Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 150 of 310
Found at i:49097213 original size:29 final size:29
Alignment explanation
Indices: 49097179--49097244 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
49097169 GTTGAATCAC
* * *
49097179 GATGGTCATGACGATCCCTTTTCATAGTT
1 GATGGTCATCACCATCCCTTTTCATAATT
*
49097208 GATGGTCGTCACCATCCCTTTTCATAATT
1 GATGGTCATCACCATCCCTTTTCATAATT
*
49097237 GATAGTCA
1 GATGGTCA
49097245 AAGCTACCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (29 bp):
GATGGTCATCACCATCCCTTTTCATAATT
Found at i:49097288 original size:29 final size:29
Alignment explanation
Indices: 49097221--49097378 Score: 115
Period size: 29 Copynumber: 5.4 Consensus size: 29
49097211 GGTCGTCACC
* *
49097221 ATCCCTTTTCATAATTGATAGTCAAAGCT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
49097250 A-CCCTTTTTCATAATAGATAGCCAAAGCT
1 ATCCC-TTTTCATAATAGATAGCCAAAGCT
* * * *** *
49097279 ATCCCCTTTCATATTCA-ATGGTCGTCA-CC
1 ATCCCTTTTCATAAT-AGATAG-CCAAAGCT
* * *
49097308 ATCCCTTTTCATAGTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
** * *
49097337 ATCTTTTTTCATAATCGATAGCCAAAACT
1 ATCCCTTTTCATAATAGATAGCCAAAGCT
*
49097366 ATCCATTTTCATA
1 ATCCCTTTTCATA
49097379 GTTGATGATC
Statistics
Matches: 99, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
28 5 0.05
29 88 0.89
30 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (29 bp):
ATCCCTTTTCATAATAGATAGCCAAAGCT
Found at i:49097345 original size:87 final size:87
Alignment explanation
Indices: 49097192--49097392 Score: 269
Period size: 87 Copynumber: 2.3 Consensus size: 87
49097182 GGTCATGACG
* * *
49097192 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATTGATAGTCAAAGCTACCCTTT
1 ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTTT
*
49097257 TTCATAATAGATAGCCAAAGCT
66 TTCATAATAGATAGCCAAAACT
* * * * *
49097279 ATCCCCTTTCATA-TTCAATGGTCGTCACCATCCCTTTTCATAGTCGATAGCCGAAGCTATCTTT
1 ATCCCTTTTCATAGTT-AATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTT
*
49097343 TTTCATAATCGATAGCCAAAACT
65 TTTCATAATAGATAGCCAAAACT
* * *
49097366 ATCCATTTTCATAGTTGATGATCGTCA
1 ATCCCTTTTCATAGTTAATGGTCGTCA
49097393 TTACGCCATT
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
86 2 0.02
87 94 0.96
88 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (87 bp):
ATCCCTTTTCATAGTTAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTACCCTTT
TTCATAATAGATAGCCAAAACT
Found at i:49100192 original size:21 final size:21
Alignment explanation
Indices: 49100162--49100204 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
49100152 CTCGAAATTG
*
49100162 TACGTCGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
49100183 TACGTAGGATAATTCTTTTCA
1 TACGTAGGATAATTCTTTTCA
49100204 T
1 T
49100205 GCGACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (21 bp):
TACGTAGGATAATTCTTTTCA
Found at i:49101595 original size:27 final size:26
Alignment explanation
Indices: 49101547--49101598 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49101537 GCGAGGCTGC
*
49101547 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
49101573 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
49101599 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:49115915 original size:29 final size:29
Alignment explanation
Indices: 49115869--49115937 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
49115859 AGCCGAAGCT
*
49115869 ATCCCTTTTCATATTTGATGGTCATCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
*
49115898 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAGTTGATGGTCATCACC
49115927 ATCCCTTTTCA
1 ATCCCTTTTCA
49115938 AAATCGATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTGATGGTCATCACC
Found at i:49115986 original size:29 final size:29
Alignment explanation
Indices: 49115857--49115997 Score: 113
Period size: 29 Copynumber: 4.9 Consensus size: 29
49115847 GATGTTACAA
* * * *
49115857 ATAGCCGAAGCTATCCCTTTTCATATTTG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
* * * * *
49115886 ATGGTC-ATCACCATCCCTTTTCATAGTTG
1 ATAGTCGA-AACTATCCCTTTTCATAATCG
* ** * *
49115915 ATGGTCGTCACCATCCCTTTTCAAAATCG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
*
49115944 ATAGTCGAAGCTATCCCTTTTCATAATCG
1 ATAGTCGAAACTATCCCTTTTCATAATCG
* *
49115973 ATAGTTGAAACTATCCTTTTTCATA
1 ATAGTCGAAACTATCCCTTTTCATA
49115998 GTTGATGATC
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
28 1 0.01
29 90 0.99
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (29 bp):
ATAGTCGAAACTATCCCTTTTCATAATCG
Found at i:49116924 original size:14 final size:14
Alignment explanation
Indices: 49116905--49116931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49116895 CTTACATATT
49116905 AATTCTATAGCTAG
1 AATTCTATAGCTAG
49116919 AATTCTATAGCTA
1 AATTCTATAGCTA
49116932 TTTAGTACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
AATTCTATAGCTAG
Found at i:49121767 original size:26 final size:26
Alignment explanation
Indices: 49121732--49121782 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
49121722 AGTCATACAT
* *
49121732 CTCATAAGGGCGTAATAGTCAATTTAC
1 CTCATAAGGGCATAACAGTC-ATTTAC
49121759 CTCAT-AGGGCATAACAGTCATTTA
1 CTCATAAGGGCATAACAGTCATTTA
49121783 TCACTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (26 bp):
CTCATAAGGGCATAACAGTCATTTAC
Found at i:49129199 original size:34 final size:34
Alignment explanation
Indices: 49129140--49129204 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
49129130 GTTCAGTTAC
*
49129140 GGCCTCAGCCTATTACAGTATCAGTATCAGTGTG
1 GGCCTCAGCCTATTACAGTATCAGTAACAGTGTG
* *
49129174 GGCCTTAGCCTATTTCAGTGA-CAGTAACAGT
1 GGCCTCAGCCTATTACAGT-ATCAGTAACAGT
49129205 ACAAATATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 26 0.96
35 1 0.04
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
GGCCTCAGCCTATTACAGTATCAGTAACAGTGTG
Found at i:49131895 original size:28 final size:28
Alignment explanation
Indices: 49131863--49131942 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
49131853 CATACATGCT
*
49131863 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
*
49131891 TATGGCCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
* *
49131920 AATGGTCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
49131943 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 22 0.49
29 22 0.49
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.23
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:49132030 original size:17 final size:18
Alignment explanation
Indices: 49132008--49132042 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49131998 TTGCCTATTA
49132008 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
49132025 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
49132043 GCTGGCCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:49132186 original size:16 final size:16
Alignment explanation
Indices: 49132162--49132212 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
49132152 GTAGCCAAAC
49132162 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
* *
49132178 TTTCAGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
* *
49132194 TTTCGGCTTCTCGGGA
1 TTTCGGCTTTTCGGCA
49132210 TTT
1 TTT
49132213 GCCAATCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:49140979 original size:79 final size:82
Alignment explanation
Indices: 49140868--49141052 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
49140858 GCTACTCGTT
* *
49140868 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
49140931 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
49140948 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
49141011 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
49141028 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49141053 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:49141052 original size:40 final size:40
Alignment explanation
Indices: 49140849--49141052 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
49140839 CGGAATTTAA
** *
49140849 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49140889 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49140929 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49140968 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49141008 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49141048 CCGGA
1 CCGGA
49141053 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49157889 original size:20 final size:21
Alignment explanation
Indices: 49157850--49157890 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49157840 ACTTGTGTAA
*
49157850 CTATCAACAACCATTCAAAAT
1 CTATCAACAAACATTCAAAAT
*
49157871 CTATCATCAAACA-TCAAAAT
1 CTATCAACAAACATTCAAAAT
49157891 ACTCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (21 bp):
CTATCAACAAACATTCAAAAT
Found at i:49161055 original size:32 final size:32
Alignment explanation
Indices: 49161019--49161083 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
49161009 AATGAATGTG
49161019 AATGGTAAGTTTAATTCTTGTTATACGAACTT
1 AATGGTAAGTTTAATTCTTGTTATACGAACTT
*
49161051 AATGGTATGTTTAATTCTTGTTATACGAACTT
1 AATGGTAAGTTTAATTCTTGTTATACGAACTT
49161083 A
1 A
49161084 CTAAGCATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (32 bp):
AATGGTAAGTTTAATTCTTGTTATACGAACTT
Found at i:49165275 original size:157 final size:157
Alignment explanation
Indices: 49164989--49165277 Score: 436
Period size: 157 Copynumber: 1.8 Consensus size: 157
49164979 AAGCATTACA
* * *
49164989 TGCTTAGTAAGCTCGTATAATGGAAACTAAACTTACCAATCCCATTTATTAAATCTAATCATACA
