Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 65 of 85
Found at i:22798924 original size:50 final size:50
Alignment explanation
Indices: 22798849--22798948 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
22798839 AATTAAAAAG
* * **
22798849 CCATATTGTGTAAGACCATAGCTGGTGGGCTATGGTGTCATATGGAAATA
1 CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAATA
*
22798899 CCATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCATATGGAAATA
1 CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAATA
22798949 TCTAAAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
CCATATCGTGTAAGACCATAACTGGTGGGCTATGGCATCATATGGAAATA
Found at i:22804174 original size:26 final size:26
Alignment explanation
Indices: 22804135--22804210 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
22804125 CAAATTTCTG
*
22804135 TAAAAGGATACCTTCGTGGCTATCCC
1 TAAAAGGATGCCTTCGTGGCTATCCC
* *
22804161 TAAAAGGATGCCTTTGTGGCTATCCT
1 TAAAAGGATGCCTTCGTGGCTATCCC
*
22804187 TGAAAGGATGCCTTCGTGGCTATC
1 TAAAAGGATGCCTTCGTGGCTATC
22804211 TCTTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (26 bp):
TAAAAGGATGCCTTCGTGGCTATCCC
Found at i:22804234 original size:29 final size:29
Alignment explanation
Indices: 22804135--22804392 Score: 174
Period size: 29 Copynumber: 9.2 Consensus size: 29
22804125 CAAATTTCTG
* * *
22804135 TAAAAGGATACCTTCGTGGCTATC-C--C
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
**
22804161 TAAAAGGATGCCTTTGTGGCTATC-C--T
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
* ** *
22804187 TGAAAGGATGCCTTCGTGGCTATCTCTTT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
* * *
22804216 TAAAAGGAATCATTTGTGGCTATCTCTAT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
* * *
22804245 TAAAAGGAAGCCTTTGTGGCGATCTCTGT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
* * *
22804274 TAAAA-GAAACCTTCGTGTCTATCTTTTT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
* * * **
22804302 TAAAAGGAAGCCTTTGAGGCAATCTCAGT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
** **
22804331 T-AAAGGAAACCTTCATCACTATCT-TTGT
1 TAAAAGGAAACCTTTGTGGCTATCTCTT-T
* * *
22804359 TAAAAGGAAGCCTTTGTGGCCATCTCTAT
1 TAAAAGGAAACCTTTGTGGCTATCTCTTT
22804388 TAAAA
1 TAAAA
22804393 AAATGCCTTT
Statistics
Matches: 180, Mismatches: 45, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
26 45 0.25
27 1 0.01
28 40 0.22
29 93 0.52
30 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (29 bp):
TAAAAGGAAACCTTTGTGGCTATCTCTTT
Found at i:22804316 original size:57 final size:57
Alignment explanation
Indices: 22804189--22804392 Score: 219
Period size: 57 Copynumber: 3.6 Consensus size: 57
22804179 GCTATCCTTG
* * * * * * * * *
22804189 AAAGGATGCCTTCGTGGCTATCTCTTTTAAAAGGAATCATTTGTGGCTATCTCTATTA
1 AAAGGAAGCCTTTGTGGCAATCTCTGTTAAAA-GAAACCTTCGTGACTATCTTTATTA
* * *
22804247 AAAGGAAGCCTTTGTGGCGATCTCTGTTAAAAGAAACCTTCGTGTCTATCTTTTTTA
1 AAAGGAAGCCTTTGTGGCAATCTCTGTTAAAAGAAACCTTCGTGACTATCTTTATTA
* * * * * *
22804304 AAAGGAAGCCTTTGAGGCAATCTCAGTTAAAGGAAACCTTCATCACTATCTTTGTTA
1 AAAGGAAGCCTTTGTGGCAATCTCTGTTAAAAGAAACCTTCGTGACTATCTTTATTA
* *
22804361 AAAGGAAGCCTTTGTGGCCATCTCTATTAAAA
1 AAAGGAAGCCTTTGTGGCAATCTCTGTTAAAA
22804393 AAATGCCTTT
Statistics
Matches: 123, Mismatches: 23, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
57 95 0.77
58 28 0.23
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (57 bp):
