1 TT-ATTATTA
3077378 TTATT
1 TTATT
3077383 TATGTTTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
9 21 0.44
10 27 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTATTATTA
Found at i:3077352 original size:13 final size:13
Alignment explanation
Indices: 3077321--3077382 Score: 117
Period size: 13 Copynumber: 4.8 Consensus size: 13
3077311 TTTGTTCAGG
3077321 TTATTATTATTAA
1 TTATTATTATTAA
3077334 -TATTATTATTAA
1 TTATTATTATTAA
3077346 TTATTATTATTAA
1 TTATTATTATTAA
3077359 TTATTATTATTAA
1 TTATTATTATTAA
3077372 TTATTATTATT
1 TTATTATTATT
3077383 TATGTTTTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.25
13 36 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATTATTAA
Found at i:3077353 original size:16 final size:15
Alignment explanation
Indices: 3077321--3077382 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 15
3077311 TTTGTTCAGG
*
3077321 TTATTATTATTAATA
1 TTATTATTATTATTA
3077336 TTATTATTAATTATTA
1 TTATTATT-ATTATTA
3077352 TTATTAATTATTATTA
1 TTATT-ATTATTATTA
3077368 TTAATTATTATTATT
1 TT-ATTATTATTATT
3077383 TATGTTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
15 8 0.19
16 29 0.67
17 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATTATTATTA
Found at i:3079694 original size:28 final size:27
Alignment explanation
Indices: 3079642--3079708 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
3079632 AAGAAAGTAC
* * *
3079642 CAAAAATAGCATTATGAGGTAAAATTA
1 CAAAAATACCCTTATGAGGTAAAATGA
*
3079669 CAAAAATACCCTTATGAGTTAAAAATGA
1 CAAAAATACCCTTATGAGGT-AAAATGA
*
3079697 CCAAAATACCCT
1 CAAAAATACCCT
3079709 CGAAGTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (27 bp):
CAAAAATACCCTTATGAGGTAAAATGA
Found at i:3082701 original size:12 final size:13
Alignment explanation
Indices: 3082679--3082716 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
3082669 TCCTAATGGG
*
3082679 CAATGTTTGAAAA
1 CAATATTTGAAAA
*
3082692 TAAT-TTTGAAAA
1 CAATATTTGAAAA
3082704 CAATATTTGAAAA
1 CAATATTTGAAAA
3082717 ATTATGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (13 bp):
CAATATTTGAAAA
Found at i:3083281 original size:44 final size:43
Alignment explanation
Indices: 3083185--3083286 Score: 143
Period size: 43 Copynumber: 2.3 Consensus size: 43
3083175 AAATCCGACG
* *
3083185 AGTGTATCGATACACATTCAAGGAATGCATCGTGTACTTTTAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGTGTACTTTCAT
* *
3083228 AGTGTATCGATGCATATTCAAGGAATGGATCG-GTACACTTTCAT
1 AGTGTATCGATGCACATTCAAGGAATGCATCGTGT--ACTTTCAT
3083272 AGTGTATCGATGCAC
1 AGTGTATCGATGCAC
3083287 TTTGCACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 2 0.04
43 29 0.56
44 21 0.40
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
AGTGTATCGATGCACATTCAAGGAATGCATCGTGTACTTTCAT
Found at i:3083287 original size:21 final size:21
Alignment explanation
Indices: 3083220--3083289 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
3083210 TGCATCGTGT
*
3083220 ACTTTTATAGTGTATCGATGC
1 ACTTTCATAGTGTATCGATGC
* * *
3083241 A-TATTCA-AGGAATGGATCGGTAC
1 ACT-TTCATA-G--TGTATCGATGC
3083264 ACTTTCATAGTGTATCGATGC
1 ACTTTCATAGTGTATCGATGC
3083285 ACTTT
1 ACTTT
3083290 GCACAAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
20 2 0.06
21 18 0.50
23 14 0.39
24 2 0.06
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (21 bp):
ACTTTCATAGTGTATCGATGC
Found at i:3093971 original size:45 final size:45
Alignment explanation
Indices: 3093699--3093950 Score: 387
Period size: 45 Copynumber: 5.6 Consensus size: 45
3093689 GTAAGCATGC
*
3093699 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
* *
3093744 AAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTGTATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
*
3093789 AAATAAACTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
* * * *
3093834 AAATAACCTTATGAGCTTATGGAATACATGATAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
* * * *
3093879 AAATTAGCTTACGAGCTTATGAAATAAATGGTAAGTATGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
*
3093924 AAATAAGCTTACGAGCTTATGGGATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
3093951 TGGGTAAATA
Statistics
Matches: 186, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 186 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTATTGGTA
Found at i:3094406 original size:21 final size:21
Alignment explanation
Indices: 3094380--3094420 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3094370 ATTTCCAAAA
*
3094380 TGCTACAAG-GTATCGATACCT
1 TGCTAC-AGTGTACCGATACCT
3094401 TGCTACAGTGTACCGATACC
1 TGCTACAGTGTACCGATACC
3094421 CTCACTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGTACCGATACCT
Found at i:3096763 original size:8 final size:8
Alignment explanation
Indices: 3096752--3096854 Score: 90
Period size: 8 Copynumber: 12.8 Consensus size: 8
3096742 GAAAAAAAGT
3096752 AGAAAAAA
1 AGAAAAAA
3096760 AGAATAAAA
1 AGAA-AAAA
3096769 A-AATAAAA
1 AGAA-AAAA
3096777 AG--AAAA
1 AGAAAAAA
3096783 AGAAAAAA
1 AGAAAAAA
*
3096791 ATAAAAAA
1 AGAAAAAA
3096799 AGAATAAAAA
1 AG-A-AAAAA
*
3096809 AGAAAAAGG
1 AGAAAAA-A
*
3096818 GGAAAAAA
1 AGAAAAAA
3096826 AGAAAAAA
1 AGAAAAAA
3096834 AGAAAAAA
1 AGAAAAAA
3096842 A-AAAGAAA
1 AGAAA-AAA
3096850 A-AAAA
1 AGAAAA
3096855 TGAGAGATGA
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
6 6 0.07
7 4 0.05
8 51 0.63
9 13 0.16
10 7 0.09
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (8 bp):
AGAAAAAA
Found at i:3096854 original size:11 final size:11
Alignment explanation
Indices: 3096743--3096854 Score: 82
Period size: 11 Copynumber: 9.5 Consensus size: 11
3096733 TATAAGTATG
* *
3096743 AAAAAAAGTAG
1 AAAAAAAGAAA
*
3096754 AAAAAAAGAAT
1 AAAAAAAGAAA
*
3096765 AAAAAAATAAA
1 AAAAAAAGAAA
3096776 AAGAAAAAGAAAA
1 AA-AAAAAG-AAA
*
3096789 AAATAAAAAAAGA
1 AAA-AAAAGAA-A
3096802 ATAAAAAAGAAA
1 A-AAAAAAGAAA
*
3096814 AAGGGGAAAAA-AAG
1 AA----AAAAAGAAA