1 TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAATCATACA
* * * * *
49165054 ATATCATGTTTTTCCATCCATTTGGCAAAATTGCTTAAACACATGCACTCAATCAAATAAGTTAG
66 ATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTAG
49165119 TCACAAAATTTGCATATACATCAAGTG
131 TCACAAAATTTGCATATACATCAAGTG
* * * *
49165146 TGCTTAGTAAGTTCGTACAACGGAAATTGAACTTACCAATCCCGTTTAGTAAATCTAAGT-ATAC
1 TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAA-TCATAC
* *
49165210 AATGTCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAATTCAATCAAACAAGTTA
65 AATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTA
49165275 GTC
130 GTC
49165278 TTAGTCACAA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
157 116 0.99
158 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (157 bp):
TGCTTAGTAAGCTCGTACAACGGAAACTAAACTTACCAATCCCATTTAGTAAATCTAATCATACA
ATATCATGTTTTTCCATCCATTAGGCAAAATTGCCTAAAAACATGAACTCAATCAAACAAGTTAG
TCACAAAATTTGCATATACATCAAGTG
Found at i:49171058 original size:16 final size:16
Alignment explanation
Indices: 49171037--49171068 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49171027 GTAACGCCCA
*
49171037 AAAAATCTCGAAATCT
1 AAAAATCCCGAAATCT
49171053 AAAAATCCCGAAATCT
1 AAAAATCCCGAAATCT
49171069 CAAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAAATCCCGAAATCT
Found at i:49172464 original size:29 final size:29
Alignment explanation
Indices: 49172426--49172533 Score: 148
Period size: 29 Copynumber: 3.8 Consensus size: 29
49172416 TGAATGTGAC
49172426 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
49172455 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
*
49172484 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* *
49172512 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
49172534 GGTATGTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.27
29 49 0.70
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:49173635 original size:17 final size:18
Alignment explanation
Indices: 49173603--49173636 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49173593 TTTAAGAAGG
49173603 GTTTTCAATGAAAACACA
1 GTTTTCAATGAAAACACA
*
49173621 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
49173637 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (18 bp):
GTTTTCAATGAAAACACA
Found at i:49175441 original size:8 final size:8
Alignment explanation
Indices: 49175424--49175480 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
49175414 TTGTAACGCC
49175424 CCAAAAAT
1 CCAAAAAT
**
49175432 CCCGAAAT
1 CCAAAAAT
49175440 CCAAAAAT
1 CCAAAAAT
*
49175448 CCCAAAAT
1 CCAAAAAT
49175456 CCAAAAAT
1 CCAAAAAT
* *
49175464 CTAGAAAT
1 CCAAAAAT
49175472 CCAAAAAT
1 CCAAAAAT
49175480 C
1 C
49175481 TCGAAATCCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.54, C:0.28, G:0.04, T:0.14
Consensus pattern (8 bp):
CCAAAAAT
Found at i:49175445 original size:16 final size:16
Alignment explanation
Indices: 49175424--49175489 Score: 96
Period size: 16 Copynumber: 4.1 Consensus size: 16
49175414 TTGTAACGCC
49175424 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
49175440 CCAAAAATCCCAAAAT
1 CCAAAAATCCCGAAAT
**
49175456 CCAAAAATCTAGAAAT
1 CCAAAAATCCCGAAAT
*
49175472 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
49175488 CC
1 CC
49175490 TGAATTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.52, C:0.29, G:0.05, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:49176885 original size:29 final size:29
Alignment explanation
Indices: 49176847--49176954 Score: 148
Period size: 29 Copynumber: 3.8 Consensus size: 29
49176837 TGAATGTGAC
49176847 TGGGCCTAATGGGCCATATACATGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
* *
49176876 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACATGTGATT
*
49176905 TGGGCCTAATGGGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACATGTGATT
* *
49176933 TGGGCTTAATGGGCCAAATACA
1 TGGGCCTAATGGGCCATATACA
49176955 GGTATGTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 19 0.27
29 49 0.70
30 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACATGTGATT
Found at i:49191333 original size:27 final size:27
Alignment explanation
Indices: 49191285--49191357 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
49191275 AAATAGAGCA
* * * *
49191285 TACCACTAAGGCAATCCATTCAGAGTT
1 TACCACAAAGGCTATTCTTTCAGAGTT
* * *
49191312 TATCATAAAGGTTATTCTTTCAGAGTT
1 TACCACAAAGGCTATTCTTTCAGAGTT
*
49191339 TGCCACAAAGGCTATTCTT
1 TACCACAAAGGCTATTCTT
49191358 AGCTGTCGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
TACCACAAAGGCTATTCTTTCAGAGTT
Found at i:49191660 original size:14 final size:14
Alignment explanation
Indices: 49191638--49191684 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
49191628 TACACCTGAA
49191638 CAGAACATACATCT
1 CAGAACATACATCT
* *
49191652 CATAACATACATTT
1 CAGAACATACATCT
49191666 CAGAACTATACATACT
1 CAGAAC-ATACAT-CT
49191682 CAG
1 CAG
49191685 CCATACTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 17 0.63
15 6 0.22
16 4 0.15
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (14 bp):
CAGAACATACATCT
Found at i:49194953 original size:34 final size:34
Alignment explanation
Indices: 49194907--49195005 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 34
49194897 TTGAACAATC
* ** *
49194907 TAGGCCTAAGCCCATATCAGTTGCAATATTAGTG
1 TAGGCCTTAGCCCATATCAGTAACAATATCAGTG
* *
49194941 TGGGCCTTAGCCCAATAT-AGTAACAGTATCAGTG
1 TAGGCCTTAGCCC-ATATCAGTAACAATATCAGTG
* *
49194975 TAGGCCTTAGCCCATTTCAGT-ACAGTATCAG
1 TAGGCCTTAGCCCATATCAGTAACAATATCAG
49195006 AAATGCATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
33 13 0.24
34 38 0.69
35 4 0.07
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
TAGGCCTTAGCCCATATCAGTAACAATATCAGTG
Found at i:49198879 original size:46 final size:46
Alignment explanation
Indices: 49198819--49199138 Score: 514
Period size: 46 Copynumber: 7.0 Consensus size: 46
49198809 TTTGACATGA
* * * * * * *
49198819 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
49198865 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
49198911 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
49198957 TGCCATGGTATCTTTCAACCATTGCCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
49199003 TGCCATGGTATCTTCCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
49199049 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
**
49199095 TGCCATGGTATCTTTCAACCATGGTCTTACATGTTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
49199139 AGAGCACACT
Statistics
Matches: 257, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 257 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:49202801 original size:30 final size:30
Alignment explanation
Indices: 49202734--49202801 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
49202724 CACCCTTAAA
* *
49202734 ATATTTGCACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
49202764 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
49202793 AGTATTTAC
1 A-TATTTAC
49202802 TCTTGGGCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.50
30 17 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:49207223 original size:26 final size:26
Alignment explanation
Indices: 49207194--49207247 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
49207184 TACCAATAGT
* *
49207194 AGTAACATAGCAGGGCTGCCAATAAC
1 AGTAACACAGCAAGGCTGCCAATAAC
* * *
49207220 AGTATCCCAGCAAGGCTGCCAGTAAC
1 AGTAACACAGCAAGGCTGCCAATAAC
49207246 AG
1 AG
49207248 AATGACTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (26 bp):
AGTAACACAGCAAGGCTGCCAATAAC
Found at i:49207338 original size:32 final size:32
Alignment explanation
Indices: 49207302--49207371 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
49207292 GATGGCCTAA
* * * * *
49207302 AGCCATCAGTAGCTATAGTATGTTTGGCACAG
1 AGCCATCAGTAACGATAATATGATCGGCACAG
* *
49207334 AGCCATTAGTAACGGTAATATGATCGGCACAG
1 AGCCATCAGTAACGATAATATGATCGGCACAG
49207366 AGCCAT
1 AGCCAT
49207372 AATCAGATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (32 bp):
AGCCATCAGTAACGATAATATGATCGGCACAG
Found at i:49207514 original size:43 final size:43
Alignment explanation
Indices: 49207421--49207529 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
49207411 GTCGTCTTGC
* *
49207421 GCGACCCATGCAACCTGAACAGAACAGTCCACAGTCGTCTCAT
1 GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
* * * *
49207464 GCAACCCGTGCAACCTTAATAGAATAGTCCACAGTCGTCTCGT
1 GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
* **
49207507 GTGACCCGTGTGACCTTAACAGA
1 GCGACCCGTGCAACCTTAACAGA
49207530 TCAATACTGG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (43 bp):
GCGACCCGTGCAACCTTAACAGAACAGTCCACAGTCGTCTCAT
Found at i:49207930 original size:27 final size:27
Alignment explanation
Indices: 49207826--49207931 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 27
49207816 TTACCCTACA
** * *
49207826 GGGGTATTTCAATAATTTTACAAATTA
1 GGGGTATTTCGGTAATTTTACAAACTC
* *
49207853 GGGGTATTTTGGTAATTTTA-AAAATC
1 GGGGTATTTCGGTAATTTTACAAACTC
*
49207879 GGGGGTATTTCGATAA-TTTACAAACTC
1 -GGGGTATTTCGGTAATTTTACAAACTC
* *
49207906 GGGCTATTTCGGTAATCTTACAAACT
1 GGGGTATTTCGGTAATTTTACAAACT
49207932 GAGGGCCTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
26 21 0.32
27 44 0.68
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCGGTAATTTTACAAACTC
Found at i:49214193 original size:21 final size:20
Alignment explanation
Indices: 49214142--49214194 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
49214132 AGTTCAAACT
*