AAAGGAAGCCTTTGTGGCAATCTCTGTTAAAAGAAACCTTCGTGACTATCTTTATTA
Found at i:22804327 original size:86 final size:84
Alignment explanation
Indices: 22804161--22804343 Score: 208
Period size: 86 Copynumber: 2.2 Consensus size: 84
22804151 TGGCTATCCC
* * * ** *
22804161 TAAAAGGATGCCTTTGTGGCTATCCTTGAAAGGATGCCTTCGTGGCTATCTCTTTTAAAAGGAAT
1 TAAAAGGAAGCCTTTGTGGCGATCCTTGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGAAG
* *
22804226 CATTTGTGGCTATCTCTA-T
66 CATTTGAGGCAATCTC-AGT
* * *
22804245 TAAAAGGAAGCCTTTGTGGCGATCTCTGTTAAAAGAAACCTTCGTGTCTATCTTTTTTAAAAGGA
1 TAAAAGGAAGCCTTTGTGGCGATC-CT-TGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGA
*
22804310 AGCCTTTGAGGCAATCTCAGT
64 AGCATTTGAGGCAATCTCAGT
*
22804331 T-AAAGGAAACCTT
1 TAAAAGGAAGCCTT
22804344 CATCACTATC
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
84 22 0.27
85 14 0.17
86 47 0.57
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (84 bp):
TAAAAGGAAGCCTTTGTGGCGATCCTTGAAAAGAAACCTTCGTGGCTATCTCTTTTAAAAGGAAG
CATTTGAGGCAATCTCAGT
Found at i:22804391 original size:86 final size:87
Alignment explanation
Indices: 22804189--22804392 Score: 216
Period size: 86 Copynumber: 2.4 Consensus size: 87
22804179 GCTATCCTTG
* * * *
22804189 AAAGGATGCCTTCGTGGCTATCTCTTTTAAAAGGAATCATTTGTGGCTATCTCTATTAAAAGGAA
1 AAAGGAAGCCTTCGTGGCTATCTCTTTTAAAAGGAAGCATTTGAGGCAATCTCTATTAAAAGGAA
* ** **
22804254 GCCTTTGTGGCGATCTCTGTTA
66 ACCTTCATCACGATCTCTGTTA
* * * *
22804276 AAA-GAAACCTTCGTGTCTATCTTTTTTAAAAGGAAGCCTTTGAGGCAATCTC-AGTT-AAAGGA
1 AAAGGAAGCCTTCGTGGCTATCTCTTTTAAAAGGAAGCATTTGAGGCAATCTCTA-TTAAAAGGA
* *
22804338 AACCTTCATCACTATCTTTGTTA
65 AACCTTCATCACGATCTCTGTTA
* * *
22804361 AAAGGAAGCCTTTGTGGCCATCTCTATTAAAA
1 AAAGGAAGCCTTCGTGGCTATCTCTTTTAAAA
22804393 AAATGCCTTT
Statistics
Matches: 94, Mismatches: 21, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
85 26 0.28
86 65 0.69
87 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAGGAAGCCTTCGTGGCTATCTCTTTTAAAAGGAAGCATTTGAGGCAATCTCTATTAAAAGGAA
ACCTTCATCACGATCTCTGTTA
Found at i:22806304 original size:7 final size:7
Alignment explanation
Indices: 22806294--22806323 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
22806284 GAGTTTAGGA
*
22806294 TTCAAGG
1 TTCATGG
22806301 TTCATGG
1 TTCATGG
22806308 TTCATGG
1 TTCATGG
22806315 TTCATGG
1 TTCATGG
22806322 TT
1 TT
22806324 TGAGTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (7 bp):
TTCATGG
Found at i:22806388 original size:20 final size:20
Alignment explanation
Indices: 22806341--22806396 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
22806331 GAGGTTTAGG
* *
22806341 GTTTGGGTTCAAGGTTCGAG
1 GTTTGGGTTCGAGGTTCGAA
22806361 GTTTGGGTTCGA-GTTCGAA
1 GTTTGGGTTCGAGGTTCGAA
*
22806380 GTTTAGGGTTCGGGGTT
1 GTTT-GGGTTCGAGGTT
22806397 TAGTATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.32
20 18 0.58
21 3 0.10
ACGTcount: A:0.12, C:0.09, G:0.41, T:0.38
Consensus pattern (20 bp):
GTTTGGGTTCGAGGTTCGAA
Found at i:22810685 original size:21 final size:21
Alignment explanation
Indices: 22810661--22810727 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
22810651 GTTACTGGGG
**
22810661 TGGGTCAAATAGAAGTGATTT
1 TGGGTCAAGCAGAAGTGATTT
22810682 TGGGT-AGAGCAGAAGTGATTT
1 TGGGTCA-AGCAGAAGTGATTT
22810703 TGGGTCAAGCAGAAGTGATTT
1 TGGGTCAAGCAGAAGTGATTT
22810724 TGGG
1 TGGG
22810728 GTTGACCCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.36, T:0.30