3096828 AAAAAAAGAAA
1 AAAAAAAGAAA
3096839 AAAAAAAGAAA
1 AAAAAAAGAAA
3096850 AAAAA
1 AAAAA
3096855 TGAGAGATGA
Statistics
Matches: 82, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
10 5 0.06
11 39 0.48
12 10 0.12
13 17 0.21
14 6 0.07
15 5 0.06
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:3096873 original size:1 final size:1
Alignment explanation
Indices: 3096754--3096854 Score: 58
Period size: 1 Copynumber: 101.0 Consensus size: 1
3096744 AAAAAAGTAG
* * * * * * * * * ***
3096754 AAAAAAAGAATAAAAAAATAAAAAGAAAAAGAAAAAAATAAAAAAAGAATAAAAAAGAAAAAGGG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
3096819 GAAAAAAAGAAAAAAAGAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3096855 TGAGAGATGA
Statistics
Matches: 74, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (1 bp):
A
Found at i:3100654 original size:61 final size:61
Alignment explanation
Indices: 3100566--3100680 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
3100556 AAAGGTGGAT
*
3100566 ACGACCTTATGTATCAGTTTCGGATTAGCACTAT-AGCATAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTTATGTATCAGTTTCGGATTAGCACTATGA-CATAAGCTTAGTGCAGGTGGTGGGC
*
3100627 ACGACCTTATGTGT-A-TTATCTGGATTAGCACTATGACATAAGCTTAGTGCAGGT
1 ACGACCTTATGTATCAGTT-TC-GGATTAGCACTATGACATAAGCTTAGTGCAGGT
3100681 TTAGAACTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
59 2 0.04
60 3 0.06
61 43 0.88
62 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (61 bp):
ACGACCTTATGTATCAGTTTCGGATTAGCACTATGACATAAGCTTAGTGCAGGTGGTGGGC
Found at i:3100854 original size:45 final size:45
Alignment explanation
Indices: 3100790--3100996 Score: 337
Period size: 45 Copynumber: 4.6 Consensus size: 45
3100780 GTAAGCATGC
*
3100790 AAATAAGCTTACGAGCTTATGGAATAAAT-AGTAAGTGTGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGA-TAAGTGTATTGGTA
* *
3100835 AAATAAGCTTACGAGCTTATGGAATAAATGACAAGTGTATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTGTATTGGTA
*
3100880 AATTAAGCTTACGAGCTTATGGAATAAATGATAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTGTATTGGTA
* *
3100925 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTGTGTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTGTATTGGTA
3100970 AAATAAGCTTACGAGCTTATGG-ATAAA
1 AAATAAGCTTACGAGCTTATGGAATAAA
3100997 GGGTAAATAT
Statistics
Matches: 152, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 5 0.03
45 146 0.96
46 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGATAAGTGTATTGGTA
Found at i:3101889 original size:21 final size:21
Alignment explanation
Indices: 3101863--3101915 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
3101853 AGACAAAGGT
3101863 AAGAAAGTCGAAAATGTTGAA
1 AAGAAAGTCGAAAATGTTGAA
3101884 AAGAAAGTCGAAAATGTTGAA
1 AAGAAAGTCGAAAATGTTGAA
3101905 AAGAAAGTCGA
1 AAGAAAGTCGA
3101916 GATTGAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.25, T:0.17
Consensus pattern (21 bp):
AAGAAAGTCGAAAATGTTGAA
Found at i:3104053 original size:22 final size:22
Alignment explanation
Indices: 3104004--3104052 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3103994 ATAAATTATT
**
3104004 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
3104026 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
3104049 TAAA
1 TAAA
3104053 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:3104056 original size:54 final size:54
Alignment explanation
Indices: 3103992--3104624 Score: 481
Period size: 54 Copynumber: 12.4 Consensus size: 54
3103982 ACAACTACAA
3103992 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
*** * * *
3104046 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATAC
* *** * * *
3104099 -CAT--A-T-TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATAC
* *
3104147 -CAT--A-T-TTTAAAATAAATCAAT-C-TA---TACAAATAAAT-TAT-T-TA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCTATAC
* * * * *
3104188 AAATAAATCA-AT-ATAT-ACT-AATCCATATTTTAAAATAAATCAATC----C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
* *
3104234 --AT--A-T-TTTAAAATAAATCAATTCATAATTTAAAATAAATCAAT-TCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATAC
*
3104282 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
* * *
3104336 -AACTACA--A--T--AATAAATCAATTCATA-TTTAAAATAAA-CAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
* *
3104382 AAATAAATTA-TTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATA-T--T---TTA---AAATAAATCAATCTATAC
*
3104444 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATC--CAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
3104496 TAAT-AATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-TCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATAC
*
3104549 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAAT-TCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCT-ATAC
3104603 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
3104625 TATTTTAAAA
Statistics
Matches: 490, Mismatches: 33, Indels: 112
0.77 0.05 0.18
Matches are distributed among these distances:
41 2 0.00
42 11 0.02
43 10 0.02
44 34 0.07
45 1 0.00
46 23 0.05
47 18 0.04
48 81 0.17
49 2 0.00
50 4 0.01
51 58 0.12
52 10 0.02
53 10 0.02
54 166 0.34
55 6 0.01
57 3 0.01
58 3 0.01
60 1 0.00
61 7 0.01
62 20 0.04
63 20 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
Found at i:3104112 original size:22 final size:22
Alignment explanation
Indices: 3104087--3104280 Score: 141
Period size: 22 Copynumber: 8.7 Consensus size: 22
3104077 CAACTACAAT
3104087 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* **
3104109 AATAAATCAATCCATACAACTACAA
1 AATAAATCAATCCAT---ATTTTAA
3104134 TAATAAATCAATCCATATTTTAA
1 -AATAAATCAATCCATATTTTAA
3104157 AATAAATCAAT-C-TA---TACA
1 AATAAATCAATCCATATTTTA-A
* ** ** *
3104175 AATAAAT-TATTTA-AAATAAA
1 AATAAATCAATCCATATTTTAA
*
3104195 TCAATATATACTAATCCATATTTTAA
1 --AATAAAT-C-AATCCATATTTTAA