49214142 ATAAAGACAAAAAAAACAAT
1 ATAAAGACAAAAAAAACAAC
* **
49214162 AAAAAGAACAATAAAAATTAAC
1 ATAAAG-ACAA-AAAAAACAAC
49214184 ATAAAGACAAA
1 ATAAAGACAAA
49214195 TGGACTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
20 6 0.23
21 8 0.31
22 12 0.46
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (20 bp):
ATAAAGACAAAAAAAACAAC
Found at i:49215029 original size:19 final size:21
Alignment explanation
Indices: 49215005--49215052 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
49214995 TCAAGAAAGC
*
49215005 AATAATAAGCAACAAT-AAT-
1 AATAATAAGAAACAATGAATA
*
49215024 AATAATAATAAACAATGAATA
1 AATAATAAGAAACAATGAATA
49215045 AATAATAA
1 AATAATAA
49215053 AAATAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
20 3 0.12
21 8 0.32
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (21 bp):
AATAATAAGAAACAATGAATA
Found at i:49215115 original size:19 final size:19
Alignment explanation
Indices: 49215091--49215134 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
49215081 ATTAGGAAAT
49215091 AAATAATTAAT-AATAATAA
1 AAATAATTAATGAATAA-AA
*
49215110 AAATAA-TAATGAATAAAG
1 AAATAATTAATGAATAAAA
49215128 AAATAAT
1 AAATAAT
49215135 AAAGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATAATTAATGAATAAAA
Found at i:49224638 original size:68 final size:64
Alignment explanation
Indices: 49224573--49224780 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
49224563 CATCATGTGT
* *
49224573 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
49224638 TAG
62 TAG
* * * * * *
49224641 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
49224706 AG
63 AG
* * * *
49224708 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
49224770 TACAAGAGAGC
1 -ACAAGAGAGC
49224781 CGAACTATAT
Statistics
Matches: 117, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 25 0.21
65 3 0.03
66 23 0.20
67 31 0.26
68 15 0.13
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:49231719 original size:38 final size:38
Alignment explanation
Indices: 49231668--49231934 Score: 156
Period size: 38 Copynumber: 6.3 Consensus size: 38
49231658 ATGGAAAAAT
* * *
49231668 GTGGTTCTGAGTGGATATACCACGGTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
49231706 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAAC
* *
49231754 GTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* * *
49231801 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
* *
49231839 GTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAAC
* *
49231886 ATGGTGCTAAGTGGATATACCACGGTTAAACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
*
49231924 GTGCTGCTAAG
1 GTGGTGCTAAG
49231935 AAAGAAACGA
Statistics
Matches: 178, Mismatches: 23, Indels: 56
0.69 0.09 0.22
Matches are distributed among these distances:
38 61 0.34
39 1 0.01
40 3 0.02
41 2 0.01
42 8 0.04
43 9 0.05
44 2 0.01
45 2 0.01
46 2 0.01
47 55 0.31
48 33 0.19
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACATGTAAC
Found at i:49231824 original size:47 final size:47
Alignment explanation
Indices: 49231702--49231913 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 47
49231692 GTTATACGTG
* * * *
49231702 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* * *
49231749 GTAACGTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
49231797 TAACATGGTGCTAAGTGGATATACCACGGTT--A-A-A-C-A-T--G
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
* *
49231835 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
*
49231882 TAACATGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
49231914 AACATGTAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
38 28 0.20
40 2 0.01
41 2 0.01
42 2 0.01
43 2 0.01
44 2 0.01
45 2 0.01
47 58 0.42
48 40 0.29
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATCGATTCAT
Found at i:49231847 original size:85 final size:85
Alignment explanation
Indices: 49231745--49231934 Score: 344
Period size: 85 Copynumber: 2.2 Consensus size: 85
49231735 ACATATTGAT
*
49231745 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTGCATATATCAATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
49231810 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* *
49231830 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATCGATTCATTAACATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
49231895 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
49231915 ACATGTAACGTGCTGCTAAG
1 ACATGTAACGTGGTGCTAAG
49231935 AAAGAAACGA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATCAATTCATTAACATGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:49232552 original size:52 final size:52
Alignment explanation
Indices: 49232493--49232596 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
49232483 TAAATCGTAT
*
49232493 ATAGCCATGTGATTTGGTTTATATTCGATCATTGGGTTGTAAACCTAATTGA
1 ATAGCCATGTGATATGGTTTATATTCGATCATTGGGTTGTAAACCTAATTGA
*
49232545 ATAGCCATGTGATATGGTTTATATTCGATCATTGGGTTGTAAACCTGATTGA
1 ATAGCCATGTGATATGGTTTATATTCGATCATTGGGTTGTAAACCTAATTGA
49232597 TTATGCATGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (52 bp):
ATAGCCATGTGATATGGTTTATATTCGATCATTGGGTTGTAAACCTAATTGA
Found at i:49234409 original size:15 final size:15
Alignment explanation
Indices: 49234389--49234430 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
49234379 GCTGTAAATA
49234389 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
49234404 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
49234419 GGATTTCCTTAT
1 GGATTTCCTTAT
49234431 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:49236973 original size:38 final size:38
Alignment explanation
Indices: 49236922--49237249 Score: 224
Period size: 38 Copynumber: 7.9 Consensus size: 38
49236912 TGGAAAAATA
* * *
49236922 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
49236960 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATACCACG---------GTT-ATACATGTAACG
* * * *
49237008 TGGTGCTAAGTGAATATACCACGGTTAAACATATAAAG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * * *
49237046 TGGTGCTAGGTGGATATGCCACAGTTACATATATCGATTCATTAACG
1 TGGTGCTAAGTGGATATACCAC-GGT---TATA-C-A-T--GTAACG
* * *
49237093 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
* * *
49237131 TGGTGCTAAGCGGATATGCCACGGTTACATATATCAATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATA-C-A-T--GTAACG
*
49237178 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
*
49237216 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACCACGGTTATACATGT
49237250 TAATTTGAAA
Statistics
Matches: 227, Mismatches: 35, Indels: 56
0.71 0.11 0.18
Matches are distributed among these distances:
38 111 0.49
39 5 0.02
40 2 0.01
41 2 0.01
42 8 0.04
43 8 0.04
44 2 0.01
45 2 0.01
46 3 0.01
47 51 0.22
48 33 0.15
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACCACGGTTATACATGTAACG
Found at i:49237025 original size:48 final size:48
Alignment explanation
Indices: 49236948--49237041 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
49236938 TACCATGGTT
* * *
49236948 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
*
49236996 ATACATGTAACGTGGTGCTAAGTGAATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATAT
49237042 AAAGTGGTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGAATATACCACGATTAAACATATTG
Found at i:49237116 original size:85 final size:85
Alignment explanation
Indices: 49236922--49237242 Score: 471
Period size: 85 Copynumber: 3.8 Consensus size: 85
49236912 TGGAAAAATA
* * * * * *
49236922 TGGTGTTAAGTGGATATACCATGGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
* * *
49236987 CACATATTGATACATGTAACG
66 CATATATCGATTCAT-TAACG
* * * * *
49237008 TGGTGCTAAGTGAATATACCACGGTTAAACATATAAAGTGGTGCTAGGTGGATATGCCACAGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
49237073 CATATATCGATTCATTAACG
66 CATATATCGATTCATTAACG
* * *
49237093 TTGTGCTAAGTGGATATACCACGGTTAAACATGCAACGTGGTGCTAAGCGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
*
49237158 CATATATCAATTCATTAACG
66 CATATATCGATTCATTAACG
49237178 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
49237243 TACATGTTAA
Statistics
Matches: 209, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
85 143 0.68
86 66 0.32
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (85 bp):
TGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
CATATATCGATTCATTAACG
Found at i:49241025 original size:46 final size:46
Alignment explanation
Indices: 49240969--49241105 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 46
49240959 ATATTTGGGC
49240969 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * * * * *
49241016 -TCTGAACTCGTTGAGTTGAGTCAGAGATC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGG
*
49241061 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCGA
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
49241106 ACGCCCAAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
43 4 0.06
45 3 0.04
46 29 0.42
47 28 0.41
48 2 0.03
50 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:49249506 original size:20 final size:21
Alignment explanation
Indices: 49249483--49249523 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49249473 AATAAACACA
*
49249483 TTAT-AAAAAAGTATTAAATG
1 TTATAAAAAAAATATTAAATG
49249503 TTATAAAAAAAATATTAAATG
1 TTATAAAAAAAATATTAAATG
49249524 ATAATGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
TTATAAAAAAAATATTAAATG
Found at i:49250007 original size:19 final size:20
Alignment explanation
Indices: 49249985--49250022 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49249975 ATAAAATTTA