Consensus pattern (21 bp):
TGGGTCAAGCAGAAGTGATTT
Found at i:22811058 original size:5 final size:5
Alignment explanation
Indices: 22811048--22811073 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22811038 TACAAGCATC
22811048 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
22811074 ACTATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:22816811 original size:33 final size:33
Alignment explanation
Indices: 22816760--22816833 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
22816750 TTCAGGGGGC
* *
22816760 TTACCTTTAAGAGTAGGAAAACAAAGTTCGGTT
1 TTACCTTTAAGAGAAGGAAAACAAAGTTCAGTT
*
22816793 TTACCTTTAGGAGAAGGAAAACAAAGTTCAGTT
1 TTACCTTTAAGAGAAGGAAAACAAAGTTCAGTT
22816826 TTACCTTT
1 TTACCTTT
22816834 TCCATTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (33 bp):
TTACCTTTAAGAGAAGGAAAACAAAGTTCAGTT
Found at i:22817737 original size:28 final size:29
Alignment explanation
Indices: 22817702--22817769 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
22817692 CTTCATTTTC
**
22817702 TTTCAATTTTTT-TCAA-CATCTTTTTCTT
1 TTTCAATTTTTTCTCAATC-TCAATTTCTT
22817730 TTTCAATTTTTTTCTCAATCTCAATTTCTT
1 TTTCAA-TTTTTTCTCAATCTCAATTTCTT
22817760 TTTCAATTTT
1 TTTCAATTTT
22817770 CTTTTCTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 6 0.17
29 10 0.29
30 18 0.51
31 1 0.03
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTCAATTTTTTCTCAATCTCAATTTCTT
Found at i:22817753 original size:18 final size:18
Alignment explanation
Indices: 22817732--22817766 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22817722 TTTTTCTTTT
22817732 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
22817750 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
22817767 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:22817822 original size:21 final size:21
Alignment explanation
Indices: 22817780--22817834 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
22817770 CTTTTCTTCA
* * *
22817780 TTTTCTTTTTATTTTATCTCT
1 TTTTCTTTTTCTCTCATCTCT
*
22817801 TTTTCTTTTTCTCTCATTTCT
1 TTTTCTTTTTCTCTCATCTCT
*
22817822 TTTT-TTCTTCTCT
1 TTTTCTTTTTCTCT
22817835 AAATTTCATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTTTTTCTCTCATCTCT
Found at i:22817840 original size:21 final size:21
Alignment explanation
Indices: 22817798--22817841 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22817788 TTATTTTATC
* *
22817798 TCTTTTTCTTTTTCTCTCATT
1 TCTTTTTCTTCTTCTCTAATT
22817819 TCTTTTT-TTCTTCTCTAAATT
1 TCTTTTTCTTCTTCTCT-AATT
22817840 TC
1 TC
22817842 ATTCAAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.68
Consensus pattern (21 bp):
TCTTTTTCTTCTTCTCTAATT
Found at i:22836742 original size:24 final size:24
Alignment explanation
Indices: 22836697--22836742 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22836687 AATTTGGTTT
*
22836697 GTTTATTTTAATTAATTGTATTAG
1 GTTTATTTTAATTAATTATATTAG
*
22836721 GTTTA-TTTAACTTAGTTATATT
1 GTTTATTTTAA-TTAATTATATT
22836743 TAATCTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (24 bp):
GTTTATTTTAATTAATTATATTAG
Found at i:22837459 original size:45 final size:45
Alignment explanation
Indices: 22837395--22837484 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22837385 AAAAATGACA
*
22837395 TCACATCTTTTTTGCAACTGGAGGAGGAAACTCTATATGAAGCTT
1 TCACATCTTTTTTGCAACTGGAGGAGGAAACGCTATATGAAGCTT
22837440 TCACATCTTTTTTGCAACTGGAGGAGGAAACGCTATATGAAGCTT