3104221 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
* *
3104243 AATAAATCAATTCATAATTTAA
1 AATAAATCAATCCATATTTTAA
*
3104265 AATAAATCAATTCATA
1 AATAAATCAATCCATA
3104281 CTAATAAATT
Statistics
Matches: 137, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.03
18 9 0.07
20 3 0.02
21 2 0.01
22 82 0.60
23 5 0.04
24 6 0.04
25 7 0.05
26 19 0.14
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:3104124 original size:48 final size:48
Alignment explanation
Indices: 3104056--3104175 Score: 231
Period size: 48 Copynumber: 2.5 Consensus size: 48
3104046 TAATAAATTA
3104056 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
3104104 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
*
3104152 TTTAAAATAAATCAATCTATACAA
1 TTTAAAATAAATCAATCCATACAA
3104176 ATAAATTATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (48 bp):
TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
Found at i:3104274 original size:76 final size:76
Alignment explanation
Indices: 3104002--3104653 Score: 426
Period size: 76 Copynumber: 8.3 Consensus size: 76
3103992 TAATAAATTA
*
3104002 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATAATTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAA
*
3104066 ATCAATCCATACAAC
65 ATCAATCCAT---AT
** * * *
3104081 TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATA
1 TTTAA-AATAAATCAATCCATAATTTAAAATAAATCAATTCATACTAA-TAAATTATTTAAAATA
3104139 AATCAATCCATAT
64 AATCAATCCATAT
**
3104152 TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATAT-ATACTAATCCA-TA
1 TTTAAAATAAATCAATC----C--AT--A--ATTTAAAATAAATCAAT-TCATACTAATAAATTA
3104215 TTTTAAAATAAATCAATCCATAT
55 -TTTAAAATAAATCAATCCATAT
*
3104238 TTTAAAATAAATCAATTCATAATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATAATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
3104303 TCAATCCATAT
66 TCAATCCATAT
** * *
3104314 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATA-T-TTAAA--A-TAAACA
1 TTTAAAATAAATCAATCCAT--AA-TTTAA-AATAAATCAATTCATACTAATAAATTATTTAA-A
** *
3104374 ATCCATACAAAT--AAAT
61 ATAAAT-C-AATCCATAT
*
3104390 TATTAAAATAAATCAATCCATACTAATAAATTATTTAAATAAATCAATCCATACTAATAAATTAT
1 T-TTAAAATAAATCAATCC--A-TAAT---TTA---AAATAAATCAATTCATACTAATAAATTAT
3104455 TTAAAATAAATCAATCCATAT
56 TTAAAATAAATCAATCCATAT
* * *
3104476 TTTAAAATAAATCAATCCACTAATAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCA
1 TTTAAAATAAATCAAT-C-C--AT-A--ATTTAAAATAAATCAATTCATA--CT--AATAAAT-T
* * * *
3104541 ATTCATACT-AATAAAT---TA-
54 ATTTAAAATAAATCAATCCATAT
* *
3104559 TTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT--A
1 TTTAAAATAAATCAATCCATAATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
3104622 --AAT---TAT
66 TCAATCCATAT
*
3104628 TTTAAAATAAATCAATCCATATTTTA
1 TTTAAAATAAATCAATCCATAATTTA
3104654 TAATTTATTT
Statistics
Matches: 469, Mismatches: 46, Indels: 126
0.73 0.07 0.20
Matches are distributed among these distances:
68 5 0.01
69 25 0.05
70 13 0.03
71 10 0.02
72 7 0.01
74 17 0.04
75 4 0.01
76 100 0.21
77 21 0.04
78 15 0.03
79 12 0.03
80 82 0.17
81 5 0.01
82 16 0.03
83 35 0.07
84 10 0.02
85 17 0.04
86 48 0.10
87 19 0.04
88 6 0.01
89 2 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (76 bp):
TTTAAAATAAATCAATCCATAATTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
TCAATCCATAT
Found at i:3104318 original size:22 final size:21
Alignment explanation
Indices: 3104290--3104380 Score: 94
Period size: 22 Copynumber: 4.1 Consensus size: 21
3104280 ACTAATAAAT
3104290 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
3104311 TATTTTAAAATAAATCAATCCA
1 TA-TTTAAAATAAATCAATCCA
** *
3104333 TACAACTACAATAATAAATCAATTCA
1 T---A-TTTAA-AATAAATCAATCCA
3104359 TATTTAAAATAAA-CAATCCA
1 TATTTAAAATAAATCAATCCA
3104379 TA
1 TA
3104381 CAAATAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
20 8 0.14
21 8 0.14
22 23 0.40
23 1 0.02
25 4 0.07
26 14 0.24
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:3104419 original size:18 final size:18
Alignment explanation
Indices: 3104396--3104451 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
3104386 AAATTATTAA
3104396 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
* *
3104414 AATAAAT-TAT--TTA--
1 AATAAATCAATCCATACT
3104427 AATAAATCAATCCATACT
1 AATAAATCAATCCATACT
3104445 AATAAAT
1 AATAAAT
3104452 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 7 0.24
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 14 0.48
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATCAATCCATACT
Found at i:3104480 original size:22 final size:22
Alignment explanation
Indices: 3104454--3104547 Score: 116
Period size: 22 Copynumber: 4.0 Consensus size: 22
3104444 TAATAAATTA
3104454 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
3104476 TTTAAAATAAATCAATCCACTAATAATT
1 TTTAAAATAAATCAAT-C-C--AT-A-T
3104504 ATTTAAAATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATAT
*
3104527 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
3104548 CTAATAAATT
Statistics
Matches: 64, Mismatches: 1, Indels: 14
0.81 0.01 0.18
Matches are distributed among these distances:
22 36 0.56
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 2 0.03
28 2 0.03
29 16 0.25
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:3104556 original size:22 final size:22
Alignment explanation
Indices: 3104507--3104555 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
3104497 AATAATTATT
**
3104507 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
3104529 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
3104552 TAAA
1 TAAA
3104556 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:3104585 original size:22 final size:22
Alignment explanation
Indices: 3104559--3104601 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
3104549 TAATAAATTA
3104559 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