49249985 ATTTGA-ATATGTAAATCAT
1 ATTTGAGATATGTAAATCAT
*
49250004 ATTTGAGATATTTAAATCA
1 ATTTGAGATATGTAAATCA
49250023 CACATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (20 bp):
ATTTGAGATATGTAAATCAT
Found at i:49258383 original size:13 final size:13
Alignment explanation
Indices: 49258365--49258389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49258355 ATCTATTTAC
49258365 TAATTTTTTTATA
1 TAATTTTTTTATA
49258378 TAATTTTTTTAT
1 TAATTTTTTTAT
49258390 TGGGCCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TAATTTTTTTATA
Found at i:49259529 original size:45 final size:45
Alignment explanation
Indices: 49259465--49259677 Score: 417
Period size: 45 Copynumber: 4.7 Consensus size: 45
49259455 AACCCGCCCC
49259465 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
49259510 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
49259555 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
49259600 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
*
49259645 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
49259678 ATGCTTAACC
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 167 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCA
Found at i:49261176 original size:17 final size:17
Alignment explanation
Indices: 49261153--49261202 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
49261143 GACAATGTGT
49261153 GAGCTATGTTTACATGC
1 GAGCTATGTTTACATGC
* * * *
49261170 TAGCTATCTTTATATCC
1 GAGCTATGTTTACATGC
*
49261187 GAGCTGTGTTTACATG
1 GAGCTATGTTTACATG
49261203 TGAACTGTGT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (17 bp):
GAGCTATGTTTACATGC
Found at i:49262814 original size:27 final size:27
Alignment explanation
Indices: 49262793--49262872 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
49262783 CTATTCAGTT
*
49262793 AGAGTTTGCCATATGTATTATTCCTTC
1 AGAGTTTGCCATATGTACTATTCCTTC
* *
49262820 AGTGTTTGCCATATGAACTATTCCTTC
1 AGAGTTTGCCATATGTACTATTCCTTC
* *
49262847 AGAGTTCGCCATATTTACTATTCCTT
1 AGAGTTTGCCATATGTACTATTCCTT
49262873 TTGTGTTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (27 bp):
AGAGTTTGCCATATGTACTATTCCTTC
Found at i:49262885 original size:27 final size:27
Alignment explanation
Indices: 49262796--49262887 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
49262786 TTCAGTTAGA
*
49262796 GTTTGCCATATGTATTATTCCTTCAGT
1 GTTTGCCATATGTACTATTCCTTCAGT
* *
49262823 GTTTGCCATATGAACTATTCCTTCAGA
1 GTTTGCCATATGTACTATTCCTTCAGT
* * **
49262850 GTTCGCCATATTTACTATTCCTTTTGT
1 GTTTGCCATATGTACTATTCCTTCAGT
*
49262877 GTTTACCATAT
1 GTTTGCCATAT
49262888 CTTCTAGTCT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (27 bp):
GTTTGCCATATGTACTATTCCTTCAGT
Found at i:49262902 original size:54 final size:54
Alignment explanation
Indices: 49262793--49262904 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 54
49262783 CTATTCAGTT
* * * * *
49262793 AGAGTTTGCCATATGTATTATTCCTTCAGTGTTTGCCATATGAACTATTCCTTC
1 AGAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCAACTAGTCCTTC
* ** ** *
49262847 AGAGTTCGCCATATTTACTATTCCTTTTGTGTTTACCATATCTTCTAGTCTTTC
1 AGAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCAACTAGTCCTTC
49262901 AGAG
1 AGAG
49262905 CTAACCACAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (54 bp):
AGAGTTCGCCATATGTACTATTCCTTCAGTGTTTACCATATCAACTAGTCCTTC
Found at i:49263002 original size:27 final size:27
Alignment explanation
Indices: 49262937--49263006 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
49262927 CGGGGCCTAC
49262937 CATACTTACCATTCTT-CAAAGCTAGT
1 CATACTTACCATTCTTCCAAAGCTAGT
* * ** * *
49262963 CATACCTATCATTCTTCCATGGTTTGT
1 CATACTTACCATTCTTCCAAAGCTAGT
49262990 CATACTTACCATTCTTC
1 CATACTTACCATTCTTC
49263007 TTTGTCAAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.24, C:0.29, G:0.07, T:0.40
Consensus pattern (27 bp):
CATACTTACCATTCTTCCAAAGCTAGT
Found at i:49265748 original size:17 final size:18
Alignment explanation
Indices: 49265717--49265751 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
49265707 ATACATTAAT
49265717 TAATATATATATAGATAA
1 TAATATATATATAGATAA
49265735 TAATATAT-TATAGATAA
1 TAATATATATATAGATAA
49265752 ACTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
TAATATATATATAGATAA
Found at i:49265919 original size:7 final size:7
Alignment explanation
Indices: 49265903--49266051 Score: 50
Period size: 7 Copynumber: 21.9 Consensus size: 7
49265893 AATAAATGAA
*
49265903 ATAATTT
1 ATAATAT
49265910 ATAATAT
1 ATAATAT
49265917 ATAATAT
1 ATAATAT
*
49265924 A-AAAAT
1 ATAATAT
* *
49265930 GTAAGTTT
1 ATAA-TAT
*
49265938 TTAA-A-
1 ATAATAT
*
49265943 ATAATGT
1 ATAATAT
49265950 ATAATAT
1 ATAATAT
*
49265957 A-AATAA
1 ATAATAT
49265963 AT-ATAT
1 ATAATAT
49265969 A-AGATAT
1 ATA-ATAT
49265976 ATAAGT-T
1 ATAA-TAT
49265983 A-AA-AT
1 ATAATAT
49265988 ATAATAT
1 ATAATAT
49265995 ATAATA-
1 ATAATAT
*
49266001 ATAATTT
1 ATAATAT
*
49266008 ACAA-ATT
1 ATAATA-T
* *
49266015 TTGAAAAT
1 AT-AATAT
49266023 ATAAATAAT
1 AT-AAT-AT
*
49266032 ATAATAA
1 ATAATAT
49266039 ATAATAT
1 ATAATAT
49266046 ATAATA
1 ATAATA
49266052 AATTAAAAAT
Statistics
Matches: 103, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
5 5 0.05
6 22 0.21
7 56 0.54
8 15 0.15
9 5 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:49265977 original size:21 final size:21
Alignment explanation
Indices: 49265953--49265997 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49265943 ATAATGTATA
49265953 ATATAA-ATAAATATATAAGAT
1 ATATAAGATAAA-ATATAAGAT
* *
49265974 ATATAAGTTAAAATATAATAT
1 ATATAAGATAAAATATAAGAT
49265995 ATA
1 ATA
49265998 ATAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
ATATAAGATAAAATATAAGAT
Found at i:49266415 original size:35 final size:37
Alignment explanation
Indices: 49266334--49266428 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 37
49266324 AAATTAAATC
*
49266334 TCTAAGATTACAAAATCATATCTTCTAAGATTGTATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTG-ATATCATA
*
49266376 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTACATATCATATCTAAGATTGATATCATA
49266411 TCTAAGATTACATATCAT
1 TCTAAGATTACATATCAT
49266429 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
35 18 0.36
36 5 0.10
37 10 0.20
40 6 0.12
41 1 0.02
42 10 0.20
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (37 bp):
TCTAAGATTACATATCATATCTAAGATTGATATCATA
Found at i:49266426 original size:14 final size:17
Alignment explanation
Indices: 49266357--49266419 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 17
49266347 AATCATATCT
49266357 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
*
49266376 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
49266394 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
49266411 TCTAAGATT
1 TCTAAGATT
49266420 ACATATCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.37
18 16 0.39
19 10 0.24
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:49275387 original size:44 final size:44
Alignment explanation
Indices: 49275315--49275402 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
49275305 ATTACATGTA
49275315 TCGCATCCATAATGAACTCAAACAAACTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAAACAAACTCAACGAGCTCAGATGC
* *** * *
49275359 TCGCATCCATAGTGAACTTGGACCAACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAAACAAACTCAACGAGCTCAGATGC
49275403 CTCATACATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (44 bp):
TCGCATCCATAATGAACTCAAACAAACTCAACGAGCTCAGATGC
Found at i:49294583 original size:44 final size:44
Alignment explanation
Indices: 49294517--49294602 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
49294507 TACATGTATT
*
49294517 GCATCCATAATAGACTCGGACCAACTCAACAAGCTCGGATGCTC
1 GCATCCATAATAGACTCAGACCAACTCAACAAGCTCGGATGCTC
* * *
49294561 GCATCCATAATTA-ACTCAGACCAATTCACCGAGCTCGGATGC
1 GCATCCATAA-TAGACTCAGACCAACTCAACAAGCTCGGATGC
49294603 ATCATACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 35 0.95
45 2 0.05
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (44 bp):
GCATCCATAATAGACTCAGACCAACTCAACAAGCTCGGATGCTC
Found at i:49296212 original size:50 final size:50
Alignment explanation
Indices: 49296092--49296333 Score: 220
Period size: 49 Copynumber: 4.9 Consensus size: 50
49296082 CAAAGCTATC
* * * * * * * **
49296092 TGGTACGCATAGTAGCCTACACTTAGTACTACAGATGCGACC-AATTACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATA
* **
49296141 TGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATA
* * * * *
49296191 TGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGATCGAAGTTATA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TAATA
* * * * *
49296242 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATA
* * *
49296291 CGGTACACGTAGTAGCTTTCACATT-GTACTACACACGTGACCT
1 TGGTACACGTAGTAGCCTGCAC-TTAGTACTACACACGTGACCT
49296334 CACAATAGAT
Statistics
Matches: 155, Mismatches: 34, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 70 0.45
50 47 0.30
51 38 0.25
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATAATA
Found at i:49303185 original size:49 final size:49
Alignment explanation
Indices: 49303121--49303295 Score: 244
Period size: 49 Copynumber: 3.5 Consensus size: 49
49303111 CTGGTACGCA
*
49303121 TAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * *
49303170 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCG-GTACACG
* *
49303221 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
49303270 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