1 TCACATCTTTTTTGCAACTGGAGGAGGAAACGCTATATGAAGCTT
22837485 GGGAACGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (45 bp):
TCACATCTTTTTTGCAACTGGAGGAGGAAACGCTATATGAAGCTT
Found at i:22843776 original size:17 final size:18
Alignment explanation
Indices: 22843754--22843787 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22843744 TTTATTTATT
22843754 TTATATACATT-ATCTTA
1 TTATATACATTCATCTTA
*
22843771 TTATATATATTCATCTT
1 TTATATACATTCATCTT
22843788 GAGTTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATACATTCATCTTA
Found at i:22851665 original size:31 final size:31
Alignment explanation
Indices: 22851627--22851688 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
22851617 AGGCAAATTA
*
22851627 CAAGAGTAATTGAATCGTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
22851658 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
22851689 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:22858539 original size:31 final size:31
Alignment explanation
Indices: 22858501--22858593 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
22858491 AGGCAAATTA
22858501 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
*
22858532 CAAGAGTAATTGAATCCTAATGAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
* *
22858563 CAAGTGTAATTGAGTCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
22858594 AAAATTATCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:22866620 original size:1 final size:1
Alignment explanation
Indices: 22866614--22866639 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
22866604 CTCTTGTTTG
22866614 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
22866640 GTATAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22870239 original size:55 final size:55
Alignment explanation
Indices: 22870159--22870295 Score: 193
Period size: 55 Copynumber: 2.5 Consensus size: 55
22870149 ATTTCCCACA
* * * *
22870159 AATATTGCTTCTTTTGGATCGATTGTTTTTATGTTTAAATCGATTGTCATGTTGG
1 AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATAGATTGTCATGTTAG
* * * *
22870214 AATACTGCTTCTTTTAAATCAATTGTTTATATGTTTAAATAGATTTTCATGTTAG
1 AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATAGATTGTCATGTTAG
*
22870269 AATATTGCTTCATTTGAATCGATTGTT
1 AATATTGCTTCTTTTGAATCGATTGTT
22870296 ATGGTGGAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (55 bp):
AATATTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATAGATTGTCATGTTAG
Found at i:22870372 original size:94 final size:95
Alignment explanation
Indices: 22870222--22870454 Score: 337
Period size: 94 Copynumber: 2.5 Consensus size: 95
22870212 GGAATACTGC
* * *
22870222 TTCTTTTAAATCAATTGTTTATATGTTTAAATAGATT-TTCATGTTAGAATATTGCTTCATTTGA
1 TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTT-ATGTTAGAATACTGCTTCATTTGA
*
22870286 ATCGATTGTTATGGTGGAATACTG-ATTCTT
65 ATCGATAGTTATGGTGGAATACTGCATTCTT
* * *
22870316 ATTCTTTTGAATC-ATTTTTTATATGTTTAAATCGATTGTTATGTTGGAATACTGCTTCTTTTGA
1 -TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTAGAATACTGCTTCATTTGA
*
22870380 ATCGATAGTTATGGTGGAATACTGCTTTCTT
65 ATCGATAGTTATGGTGGAATACTGCATTCTT
* *
22870411 TTCTTTTGAATCGATTGTTTGTATGTTTAAATCGATTGTTATGT
1 TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGT
22870455 AGCTTGTCTA
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
94 78 0.62
95 47 0.38
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.50