3104581 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
3104602 CTAATAAATT
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:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:3104610 original size:22 final size:22
Alignment explanation
Indices: 3104561--3104609 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
3104551 ATAAATTATT
**
3104561 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
3104583 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
3104606 TAAA
1 TAAA
3104610 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:3104633 original size:15 final size:15
Alignment explanation
Indices: 3104604--3104732 Score: 122
Period size: 15 Copynumber: 8.5 Consensus size: 15
3104594 AATTCATACT
3104604 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
3104618 AATAAATTATTTTAA
1 AATAAATTATTTTAA
3104633 AATAAATCAATCCATATTT--
1 AATAAAT---T--AT-TTTAA
* *
3104652 TATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
3104667 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
3104682 AATAAATTATTTT-A
1 AATAAATTATTTTAA
*
3104696 TATAAATTATTTTAA
1 AATAAATTATTTTAA
*
3104711 AATAAATTGTTTTAA
1 AATAAATTATTTTAA
3104726 AATAAAT
1 AATAAAT
3104733 AACCTTATTA
Statistics
Matches: 94, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.03
14 23 0.24
15 56 0.60
16 1 0.01
18 1 0.01
19 5 0.05
20 2 0.02
21 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:3104708 original size:29 final size:30
Alignment explanation
Indices: 3104653--3104732 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
3104643 TCCATATTTT
* *
3104653 ATAATTTATTTTAAAGTAAATTATTTTATA
1 ATAAATTATTTTAAAGTAAATTATTTTAAA
*
3104683 ATAAATTATTTTATA-TAAATTATTTTAAA
1 ATAAATTATTTTAAAGTAAATTATTTTAAA
* *
3104712 ATAAATTGTTTTAAAATAAAT
1 ATAAATTATTTTAAAGTAAAT
3104733 AACCTTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 26 0.59
30 18 0.41
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
ATAAATTATTTTAAAGTAAATTATTTTAAA
Found at i:3105046 original size:10 final size:9
Alignment explanation
Indices: 3105033--3105111 Score: 79
Period size: 10 Copynumber: 8.4 Consensus size: 9
3105023 TAAAAGAAAG
3105033 AAAAAAT-A
1 AAAAAATAA
*
3105041 TAAAAATAA
1 AAAAAATAA
*
3105050 AAAAAAAAA
1 AAAAAATAA
*
3105059 CAAAAAAGAA
1 -AAAAAATAA
*
3105069 AAAGAATAA
1 AAAAAATAA
3105078 AAAAGAATAA
1 AAAA-AATAA
3105088 AAAAGAATAA
1 AAAA-AATAA
3105098 AAAAGAATAA
1 AAAA-AATAA
3105108 AAAA
1 AAAA
3105112 GAAAAAGAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
8 6 0.10
9 18 0.30
10 37 0.61
ACGTcount: A:0.84, C:0.01, G:0.06, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:3105047 original size:30 final size:28
Alignment explanation
Indices: 3105011--3105122 Score: 106
Period size: 30 Copynumber: 3.9 Consensus size: 28
3105001 GCATAAGAGC
*
3105011 TAAAAATAATAATAAAAGAAAGAAAAAATA
1 TAAAAAGAATAA-AAAAGAAA-AAAAAATA
* *
3105041 TAAAAATAA-AAAAAA-AAACAAAAA-A
1 TAAAAAGAATAAAAAAGAAAAAAAAATA
*
3105066 GAAAAAGAATAAAAAAGAATAAAAAAGA-A
1 TAAAAAGAATAAAAAAGAA-AAAAAA-ATA
3105095 TAAAAAAGAATAAAAAAGAAAAAGAAAA
1 T-AAAAAGAATAAAAAAGAAAAA-AAAA
3105123 GGAAAAGGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
25 8 0.11
26 11 0.15
27 5 0.07
28 9 0.13
29 8 0.11
30 30 0.42
ACGTcount: A:0.81, C:0.01, G:0.08, T:0.10
Consensus pattern (28 bp):
TAAAAAGAATAAAAAAGAAAAAAAAATA
Found at i:3105058 original size:20 final size:18
Alignment explanation
Indices: 3105024--3105136 Score: 75
Period size: 20 Copynumber: 5.8 Consensus size: 18
3105014 AAATAATAAT
*
3105024 AAAAGAAAGAAAAAATATAA
1 AAAAAAAAGAAAAAA-A-AA
3105044 AAATAAAAA-AAAAAACAAA
1 AAA-AAAAAGAAAAAA-AAA
3105063 AAAGAAAAAGAATAAAAAAGA
1 AAA-AAAAAGAA-AAAAAA-A
*
3105084 ATAAAAAAGAATAAAAAAGA
1 AAAAAAAAGAA-AAAAAA-A
* *
3105104 ATAAAAAAGAAAAAGAAA
1 AAAAAAAAGAAAAAAAAA
** *
3105122 AGGAAAAGGAAAAAA
1 AAAAAAAAGAAAAAA
3105137 TAGTAAAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
18 12 0.15
19 15 0.19
20 42 0.52
21 11 0.14
ACGTcount: A:0.81, C:0.01, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAA
Found at i:3105112 original size:10 final size:10
Alignment explanation
Indices: 3105067--3105114 Score: 96
Period size: 10 Copynumber: 4.8 Consensus size: 10
3105057 AACAAAAAAG
3105067 AAAAAGAATA
1 AAAAAGAATA
3105077 AAAAAGAATA
1 AAAAAGAATA
3105087 AAAAAGAATA
1 AAAAAGAATA
3105097 AAAAAGAATA
1 AAAAAGAATA
3105107 AAAAAGAA
1 AAAAAGAA
3105115 AAAGAAAAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (10 bp):
AAAAAGAATA
Found at i:3105151 original size:6 final size:6
Alignment explanation
Indices: 3105024--3105135 Score: 50
Period size: 6 Copynumber: 17.7 Consensus size: 6
3105014 AAATAATAAT
* * * *
3105024 AAAAGA AAGAA-A AAATATA AAAATA AAAAAA AAAACAA AAAAGA AAAAGA
1 AAAAGA AA-AAGA AAA-AGA AAAAGA AAAAGA AAAA-GA AAAAGA AAAAGA
* *
3105074 ATAAA-A AAGAATAA AAAAGA ATAAA-A AAGAATAA AAAAGA AAAAGA
1 A-AAAGA AA-AA-GA AAAAGA A-AAAGA AA-AA-GA AAAAGA AAAAGA
* *
3105120 AAAGGA AAAGGA AAAA
1 AAAAGA AAAAGA AAAA
3105136 ATAGTAAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 24
0.75 0.05 0.20
Matches are distributed among these distances:
5 3 0.03
6 57 0.65
7 22 0.25
8 6 0.07
ACGTcount: A:0.81, C:0.01, G:0.12, T:0.06
Consensus pattern (6 bp):
AAAAGA
Found at i:3107203 original size:12 final size:12
Alignment explanation
Indices: 3107186--3107238 Score: 97
Period size: 12 Copynumber: 4.4 Consensus size: 12
3107176 TTTGCTGAAA
3107186 TTACTGTAACAG
1 TTACTGTAACAG
3107198 TTACTGTAACAG
1 TTACTGTAACAG
3107210 TTACTGTAACAG
1 TTACTGTAACAG
*
3107222 TTACTGTAACAA
1 TTACTGTAACAG
3107234 TTACT
1 TTACT
3107239 ATAGCAGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (12 bp):
TTACTGTAACAG
Found at i:3108994 original size:22 final size:22
Alignment explanation
Indices: 3108969--3109012 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3108959 TTGGTCAGTG
3108969 TTGACCGGTCTGACCA-TTGACT