49303296 CATGACCTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
49 63 0.57
50 10 0.09
51 38 0.34
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:49303232 original size:51 final size:49
Alignment explanation
Indices: 49303108--49303302 Score: 239
Period size: 49 Copynumber: 3.9 Consensus size: 49
49303098 TAGCCAAAGC
* * * *
49303108 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
49303157 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
49303208 TAT-CGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCG-GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
49303257 AATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACATGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
49303303 TCACAATAGA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
49 77 0.62
50 10 0.08
51 38 0.30
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:49303287 original size:100 final size:100
Alignment explanation
Indices: 49303114--49303296 Score: 330
Period size: 100 Copynumber: 1.8 Consensus size: 100
49303104 AAGCTATCTG
* * *
49303114 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCT
49303179 GCACTTAGTACTACACACGTGATCGAAGTTATCGA
66 GCACTTAGTACTACACACGTGATCGAAGTTATCGA
*
49303214 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCTT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCT
49303279 GCACTTAGTACTACACAC
66 GCACTTAGTACTACACAC
49303297 ATGACCTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 79 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATCGA
Found at i:49307676 original size:12 final size:13
Alignment explanation
Indices: 49307659--49307696 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
49307649 ATCCTGGAAT
49307659 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
49307671 ATTAAGAACACATA
1 ATTAAGAACA-AGA
49307685 ATTAAGAACAAG
1 ATTAAGAACAAG
49307697 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:49307730 original size:20 final size:20
Alignment explanation
Indices: 49307692--49307730 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49307682 ATAATTAAGA
* *
49307692 ACAAGTCAAATATTTATAAT
1 ACAAGTCAAATAGTAATAAT
*
49307712 ACAATTCAAATAGTAATAA
1 ACAAGTCAAATAGTAATAA
49307731 CAAGATCCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (20 bp):
ACAAGTCAAATAGTAATAAT
Found at i:49316454 original size:31 final size:31
Alignment explanation
Indices: 49316417--49316481 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
49316407 TCTTGTAACT
49316417 TTTTCCAAAACCATGATGTGAACCTTGGGTC
1 TTTTCCAAAACCATGATGTGAACCTTGGGTC
*
49316448 TTTTCCAAAACCATGATGTGAACTTTGGGTC
1 TTTTCCAAAACCATGATGTGAACCTTGGGTC
49316479 TTT
1 TTT
49316482 ATCTGATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (31 bp):
TTTTCCAAAACCATGATGTGAACCTTGGGTC
Found at i:49325530 original size:39 final size:40
Alignment explanation
Indices: 49325435--49325696 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
49325425 TTGAATGATG
*
49325435 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
49325473 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
49325514 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
49325553 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49325592 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
49325631 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
49325670 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
49325697 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49328757 original size:42 final size:42
Alignment explanation
Indices: 49328710--49328813 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
49328700 TATCGGGATG
* * *
49328710 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
49328752 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
49328794 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
49328814 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:49328827 original size:42 final size:42
Alignment explanation
Indices: 49328710--49328835 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
49328700 TATCGGGATG
* * ** *
49328710 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
49328752 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
49328794 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
49328835 T
1 T
49328836 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:49329748 original size:21 final size:21
Alignment explanation
Indices: 49329722--49329778 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
49329712 ATGGTATAAG
49329722 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
49329743 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
49329767 GTGGCATGAATT
1 GTTG-ATGAATT
49329779 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:49336068 original size:29 final size:28
Alignment explanation
Indices: 49336032--49336109 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
49336022 TCATGAGATT
49336032 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
49336062 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49336089 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
49336110 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49336327 original size:174 final size:174
Alignment explanation
Indices: 49336062--49336389 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
49336052 AAATTGTACA
*
49336062 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
49336127 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
49336192 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
49336236 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
49336301 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
49336366 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49336390 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49338895 original size:21 final size:22
Alignment explanation
Indices: 49338855--49338900 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
49338845 ATGACCCCTG
*
49338855 TTTCCAAAATTTTTCCTTTT-T
1 TTTCCAAAATTTTTCATTTTAT
49338876 TTTCCAAAA-TTTTCTATTTTAT
1 TTTCCAAAATTTTTC-ATTTTAT
49338898 TTT
1 TTT
49338901 AAAATGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCCAAAATTTTTCATTTTAT
Found at i:49345614 original size:30 final size:30
Alignment explanation
Indices: 49345578--49345644 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
49345568 GTTCTTAAGC
* * *
49345578 TTAATTTTTATCCTAATAAATC-CTTTATTT
1 TTAATTTGTATCCAAATAAATCTC-TAATTT
49345608 TTAATTTGTATCCAAATAAATCTCTAATTT
1 TTAATTTGTATCCAAATAAATCTCTAATTT
49345638 TTAATTT
1 TTAATTT
49345645 ATACTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (30 bp):
TTAATTTGTATCCAAATAAATCTCTAATTT
Found at i:49347450 original size:61 final size:62
Alignment explanation
Indices: 49347334--49347452 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 62
49347324 CCTTGAATTA
* * *
49347334 TTTTTAAAATTTTTAATTAAGCTCTTCAAAATTTTGAAAATTTCTATTTACCTTTTAATTTG
1 TTTTGAAAATTTTTAATCAAGCTCTTCAAAATTTTGAAAATTTCTATTAACCTTTTAATTTG
* *
49347396 TTTTGAAAA-TTTTAATCAAGCT-TTCTAAAATTTTGGAAATTT-TGATTAATCTTTTAA
1 TTTTGAAAATTTTTAATCAAGCTCTTC-AAAATTTTGAAAATTTCT-ATTAACCTTTTAA
49347453 AAAATTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
60 4 0.08
61 38 0.76
62 8 0.16
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (62 bp):
TTTTGAAAATTTTTAATCAAGCTCTTCAAAATTTTGAAAATTTCTATTAACCTTTTAATTTG
Found at i:49354042 original size:43 final size:43
Alignment explanation
Indices: 49353990--49354127 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
49353980 TAGGGTCTTT
*
49353990 CACGAAATCGATTAACGATGCCAATGTCCCAGACATAGTATTA
1 CACGTAATCGATTAACGATGCCAATGTCCCAGACATAGTATTA
* * * *
49354033 CACGTAATCG-TATAATGATGCCAATGTCCTAGACATGGTCTTA
1 CACGTAATCGAT-TAACGATGCCAATGTCCCAGACATAGTATTA
* * ** * * *
49354076 TACATAATC-ACAATACAATGCCAATGTCCCAGACATTGTGTTA
1 CACGTAATCGATTA-ACGATGCCAATGTCCCAGACATAGTATTA
*
49354119 CATGTAATC
1 CACGTAATC
49354128 TCATCTCGGT
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.03
43 73 0.97
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (43 bp):
CACGTAATCGATTAACGATGCCAATGTCCCAGACATAGTATTA
Found at i:49362862 original size:43 final size:43
Alignment explanation
Indices: 49362797--49362930 Score: 150
Period size: 43 Copynumber: 3.1 Consensus size: 43
49362787 AGCTCACACA
* *
49362797 ATGCCATATCCCAGATATGGTCTTACATGTAAAT-AC-ATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGTAAATCACAATA-CG
*
49362839 ATGCCACTATCCCAGACAGGGTCTTACACG-AAATCACAATACG
1 ATGCCA-TATCCCAGACATGGTCTTACACGTAAATCACAATACG
* * * *
49362882 ATGTCAATGTCCCAGACATGGTCTTACACGT-AATCTCAATACA
1 ATG-CCATATCCCAGACATGGTCTTACACGTAAATCACAATACG
49362925 ATGCCA
1 ATGCCA
49362931 ATGTCCAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
42 12 0.15
43 61 0.78
44 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCATATCCCAGACATGGTCTTACACGTAAATCACAATACG
Found at i:49372474 original size:25 final size:25
Alignment explanation
Indices: 49372432--49372480 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49372422 CTTTATTATT
* *
49372432 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
49372457 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
49372481 GGTCCTCTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:49372753 original size:40 final size:40
Alignment explanation
Indices: 49372703--49372799 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
49372693 TTGCGAATAC
*
49372703 CTGATAGCTTGTGTGAGTAGCTCATATAGCTATATCCTGA
1 CTGACAGCTTGTGTGAGTAGCTCATATAGCTATATCCTGA
*
49372743 CTGACAGCTTGTGTGAGTAGCTCATGTAGCTATATCCTGA
1 CTGACAGCTTGTGTGAGTAGCTCATATAGCTATATCCTGA
*
49372783 CTAACAGCTTGTGTGAG
1 CTGACAGCTTGTGTGAG
49372800 CAGACCCGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
CTGACAGCTTGTGTGAGTAGCTCATATAGCTATATCCTGA
Found at i:49373514 original size:171 final size:171
Alignment explanation
Indices: 49373229--49373584 Score: 667
Period size: 171 Copynumber: 2.1 Consensus size: 171
49373219 GTTAACCCTC
49373229 ACACGCCCGTGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTGTGTCCCCTACCCG
1 ACACGCCCGTGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTGTGTCCCCTACCCG
49373294 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACAC
66 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACAC
49373359 TTCCGTGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
131 TTCCGTGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
* *
49373400 ACACGCCCGTGTGGAGGCAATGCACACGCCCGTGTGCTTTGGGACATGCCTGTGTCCCCTACCCG
1 ACACGCCCGTGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTGTGTCCCCTACCCG
*
49373465 TGTGGCATTAATTGAATTTATTTTCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACAC
66 TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACAC
*
49373530 TTCCGTGTCTCTGGCCCGTGTCCTTTACATGGCCTGCCTTA
131 TTCCGTGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
*
49373571 ACACGCCTGTGTGG
1 ACACGCCCGTGTGG
49373585 TCGCCTGTGT
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 180 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (171 bp):
ACACGCCCGTGTGGAGGCAATGCACACGCCCGTGTACTTTGGGACACGCCTGTGTCCCCTACCCG
TGTGGAATTAATTGAATTTATTTTCTATTTCGAACCTACAGGGGTTTTCACACAGCCAAGCACAC
TTCCGTGTCTCTGGCCCGTGTCCTTCACATGGCCTGCCTTA
Found at i:49378400 original size:40 final size:40
Alignment explanation
Indices: 49378352--49378779 Score: 829
Period size: 40 Copynumber: 10.7 Consensus size: 40
49378342 GCAAACACAT
* *
49378352 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378392 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
49378432 ATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378472 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378512 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378552 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378592 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378632 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378672 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378712 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
49378752 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
49378780 TCCAATGCTC
Statistics
Matches: 384, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 384 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:49391916 original size:46 final size:44
Alignment explanation
Indices: 49391811--49391928 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 44
49391801 GGGGTAAGGT
49391811 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATTTCATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATTTCATG
* * * *
49391857 GCTGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTTGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACAT-TTCATG
49391903 GCCGATGCATGTCCCAGACATGTCTT
1 GCCGATGCATGTCCCAGACATGTCTT
49391929 GTACTAGCGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 12 0.19
45 13 0.21
46 35 0.56
47 3 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATTTCATG
Found at i:49392029 original size:94 final size:92
Alignment explanation
Indices: 49391860--49392030 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 92
49391850 TTTCATGGCT
* **
49391860 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTTGAGGCCGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGACATG
***
49391925 TCTTGTACTAGCGCTCGTCACAATACC
66 TCTAACACTAGCGCTCGTCACAATACC
* * * *
49391952 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATTTCCTATAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATAATGAGGCCGATGCATGTCCCAGAC
49392016 ATGTCTAACACTAGC
63 ATGTCTAACACTAGC
49392031 TCACACAACT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 4 0.06
93 13 0.20
94 48 0.73
95 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGACATG
TCTAACACTAGCGCTCGTCACAATACC
Found at i:49407856 original size:27 final size:27
Alignment explanation
Indices: 49407795--49407924 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
49407785 CATCACACAG
* *
49407795 GGGCAAAACT-GTCATCTTAGCATATAA
1 GGGCAAAA-TAGTCATTTTACCATATAA
* * * *
49407822 GAGAAAAATATTCATTTTACCATATAT
1 GGGCAAAATAGTCATTTTACCATATAA
* *
49407849 GGGCAAAATAGTCAATTTACCGTATAA
1 GGGCAAAATAGTCATTTTACCATATAA
* * *
49407876 GGGCAAAATAGTCATTTTACCACACAG
1 GGGCAAAATAGTCATTTTACCATATAA
* *
49407903 GGGCAATACAGTCATTTTACCA
1 GGGCAAAATAGTCATTTTACCA
49407925 CAAAGAGGTC
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 1 0.01
27 82 0.99
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCATATAA
Found at i:49407907 original size:54 final size:54
Alignment explanation
Indices: 49407788--49407924 Score: 143
Period size: 54 Copynumber: 2.5 Consensus size: 54
49407778 AAACATACAT
* *
49407788 CACACAGGGGCAAAACT-GTC-ATCTTAGCATATAAGAGAAAAATATTCATTTTAC
1 CACACAGGGGCAAAA-TAGTCAAT-TTACCATATAAGAGAAAAATAGTCATTTTAC
* * * * * *
49407842 CATATATGGGCAAAATAGTCAATTTACCGTATAAGGGCAAAATAGTCATTTTAC
1 CACACAGGGGCAAAATAGTCAATTTACCATATAAGAGAAAAATAGTCATTTTAC
* * *
49407896 CACACAGGGGCAATACAGTCATTTTACCA
1 CACACAGGGGCAAAATAGTCAATTTACCA
49407925 CAAAGAGGTC
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
53 1 0.02
54 63 0.95
55 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (54 bp):
CACACAGGGGCAAAATAGTCAATTTACCATATAAGAGAAAAATAGTCATTTTAC
Found at i:49410722 original size:46 final size:46
Alignment explanation
Indices: 49410655--49410776 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 46
49410645 TGTGTGCTAG
49410655 TGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCC-CATTGATGAGAGCCAA
* * *
49410701 TGTAAGACATGTCTGGGACATGCATCAG--CATTGAGATGAGAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCCATT--GATGAGAGCCAA
* *
49410747 TGTAAGACAAGTCTAGGACATGCATCGGCC
1 TGTAAGACATGTCTGGGACATGCATCGGCC
49410777 TCGAAATATG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.06
46 61 0.94
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCCATTGATGAGAGCCAA
Found at i:49410900 original size:49 final size:49
Alignment explanation
Indices: 49410653--49411008 Score: 190
Period size: 49 Copynumber: 7.5 Consensus size: 49
49410643 TATGTGTGCT
* * * * *
49410653 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * *
49410699 AATGTAAGACATGTCTGGGACAT-GCATC-AGCATTG--AGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGAAAGCC
** * * * * * *
49410745 AGTGTAAGACAAGTCTAGGACAT-GCATCGGCCTCGAAATATGCAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
** * * * * * *
49410793 AGTGTAAGACCCATCTGGGATATGGCGTC-AGCTTGAT-G-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * *
49410837 AGTATAAGACCTGTCTGGGACATGGCATCGACAC-CGGTAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
49410886 AGTGTAAGACCTGTCTAGGACACGGCATC-AGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAGATGAAAGCC
* * * * *
49410935 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTTGAT-G-TGCTAA-CT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATG-AAAGCC
49410982 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
49411009 GTCGGCATTT
Statistics
Matches: 235, Mismatches: 57, Indels: 34
0.72 0.17 0.10
Matches are distributed among these distances:
44 25 0.11
45 3 0.01
46 68 0.29
47 15 0.06
48 48 0.20
49 75 0.32
50 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:49410960 original size:142 final size:145
Alignment explanation
Indices: 49410703--49411008 Score: 346
Period size: 142 Copynumber: 2.2 Consensus size: 145
49410693 AGAGCCAATG
** *
49410703 TAAGA-CATGTCTGGGACAT-GCATC-AGCA-TTG-AGATGAGAGCTAGTGTAAGACAAGTCTAG
1 TAAGACCATGTCTGGGACATGGCATCGA-CACCGGTAGATGAGAGCCAGTGTAAGACAAGTCTAG
* * * * *
49410763 GACATGCATCGGCCTCGAAATATGCAAGCTAGTGTAAGACCCATCTGGGATATGGCGTC-AGC-T
65 GACAGGCATCAGCCTCGAAATATGAAAGCTAGTGTAAGACCCATCTGGGACATGGCATCGA-CTT
**
49410826 TGATGTG-TGTC-AGTA
129 TGATGTGCTAACTAGTA
**
49410841 TAAGACC-TGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCCAGTGTAAGACCTGTCTAGG
1 TAAGACCATGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCCAGTGTAAGACAAGTCTAGG
* ** *
49410905 ACACGGCATCAGCCTCGATATATGAAAG-TCAGTGTAAGACCTGTTTGGGACATGGCATCGACTT
66 ACA-GGCATCAGCCTCGAAATATGAAAGCT-AGTGTAAGACCCATCTGGGACATGGCATCGACTT
*
49410969 TGATGTGCTAACTAGTG
129 TGATGTGCTAACTAGTA
49410986 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATGTCTGGGACATGGC
49411009 GTCGGCATTT
Statistics
Matches: 139, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
138 17 0.12
139 8 0.06
140 2 0.01
141 31 0.22
142 45 0.32
143 9 0.06
144 2 0.01
145 10 0.07
146 15 0.11
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (145 bp):
TAAGACCATGTCTGGGACATGGCATCGACACCGGTAGATGAGAGCCAGTGTAAGACAAGTCTAGG
ACAGGCATCAGCCTCGAAATATGAAAGCTAGTGTAAGACCCATCTGGGACATGGCATCGACTTTG
ATGTGCTAACTAGTA
Found at i:49412429 original size:42 final size:42
Alignment explanation
Indices: 49412351--49412432 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
49412341 TGGTTATGTG
* * * *