1 TTGACCGGTCTGA-CAGTTGACT
3108991 TTGACCGGTCTGACAGTTGACT
1 TTGACCGGTCTGACAGTTGACT
3109013 GTTTACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (22 bp):
TTGACCGGTCTGACAGTTGACT
Found at i:3111959 original size:64 final size:65
Alignment explanation
Indices: 3111879--3112028 Score: 207
Period size: 65 Copynumber: 2.3 Consensus size: 65
3111869 CCCTAATTCT
* *
3111879 AATGCATTTTGTGTACCGATGCACAG-CCATGCATCGATGCACTCCT-AATTTTATTGAAACATC
1 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTT-TTGAAACATC
3111942 G
65 G
**
3111943 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCG
1 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACATCG
* *
3112008 AATGTA-ATTAGTGTACCGATG
1 AATGCATTTTA-TGTACCGATG
3112029 TACCCCAAGT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
64 28 0.36
65 46 0.60
66 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (65 bp):
AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACATCG
Found at i:3114993 original size:18 final size:18
Alignment explanation
Indices: 3114952--3114989 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3114942 TTATTTGTAC
*
3114952 TTTAATTACTTTTATTTA
1 TTTAATTACTTTGATTTA
*
3114970 TTTAATTGCTTTGA-TTA
1 TTTAATTACTTTGATTTA
3114987 TTT
1 TTT
3114990 TAATATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTAATTACTTTGATTTA
Found at i:3118037 original size:18 final size:18
Alignment explanation
Indices: 3118014--3118052 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
3118004 AGTTGAATTC
3118014 TTTAACTCGAAAAGACCA
1 TTTAACTCGAAAAGACCA
3118032 TTTAACTCGAAAAGACCA
1 TTTAACTCGAAAAGACCA
3118050 TTT
1 TTT
3118053 TCCTCTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (18 bp):
TTTAACTCGAAAAGACCA
Found at i:3119725 original size:6 final size:6
Alignment explanation
Indices: 3119714--3119760 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
3119704 TTTCCATTAA
*
3119714 ATTTTT ATTTTT ACTTTTT ATCTTT ATTTTT ACTTTTT ATTTTT ATT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT A-TTTTT ATTTTT ATT
3119761 CGATCAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 25 0.68
7 12 0.32
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:3119731 original size:13 final size:12
Alignment explanation
Indices: 3119714--3119760 Score: 67
Period size: 13 Copynumber: 3.8 Consensus size: 12
3119704 TTTCCATTAA
3119714 ATTTTTATTTTT
1 ATTTTTATTTTT
*
3119726 ACTTTTTATCTTT
1 A-TTTTTATTTTT
3119739 ATTTTTACTTTTT
1 ATTTTTA-TTTTT
3119752 ATTTTTATT
1 ATTTTTATT
3119761 CGATCAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 9 0.29
13 22 0.71
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:3119739 original size:19 final size:19
Alignment explanation
Indices: 3119717--3119760 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
3119707 CCATTAAATT
3119717 TTTATTTTTACTTTTTATC
1 TTTATTTTTACTTTTTATC
*
3119736 TTTATTTTTACTTTTTATT
1 TTTATTTTTACTTTTTATC
3119755 TTTATT
1 TTTATT
3119761 CGATCAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTATTTTTACTTTTTATC
Found at i:3127581 original size:21 final size:21
Alignment explanation
Indices: 3127552--3127611 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
3127542 TTGTGCACTA
3127552 TGCATCGATACACTATGAATG
1 TGCATCGATACACTATGAATG
* * *
3127573 TGCACCGATGCATTACTTGAATG
1 TGCATCGATACACTA--TGAATG
3127596 TGCATCGATACACTAT
1 TGCATCGATACACTAT
3127612 TCAGTGTACC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 13 0.42
23 18 0.58
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (21 bp):
TGCATCGATACACTATGAATG
Found at i:3130275 original size:64 final size:65
Alignment explanation
Indices: 3130201--3130356 Score: 210
Period size: 65 Copynumber: 2.4 Consensus size: 65
3130191 ACACCCTAAT
* * * *
3130201 TCGAATGCATTTTGTGTCCCGGTGCACA-ACCATGCATCGATGCACTCCT-GATTTTATTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTT-TTGAAAC
3130264 A
65 A
*
3130265 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTTGAAACA
* *
3130330 TCGAATGTA-ATTAGTGTACCGATGCAC
1 TCGAATGCATTTTA-TGTACCGATGCAC
3130357 TAAGTCAACT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
64 28 0.34
65 50 0.61
66 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGATCTTTTGAAACA
Found at i:3134617 original size:13 final size:13
Alignment explanation
Indices: 3134599--3134627 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3134589 ATTAATTTAA
3134599 ATATCTCAATTAG
1 ATATCTCAATTAG
3134612 ATATCTCAATTAG
1 ATATCTCAATTAG
3134625 ATA
1 ATA
3134628 CTAACACGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (13 bp):
ATATCTCAATTAG
Found at i:3138427 original size:33 final size:33
Alignment explanation
Indices: 3138385--3138499 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
3138375 TTAACTTATT
** * *
3138385 GATGAGTTGTTTATTGATTGCTCGAGATTTTTG
1 GATGAGTTGTTGGTTGATTGGTCGAGATTTTTC
*
3138418 GATGAGTTGTTGGTTGATTGGTCAAGATTTTTC
1 GATGAGTTGTTGGTTGATTGGTCGAGATTTTTC
* *
3138451 GATGAGTGGTTGGTTGATTGGTCGAGAATTTTC
1 GATGAGTTGTTGGTTGATTGGTCGAGATTTTTC
*
3138484 AATGAGTTGTTGGTTG
1 GATGAGTTGTTGGTTG
3138500 CTTTCTCAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.44
Consensus pattern (33 bp):
GATGAGTTGTTGGTTGATTGGTCGAGATTTTTC
Found at i:3139380 original size:3 final size:3
Alignment explanation
Indices: 3139372--3139476 Score: 120
Period size: 3 Copynumber: 34.0 Consensus size: 3
3139362 TTTTGTCCGA
* * *
3139372 ATT ATT ATT ATT ATT ATTT AAT ATT ATC GTT ATT ATT AATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * *
3139419 ATT ATC ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
3139465 GTT ATT ATT ATT
1 ATT ATT ATT ATT
3139477 TATGTTTTAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
3 77 0.91
4 8 0.09
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3146728 original size:45 final size:45
Alignment explanation