49412351 TGATTTTGTGTAAGACCATATCTAGTATATGGCATCGATATT
1 TGATTTTGTGTAAGACCATATCTAGGACACGACATCGATATT
* *
49412393 TGATTTTGTGTAAGACCATGTCTGGGACACGACATCGATA
1 TGATTTTGTGTAAGACCATATCTAGGACACGACATCGATA
49412433 CGAGATATCG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (42 bp):
TGATTTTGTGTAAGACCATATCTAGGACACGACATCGATATT
Found at i:49421358 original size:42 final size:42
Alignment explanation
Indices: 49421279--49421358 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
49421269 GTTATGTGTG
* * ** *
49421279 ATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATTTA
1 ATTTCGTGTAAGACCATATCTAGGACATAACACCGATATTTA
* *
49421321 ATTTCGTGTAAGTCCATGTCTAGGACATAACACCGATA
1 ATTTCGTGTAAGACCATATCTAGGACATAACACCGATA
49421359 CAAGATATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATATCTAGGACATAACACCGATATTTA
Found at i:49441815 original size:16 final size:17
Alignment explanation
Indices: 49441794--49441826 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49441784 TAAAAAAAAA
*
49441794 TTAAATTATTTT-AAAT
1 TTAAATAATTTTGAAAT
49441810 TTAAATAATTTTGAAAT
1 TTAAATAATTTTGAAAT
49441827 CCAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAAATAATTTTGAAAT
Found at i:49457691 original size:43 final size:43
Alignment explanation
Indices: 49457633--49457773 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 43
49457623 AGGCTTCAAC
*
49457633 CCCCTAAGAAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
* ** * * *
49457676 CCCCTAAGCAGTAGGG--A-AA--C--A-GGTC-GAGCTTTAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
49457710 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
* *
49457753 CCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAATAGGGTAACA
49457774 GGTCGCGCTT
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
34 21 0.28
35 2 0.03
36 2 0.03
37 2 0.03
38 1 0.01
39 1 0.01
40 2 0.03
41 2 0.03
42 2 0.03
43 39 0.53
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (43 bp):
CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
Found at i:49457717 original size:34 final size:34
Alignment explanation
Indices: 49457674--49457794 Score: 98
Period size: 34 Copynumber: 3.3 Consensus size: 34
49457664 TCAAACCTTA
49457674 AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
1 AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
* ** * * *
49457708 AACCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTA
1 AACCCCTAAGCAGTAGGG--A-AA--C--A-GGTC-GAGCTTT
*
49457751 AACCCCTAAGCAGTAGGGAAACAGGTCGCGCTTT
1 AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
49457785 AACCCCTAAG
1 AACCCCTAAG
49457795 TAGTGGGGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 18
0.68 0.14 0.19
Matches are distributed among these distances:
34 30 0.46
35 2 0.03
36 2 0.03
37 2 0.03
38 1 0.02
39 1 0.02
40 2 0.03
41 2 0.03
42 2 0.03
43 21 0.32
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (34 bp):
AACCCCTAAGCAGTAGGGAAACAGGTCGAGCTTT
Found at i:49457818 original size:77 final size:77
Alignment explanation
Indices: 49457633--49457810 Score: 311
Period size: 77 Copynumber: 2.3 Consensus size: 77
49457623 AGGCTTCAAC
*
49457633 CCCCTAAGAAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
49457698 GTCGAGCTTTAA
66 GTCGAGCTTTAA
49457710 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
*
49457775 GTCGCGCTTTAA
66 GTCGAGCTTTAA
* * *
49457787 CCCCTAAGTAGTGGGGTAACAAGC
1 CCCCTAAGCAATAGGGTAACAAGC
49457811 TGAATTTTGA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 96 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (77 bp):
CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAACCCCTAAGCAGTAGGGAAACAG
GTCGAGCTTTAA
Found at i:49458235 original size:122 final size:122
Alignment explanation
Indices: 49458088--49458355 Score: 527
Period size: 122 Copynumber: 2.2 Consensus size: 122
49458078 AAATTTTCAA
*
49458088 ACCTTAAACCCCTAAGCAGTAGGGAAACAGGTCGCGCTTTAACCCCTAAGTAGTGGGGTAACAAG
1 ACCTTAACCCCCTAAGCAGTAGGGAAACAGGTCGCGCTTTAACCCCTAAGTAGTGGGGTAACAAG
49458153 CTGAATTTTGAAGATCTTATCATCCTAAGCAATAGGGAAACAAATCAATGAAGACAG
66 CTGAATTTTGAAGATCTTATCATCCTAAGCAATAGGGAAACAAATCAATGAAGACAG
49458210 ACCTTAACCCCCTAAGCAGTAGGGAAACAGGTCGCGCTTTAACCCCTAAGTAGTGGGGTAACAAG
1 ACCTTAACCCCCTAAGCAGTAGGGAAACAGGTCGCGCTTTAACCCCTAAGTAGTGGGGTAACAAG
49458275 CTGAATTTTGAAGATCTTATCATCCTAAGCAATAGGGAAACAAATCAATGAAGACAG
66 CTGAATTTTGAAGATCTTATCATCCTAAGCAATAGGGAAACAAATCAATGAAGACAG
49458332 ACCTTAACCCCCTAAGCAGTAGGG
1 ACCTTAACCCCCTAAGCAGTAGGG
49458356 TAATAGGCTG
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 145 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (122 bp):
ACCTTAACCCCCTAAGCAGTAGGGAAACAGGTCGCGCTTTAACCCCTAAGTAGTGGGGTAACAAG
CTGAATTTTGAAGATCTTATCATCCTAAGCAATAGGGAAACAAATCAATGAAGACAG
Found at i:49466232 original size:40 final size:40
Alignment explanation
Indices: 49466177--49466439 Score: 320
Period size: 40 Copynumber: 6.5 Consensus size: 40
49466167 TATTCGGATG
49466177 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
*
49466217 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
49466260 ACACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
49466300 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
49466343 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
49466383 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
49466423 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
49466440 AAAGATACTT
Statistics
Matches: 194, Mismatches: 16, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
39 14 0.07
40 106 0.55
41 2 0.01
43 67 0.35
44 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:49466320 original size:83 final size:83
Alignment explanation
Indices: 49466181--49466418 Score: 415
Period size: 83 Copynumber: 2.9 Consensus size: 83
49466171 CGGATGATAT
*
49466181 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTG
49466246 TGCGAGTAGTTGCTACAC
66 TGCGAGTAGTTGCTACAC
49466264 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTG
*
49466329 TGCGAGTAGTTGCTATAC
66 TGCGAGTAGTTGCTACAC
* * *
49466347 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATTCGGGCT-AAGACCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGG-TGAAGTCCCGAAGGCATTT
49466411 GTGCGAGT
65 GTGCGAGT
49466419 TGCTATATCC
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
83 148 0.99
84 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (83 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGTGAAGTCCCGAAGGCATTTG
TGCGAGTAGTTGCTACAC
Found at i:49466396 original size:123 final size:121
Alignment explanation
Indices: 49466177--49466439 Score: 322
Period size: 123 Copynumber: 2.1 Consensus size: 121
49466167 TATTCGGATG
*
49466177 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCA
* * *
49466242 TTTGTGCGAGTAGTTGCTACACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
66 TTTATGC--GTAGTTGCTACACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
*
49466300 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGA
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC---TAG-TGACTATACCCGGGCGAAGTCCCGA
* **
49466363 AGGCATTTATGC-TAG-TGACTATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
61 AGGCATTTATGCGTAGTTG-CTACACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
49466423 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
49466440 AAAGATACTT
Statistics
Matches: 123, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
122 11 0.09
123 74 0.60
124 2 0.02
126 34 0.28
127 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (121 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATACCCGGGCGAAGTCCCGAAGGCA
TTTATGCGTAGTTGCTACACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:49468942 original size:48 final size:48
Alignment explanation
Indices: 49468871--49469056 Score: 250
Period size: 48 Copynumber: 3.9 Consensus size: 48
49468861 CGTGACACCG
*
49468871 TGATAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
1 TGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
*
49468919 TGATATATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGA
1 TGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
* * * *
49468967 TGATATGTGTGCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCGA
1 TGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
** * *
49469015 TGAT-T-TGTGGATTCATGTAAGACCATGTCAGGGACATGGCAT
1 TGATATATGT-GCCT-GTGTAAGACCATGTCTGGGACATGGCAT
49469057 TGGTACTTTA
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 3 0.02
47 2 0.02
48 117 0.96
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGATATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA
Found at i:49475863 original size:15 final size:15
Alignment explanation
Indices: 49475843--49475881 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
49475833 CACACAAGTG
49475843 GCCACACGGGTGTGT
1 GCCACACGGGTGTGT
49475858 GCCACACGGGTGTGT
1 GCCACACGGGTGTGT
49475873 GCCACACGG
1 GCCACACGG
49475882 TCGGTTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (15 bp):
GCCACACGGGTGTGT
Found at i:49476274 original size:20 final size:22
Alignment explanation
Indices: 49476231--49476276 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
49476221 GTCCCTAGGT
* *
49476231 CACACAGGTGTGTGCCTCCTTC
1 CACACAGGCGTATGCCTCCTTC
49476253 CACACAGGCGTATGCC-CC-TC
1 CACACAGGCGTATGCCTCCTTC
49476273 CACA
1 CACA
49476277 TGGGCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 2 0.09
22 14 0.64
ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20
Consensus pattern (22 bp):
CACACAGGCGTATGCCTCCTTC
Found at i:49485840 original size:43 final size:43
Alignment explanation
Indices: 49485812--49485926 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
49485802 TATCTCATAT
* *
49485812 CGATGGCAATGTCCTAGACATGCTCTTACACGAAATCATATAA
1 CGATGCCAATGTCCTAAACATGCTCTTACACGAAATCATATAA
* * *
49485855 CGATGCCAATGTCCTAAACATGGTCTTACACGTAATCACA-ATA
1 CGATGCCAATGTCCTAAACATGCTCTTACACGAAATCATATA-A
* * *
49485898 CAATTCCAATGTCCTAGACAT-CATCTTAC
1 CGATGCCAATGTCCTAAACATGC-TCTTAC
49485927 TGTAATCACA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (43 bp):
CGATGCCAATGTCCTAAACATGCTCTTACACGAAATCATATAA
Found at i:49489052 original size:48 final size:48
Alignment explanation
Indices: 49489000--49489183 Score: 251
Period size: 48 Copynumber: 3.8 Consensus size: 48
49488990 ATGTCAATGT
* * *
49489000 CGATGCCATGTCCCAGACATGGTCTTAGACTAGCACACATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACAC
* * *
49489048 CGATGCCATGTCCCACACATGGTCGTACACTGGCTCACATATCAACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACAC
* * * * *
49489096 CGATTCCATGTCCTAGACATCGACTTACACTGGCTCACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACAC
* *
49489144 TGATGGCATGTCCCAGACATGGTCTTACACTGGCTCACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
49489184 TAACCACGGT
Statistics
Matches: 116, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 116 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACAC
Found at i:49490729 original size:26 final size:26
Alignment explanation
Indices: 49490700--49490759 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
49490690 TCCCTTTGAA
* * *
49490700 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
49490726 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
49490754 CCATTC
1 TCATTC
49490760 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:49490745 original size:28 final size:28
Alignment explanation
Indices: 49490714--49490785 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
49490704 TCGATATTTT
*
49490714 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
49490742 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
49490770 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
49490786 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:49493915 original size:141 final size:141
Alignment explanation
Indices: 49493661--49493968 Score: 474
Period size: 141 Copynumber: 2.2 Consensus size: 141
49493651 TTTCACACGC
* * *
49493661 AATTTCTTTATGAAATTTTCACAAAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
1 AATTTCTTCACGAAATTTTCACACAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
* * * * *
49493726 TAATTATTTCTATTTCAAATTTGTGGTCTCGAAACCACTGTTCTGACTAGGCCCTAATTCGGGAT
66 TAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGAT
*
49493791 GTTACAGGTAA
131 GTTACAAGTAA
* *
49493802 AATTTCTTCACGAAATTTTCACACAAGCAT-ACAAACATATCTTAGGCCTTATAATAATCATAAA
1 AATTTCTTCACGAAATTTTCACACAAGAATGA-AAACATATCATAGGCCTTATAATAATCATAAA
*
49493866 CTAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGA
65 ATAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGA
*
49493931 TGTTATAAGTAA
130 TGTTACAAGTAA
*
49493943 AATTTCTTCACGAAATTTTTACACAA
1 AATTTCTTCACGAAATTTTCACACAA
49493969 CCCTAATATC
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
140 1 0.01
141 151 0.99
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (141 bp):
AATTTCTTCACGAAATTTTCACACAAGAATGAAAACATATCATAGGCCTTATAATAATCATAAAA
TAATTATTTATATTTCAAACTTATGGTCTCAAAACCACTATTCTGACTAGGCCCTAATTCGGGAT
GTTACAAGTAA
Found at i:49497742 original size:21 final size:22
Alignment explanation
Indices: 49497718--49497765 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
49497708 AAAAAACAAG
* *
49497718 AAAATAA-CAATAAAATAGTAA
1 AAAATAAGCAAGAAAACAGTAA
49497739 AAAA-AAGCAAGAAAACAGTAA
1 AAAATAAGCAAGAAAACAGTAA
49497760 AAAATA
1 AAAATA
49497766 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 20 0.87
22 1 0.04
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAATAAGCAAGAAAACAGTAA
Found at i:49497879 original size:31 final size:30
Alignment explanation
Indices: 49497844--49497902 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
49497834 TTTCTAAATG
* **
49497844 AGACTTATTTTTTTGTCCAAATCTATTTTTC
1 AGACTTATATTTTTACCCAAATC-ATTTTTC
49497875 AGACTTATATTTTTACCCAAATCATTTT
1 AGACTTATATTTTTACCCAAATCATTTT
49497903 ACTTTTCGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (30 bp):
AGACTTATATTTTTACCCAAATCATTTTTC
Found at i:49504933 original size:20 final size:20
Alignment explanation
Indices: 49504908--49504945 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49504898 ACAATGAAGG
49504908 AATAAAATATACTA-AAATGA
1 AATAAAATA-ACTACAAATGA
49504928 AATAAAATAACTACAAAT
1 AATAAAATAACTACAAAT
49504946 AAACTCTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
AATAAAATAACTACAAATGA
Found at i:49518003 original size:40 final size:40
Alignment explanation
Indices: 49517948--49518059 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
49517938 TATTCGGATG
* * *
49517948 ATATCCGGGCTAAGTCCCGAGGGCATTTGTTCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
49517988 ATATCCGGGCTAAGTCCAGAATGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* * *
49518028 ATATCCGGGCTAAGACCCGAAGGTATTCGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
49518060 GAGTTGTATA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
Found at i:49526152 original size:40 final size:40
Alignment explanation
Indices: 49526097--49526277 Score: 222
Period size: 40 Copynumber: 4.5 Consensus size: 40
49526087 TATTCGGATG
* * *
49526097 ATATCCGGGCTAAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49526137 ATATCTGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * **
49526177 ATATCTGGGCTAAGTGCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
49526217 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
49526257 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
49526278 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 12 0.10
40 107 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49530050 original size:50 final size:51
Alignment explanation
Indices: 49529987--49530087 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 51
49529977 AGATTCACAG
*
49529987 CAGGACTGAGGAGTATAAACTCCTCAAACAACCAT-ACCATTCAATGGAAA
1 CAGGAATGAGGAGTATAAACTCCTCAAACAACCATGACCATTCAATGGAAA
* *
49530037 CAGGAATGAGGAGTATAAACTCCTCGAACCACCATGACCATTCAATGGAAA
1 CAGGAATGAGGAGTATAAACTCCTCAAACAACCATGACCATTCAATGGAAA
49530088 GGTAAGTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 32 0.68
51 15 0.32
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (51 bp):
CAGGAATGAGGAGTATAAACTCCTCAAACAACCATGACCATTCAATGGAAA
Found at i:49537667 original size:13 final size:13
Alignment explanation
Indices: 49537649--49537678 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
49537639 ATCATAAACC
49537649 ACATAGTTCATAT
1 ACATAGTTCATAT
49537662 ACATAGTTCATAT
1 ACATAGTTCATAT
49537675 ACAT
1 ACAT
49537679 TTTCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (13 bp):
ACATAGTTCATAT
Found at i:49537831 original size:50 final size:50
Alignment explanation
Indices: 49537753--49537855 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
49537743 TATTCACAAG
*
49537753 CATAGTATACATTTTAAACGTACCTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
*
49537803 CATAGTATACATTTCAAACGTACTTGATTCAGATACACATTTCATATATT
1 CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
49537853 CAT
1 CAT
49537856 TCTTTTCTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (50 bp):
CATAGTATACATTTCAAACGTACCTGATTCAGATACACATTTCATATATT
Found at i:49546277 original size:24 final size:24
Alignment explanation
Indices: 49546176--49546323 Score: 82
Period size: 24 Copynumber: 6.0 Consensus size: 24
49546166 ACACAGTGTT
** *
49546176 ATTCAAATCCGCACACTTAGTGCC
1 ATTCAAATCAACACACATAGTGCC
* * * *
49546200 ATGCTAACCCACACACATAGTGCC
1 ATTCAAATCAACACACATAGTGCC
* * * * *
49546224 -TTAGAAATCCACACACTCGTATTGAC
1 ATT-CAAAT-CA-ACACACATAGTGCC
*
49546250 ATTCAAATCAACACACATAGTGCT
1 ATTCAAATCAACACACATAGTGCC
* **
49546274 ATTCAATTCCGCACACATAGTGCC
1 ATTCAAATCAACACACATAGTGCC
** *
49546298 ATTCAAAATCCGCACACTTAGTGCC
1 ATTC-AAATCAACACACATAGTGCC
49546323 A
1 A
49546324 ATGTCATTTC
Statistics
Matches: 93, Mismatches: 26, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.01
24 54 0.58
25 22 0.24
26 14 0.15
27 2 0.02
ACGTcount: A:0.34, C:0.31, G:0.11, T:0.24
Consensus pattern (24 bp):
ATTCAAATCAACACACATAGTGCC
Found at i:49547723 original size:54 final size:54
Alignment explanation
Indices: 49547664--49547772 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
49547654 AGAAGATATG
*
49547664 TAAATAAATTTTAAATAAATTTTATGACTCGGTTTTGTGGTCCCGAAACCACAT
1 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
49547718 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
1 TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
49547772 T
1 T
49547773 CCGACTAGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (54 bp):
TAAATAAATTTTAAATAAATTTTATGACTCAGTTTTGTGGTCCCGAAACCACAT
Found at i:49547733 original size:11 final size:11
Alignment explanation
Indices: 49547717--49547741 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49547707 CGAAACCACA
49547717 TTAAATAAATT
1 TTAAATAAATT
49547728 TTAAATAAATT
1 TTAAATAAATT
49547739 TTA
1 TTA
49547742 TGACTCAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAATAAATT
Done.