Indices: 3146660--3147702 Score: 953
Period size: 45 Copynumber: 23.2 Consensus size: 45
3146650 AGCTTCAACA
* * *
3146660 TGACTCTCTCGTGAAGATG-AGTCAATCTTTCAGTATTGTCATTCT
1 TGACTTTCTCGTGAAGA-GAAGTCAATCTTTTAGTGTTGTCATTCT
* * * *
3146705 TGACTTTCTCGTGAAAAGAAGTCAATCTTTCAGTATTATCATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* ** **
3146750 TGACTTTCTCGTGAACAGAAGTCAATCTTCCAGCATTGTCATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * * *
3146795 TGACTTTCTCGTAAAGAGAAGTTAACCTTTTAGTGATGTTATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * * *
3146840 TGACTTTCTCATGAAGAGGAGTCATTCTTTTAGTGTTGTCCTACT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * ** *
3146885 TGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGGTGTTGTTAT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * * *
3146930 TGACTTTCTTGT-AGAGAGAAGTCAACCTTTTAATGATGTTATTCT
1 TGACTTTCTCGTGA-AGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * **
3146975 TGACTTTGTCGTGAAGAGAAGTC-ATACTTTTAGTGGTGTTGTTCT
1 TGACTTTCTCGTGAAGAGAAGTCAAT-CTTTTAGTGTTGTCATTCT
* * * * * *
3147020 TGACTTTCTTGTGAAGAAAAGTAAACCTTTTAGTGATGTTATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * *
3147065 TGACTTTCT-ATCGAATAGGAGTCAATCTTTTAGTGTTGTCATTAT
1 TGACTTTCTCGT-GAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * *
3147110 TGACTCTATCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC-TTCCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATT-CT
** * * * *
3147155 TGACTTTCTCACGAAGATG-ATTCTATCTTTTAGTGTTGTCCTACT
1 TGACTTTCTCGTGAAGA-GAAGTCAATCTTTTAGTGTTGTCATTCT
* * *
3147200 TGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGGTGTTATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * *
3147245 TGACTTTCTCGTGAAGAGAATTCAATCTTTCAGTATTGTCATTTT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * *
3147290 TGACTTTCTTGTG--GAG-AG--GA-GTTTTAGTGTTGTC-TTCCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATT-CT
** * * *
3147329 TGACTTTCTCACGAAGAGGAGTCGATCTTTCTTTAGTGTTGTCATACT
1 TGACTTTCTCGTGAAGAGAAGTCAATC--T-TTTAGTGTTGTCATTCT
* * * * *
3147377 TAACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * *
3147422 TGACTTTCTTGCGAAGAGGAGTCAATCTTTTAGTGTTGTCATTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
*** *
3147467 TGACTTTCTCGTGAAGAGAAGTTGGTCTTTTAGTGTTGTCCTTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * *
3147512 TGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATCCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
** * * *
3147557 TGACTTTCTCACGAAGAGGAGTCAATCTTTTAGTGTTTTCATTCC
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* * * *
3147602 TGACTTTCTCATGAAGAGAAATCAATCTTTTAGTGTTGACCTTCT
1 TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
* ** * * * * *
3147647 TAACTTTCTCACGAATA-AGAGTCAACCTTTTAGTGGTGTTAATCT
1 TGACTTTCTCGTGAAGAGA-AGTCAATCTTTTAGTGTTGTCATTCT
*
3147692 TAACTTTCTCG
1 TGACTTTCTCG
3147703 CAGAAAGGAG
Statistics
Matches: 814, Mismatches: 161, Indels: 46
0.80 0.16 0.05
Matches are distributed among these distances:
38 2 0.00
39 22 0.03
40 1 0.00
41 3 0.00
42 3 0.00
43 3 0.00
44 10 0.01
45 726 0.89
46 6 0.01
47 1 0.00
48 36 0.04
49 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (45 bp):
TGACTTTCTCGTGAAGAGAAGTCAATCTTTTAGTGTTGTCATTCT
Found at i:3148965 original size:3 final size:3
Alignment explanation
Indices: 3148957--3149005 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
3148947 TTTTTCCGAG
* *
3148957 TTA TTA TTA TTA ATA TTA TTA TTTA TTA TTA TTA TTA TTTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA
3149004 TT
1 TT
3149006 TAAGTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:3148984 original size:16 final size:16
Alignment explanation
Indices: 3148957--3149005 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
3148947 TTTTTCCGAG
3148957 TTATTA-TTATTAATA
1 TTATTATTTATTAATA
*
3148972 TTATTATTTATTATTA
1 TTATTATTTATTAATA
3148988 TTATTATTTATTAATA
1 TTATTATTTATTAATA
3149004 TT
1 TT
3149006 TAAGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 6 0.19
16 25 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATTTATTAATA
Found at i:3153749 original size:42 final size:42
Alignment explanation
Indices: 3153698--3153789 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
3153688 AGTGAAGTTC
3153698 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCAA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCAA
* * *
3153739 TAATATATTTAAATAAAAATTATTTATATGAAAATTTATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCAA
3153781 TAATATATT
1 TAATATATT
3153790 ATTTTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCAA
Found at i:3153777 original size:16 final size:15
Alignment explanation
Indices: 3153699--3153774 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
3153689 GTGAAGTTCT
3153699 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
3153714 AATTATTTATATAAA
1 AATTATTTAAATAAA
*
3153729 AATTCA--TCAAT-AA
1 AATT-ATTTAAATAAA
*
3153742 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
* *
3153756 AATTATTTATATGAA
1 AATTATTTAAATAAA
3153771 AATT
1 AATT
3153775 TATCGATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 7 0.15
14 6 0.12
15 32 0.67
16 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:3156219 original size:3 final size:3
Alignment explanation
Indices: 3156213--3156274 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
3156203 AATAATTATT
* *
3156213 TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
*
3156257 -ATT TAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA
3156275 ATTTAAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3156239 original size:24 final size:23
Alignment explanation
Indices: 3156202--3156274 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 23
3156192 TTTGGGCTTG
3156202 TAATAATTATTTAATAATATACTAA
1 TAATAA-TATTTAATAATATA-TAA
3156227 TAATAATATTTAATAATATAATAA
1 TAATAATATTTAATAATAT-ATAA
3156251 TAATAA-ATTTAATAATA-ATAA
1 TAATAATATTTAATAATATATAA
3156272 TAA
1 TAA
3156275 ATTTAAATGA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.15
23 11 0.23
24 22 0.47
25 7 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAATATTTAATAATATATAA
Found at i:3156265 original size:18 final size:18
Alignment explanation
Indices: 3156244--3156280 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3156234 ATTTAATAAT
3156244 ATAATAATAATAAATTTA
1 ATAATAATAATAAATTTA
3156262 ATAATAATAATAAATTTA
1 ATAATAATAATAAATTTA
3156280 A
1 A
3156281 ATGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATAATAATAAATTTA
Found at i:3156665 original size:74 final size:76
Alignment explanation
Indices: 3156399--3157319 Score: 1591
Period size: 74 Copynumber: 12.4 Consensus size: 76
3156389 GGAAATGTTT
* *
3156399 GAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAATCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156464 AAGGCTTTTTG
66 AAGGCTTTTTG
*
3156475 GAAA-ATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156539 AAGGCTTTTTG
66 AAGGCTTTTTG
3156550 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156614 AAGGC-TTTTG
66 AAGGCTTTTTG
*
3156624 GAAACATCATGCACTGAAGGACTTACAGATTACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156689 AA-GCTTTTTG
66 AAGGCTTTTTG
*
3156699 GTAACATCATGCACTGAAGGACTTACAGATGACCCGAA-GCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156763 AAGGCTTTTTTG
66 AAGGC-TTTTTG
3156775 G-AA-ATCAT-CACTGAAGGACTTACAGATGACCCG-AGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156835 AAGGCTTTTTG
66 AAGGCTTTTTG
3156846 GAAACATCATGCACTGAAGGACTTACAGATGA-CCGAAGGC-TTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156908 AAGGCTTTTTG
66 AAGGCTTTTTG
3156919 GAAACATCATGCACTGAA-GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3156983 AAGGC-TTTTG
66 AAGGCTTTTTG
* *
3156993 GTAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3157057 AAGGC-TTTTG
66 AAGGCTTTTTG
3157067 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3157130 AAGGCTTTTTG
66 AAGGCTTTTTG
3157141 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3157205 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
3157216 GAAACATCATGCACTAAAGGACTTACAGATGACCCG-A-GCTTTGAAAACATCAAAAAGCTCCCA
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
3157279 AAGGCTTTTT-
66 AAGGCTTTTTG
3157289 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
3157320 TGGGAAATAG
Statistics
Matches: 814, Mismatches: 14, Indels: 37
0.94 0.02 0.04
Matches are distributed among these distances:
71 7 0.01
72 32 0.04
73 173 0.21
74 285 0.35
75 259 0.32
76 58 0.07
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:3163024 original size:15 final size:15
Alignment explanation
Indices: 3162995--3163035 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
3162985 CTTGATTCAA
*
3162995 TTTTCCTTC-TTTTT
1 TTTTCTTTCTTTTTT
3163009 TTTTCTTTCTTTTTT
1 TTTTCTTTCTTTTTT
3163024 TTTTCTTTCTTT
1 TTTTCTTTCTTT
3163036 GCTGGATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTCTTTCTTTTTT
Found at i:3169860 original size:3 final size:3
Alignment explanation
Indices: 3169854--3169919 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
3169844 AATAATTATT
* *
3169854 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
*
3169899 TAA -ATT TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA
3169920 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 3 0.06
3 47 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:3169883 original size:27 final size:25
Alignment explanation
Indices: 3169843--3169919 Score: 120
Period size: 24 Copynumber: 3.0 Consensus size: 25
3169833 TTTGGGCTTG
3169843 TAATAATTATTTAATAATAATATACTAA
1 TAATAA-TATTTAATAATAATA-A-TAA
3169871 TAATAATATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
3169896 TAATAA-ATTTAATAATAATAATAA
1 TAATAATATTTAATAATAATAATAA
3169920 ATTTAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.37
25 9 0.18
26 1 0.02
27 15 0.31
28 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATAATATTTAATAATAATAATAA
Found at i:3171967 original size:69 final size:69
Alignment explanation
Indices: 3171884--3172021 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
3171874 GAACACAATA
3171884 CCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAAAC
1 CCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAAAC
3171949 TCTT
66 TCTT
* *
3171953 CCAGAACAGGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTGAAC
1 CCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAAAC
3172018 TCTT
66 TCTT
3172022 ATGTCAAACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (69 bp):
CCAGAACAAGATAAATAGCCATAATTTCCACAAACAAATCTCAAAGACAAATTAATGAAGTAAAC
TCTT
Found at i:3175756 original size:13 final size:13
Alignment explanation
Indices: 3175756--3175800 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
3175746 CCGTTGACCC
3175756 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
3175769 TACCCGACCCATT
1 GACCCGACCCGTT
*
3175782 GACTCGACCCGTT
1 GACCCGACCCGTT
3175795 GACCCG
1 GACCCG
3175801 TTGACCGTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.18, C:0.44, G:0.20, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3175756 original size:18 final size:18
Alignment explanation
Indices: 3175733--3175778 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
3175723 GACCGGTCAC
3175733 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
3175751 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
3175769 TACCCGACCC
1 GACCCGACCC
3175779 ATTGACTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.52, G:0.20, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:3175791 original size:18 final size:18
Alignment explanation
Indices: 3175737--3175792 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
3175727 GGTCACGACC
*
3175737 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACT
3175755 CGACCCGACCCGTT---T
1 CGACCCGACCCGTTGACT
*
3175770 --ACCCGACCCATTGACT
1 CGACCCGACCCGTTGACT
3175786 CGACCCG
1 CGACCCG
3175793 TTGACCCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
13 11 0.35
16 1 0.03
18 19 0.61
ACGTcount: A:0.18, C:0.48, G:0.20, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGTTGACT
Found at i:3175800 original size:8 final size:8
Alignment explanation
Indices: 3175787--3175833 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
3175777 CCATTGACTC
3175787 GACCCGTT
1 GACCCGTT
3175795 GACCCGTT
1 GACCCGTT
3175803 GA-CCGTT
1 GACCCGTT
3175810 GACCGGCGTT
1 GACC--CGTT
3175820 GACCACTGTT
1 GACC-C-GTT
3175830 GACC
1 GACC
3175834 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:3175810 original size:15 final size:16
Alignment explanation
Indices: 3175790--3175823 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
3175780 TTGACTCGAC
3175790 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
3175805 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
3175822 CC
1 CC
3175824 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:3177135 original size:18 final size:18
Alignment explanation
Indices: 3177109--3177144 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3177099 TCGAAAGGAC
*
3177109 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3177127 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3177145 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3178359 original size:24 final size:24
Alignment explanation
Indices: 3178289--3178378 Score: 112
Period size: 23 Copynumber: 3.8 Consensus size: 24
3178279 TCCGACTTGA
* *
3178289 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
3178312 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* *
3178335 ATTCTGATTTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
3178359 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
3178379 TTGAATTATG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
23 31 0.55
24 25 0.45
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:3180577 original size:13 final size:13
Alignment explanation
Indices: 3180577--3180608 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3180567 CCGTTGACCC
3180577 GACCCGACCCGTT
1 GACCCGACCCGTT
*
3180590 TACCCGACCCGTT
1 GACCCGACCCGTT
3180603 GACCCG
1 GACCCG
3180609 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:3180577 original size:18 final size:18
Alignment explanation
Indices: 3180554--3180614 Score: 86
Period size: 18 Copynumber: 3.2 Consensus size: 18
3180544 GACCGGTCAC
3180554 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
3180572 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
*
3180590 TACCCGACCCGTTGACCCGTT
1 GACCCGACCC---GACCCGTT
3180611 GACC
1 GACC
3180615 GTTGACCGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 27 0.71
21 11 0.29
ACGTcount: A:0.16, C:0.48, G:0.21, T:0.15
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:3180606 original size:8 final size:8
Alignment explanation
Indices: 3180595--3180641 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 8
3180585 CCGTTTACCC
3180595 GACCCGTT
1 GACCCGTT
3180603 GACCCGTT
1 GACCCGTT
3180611 GA-CCGTT
1 GACCCGTT
3180618 GACCGGCGTT
1 GACC--CGTT
3180628 GACCACTGTT
1 GACC-C-GTT
3180638 GACC
1 GACC
3180642 AAAACTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
7 7 0.21
8 11 0.32
9 1 0.03
10 15 0.44
ACGTcount: A:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:3180618 original size:15 final size:16
Alignment explanation
Indices: 3180598--3180631 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
3180588 TTTACCCGAC
3180598 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
3180613 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
3180630 CC
1 CC
3180632 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:3181944 original size:18 final size:18
Alignment explanation
Indices: 3181918--3181953 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3181908 TCGAAAGGAC
*
3181918 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
3181936 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
3181954 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:3183115 original size:23 final size:24
Alignment explanation
Indices: 3183089--3183187 Score: 103
Period size: 23 Copynumber: 4.2 Consensus size: 24
3183079 TATCTGATTT
* * *
3183089 CTGACTTGAATTCTGTTATGAT-C
1 CTGACCTGGATTCTGATATGATAC
*
3183112 CTGACCTGGATTCTGATCTGATA-
1 CTGACCTGGATTCTGATATGATAC
* * *
3183135 TTGACATGGATTCTGATCTGATAC
1 CTGACCTGGATTCTGATATGATAC
*
3183159 ATGACCTGGATTCTGATATGATAC
1 CTGACCTGGATTCTGATATGATAC
*
3183183 TTGAC
1 CTGAC
3183188 TTGAATTATG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
23 39 0.61
24 25 0.39
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
CTGACCTGGATTCTGATATGATAC
Found at i:3183168 original size:24 final size:24
Alignment explanation
Indices: 3183113--3183187 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
3183103 GTTATGATCC
3183113 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
3183136 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
3183160 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
3183184 TGAC
1 TGAC
3183188 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:3185384 original size:13 final size:13
Alignment explanation
Indices: 3185384--3185428 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
3185374 CCGTTGACCC
3185384 GACCCGACCCGTT
1 GACCCGACCCGTT
* * *
3185397 TACTCGACCCATT
1 GACCCGACCCGTT
*
3185410 GACTCGACCCGTT
1 GACCCGACCCGTT
3185423 GACCCG
1 GACCCG
3185429 TTGACCGTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.18, C:0.42, G:0.20, T:0.20
Consensus pattern (13 bp):
GACCCGACCCGTT
Done.