Consensus pattern (95 bp):
TTCTTTTGAATCAATTGTTTATATGTTTAAATCGATTGTTATGTTAGAATACTGCTTCATTTGAA
TCGATAGTTATGGTGGAATACTGCATTCTT
Found at i:22870391 original size:34 final size:35
Alignment explanation
Indices: 22870345--22870412 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
22870335 TATATGTTTA
* *
22870345 AATCGATTGTTATGTTGGAATACTGC-TTCTTTTG
1 AATCGATAGTTATGGTGGAATACTGCTTTCTTTTG
22870379 AATCGATAGTTATGGTGGAATACTGCTTTCTTTT
1 AATCGATAGTTATGGTGGAATACTGCTTTCTTTT
22870413 CTTTTGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 24 0.77
35 7 0.23
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.46
Consensus pattern (35 bp):
AATCGATAGTTATGGTGGAATACTGCTTTCTTTTG
Found at i:22870871 original size:17 final size:17
Alignment explanation
Indices: 22870851--22870888 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
22870841 AACCTAAAAA
22870851 AATTAATAATTATAGTT
1 AATTAATAATTATAGTT
**
22870868 AATTTTTAATTATAGTT
1 AATTAATAATTATAGTT
22870885 AATT
1 AATT
22870889 TTATTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
AATTAATAATTATAGTT
Found at i:22870889 original size:17 final size:17
Alignment explanation
Indices: 22870857--22870890 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22870847 AAAAAATTAA
22870857 TAATTATAGTTAATTTT
1 TAATTATAGTTAATTTT
22870874 TAATTATAGTTAATTTT
1 TAATTATAGTTAATTTT
22870891 ATTGTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TAATTATAGTTAATTTT
Found at i:22872025 original size:6 final size:6
Alignment explanation
Indices: 22872011--22872041 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
22872001 AATTATAAAT
22872011 TATTATA TATTTA TATTTA TATTTA TATTTA
1 TATT-TA TATTTA TATTTA TATTTA TATTTA
22872042 CAAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:22873810 original size:3 final size:3
Alignment explanation
Indices: 22873802--22873849 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
22873792 AAGGACACAA
* * * *
22873802 ATT ATT ATT ATT ATC ATT ACT ATT ACT ATT ATT ATT AAAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
22873848 AT
1 AT
22873850 CTTCTTTTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:22874009 original size:24 final size:24
Alignment explanation
Indices: 22873973--22874019 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22873963 TCAATAGATC
22873973 AATGGAAAAATAACAAAAAATTAT
1 AATGGAAAAATAACAAAAAATTAT
*
22873997 AATGGAAACATAACAAAAAATTA
1 AATGGAAAAATAACAAAAAATTA
22874020 CAAATAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (24 bp):
AATGGAAAAATAACAAAAAATTAT
Found at i:22874490 original size:22 final size:24
Alignment explanation
Indices: 22874465--22874518 Score: 87
Period size: 22 Copynumber: 2.4 Consensus size: 24
22874455 AGAAAAGTAG
22874465 TGATTTTTTAAAACAAA-A-AATT
1 TGATTTTTTAAAACAAAGAGAATT
22874487 TGATTTTTTAAAACAAAGAGAATT
1 TGATTTTTTAAAACAAAGAGAATT
22874511 TG-TTTTTT
1 TGATTTTTT
22874519 CAACTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.57
23 7 0.23
24 6 0.20
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (24 bp):
TGATTTTTTAAAACAAAGAGAATT
Found at i:22883207 original size:40 final size:39
Alignment explanation
Indices: 22883163--22883255 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
22883153 CTTAATACAA
* * *
22883163 CTATTTTCATATAA-TCGATTCATATAATCATTTCGTATAT
1 CTATTTTCATATAACT-GATTCAT-TAACCATTCCATATAT
* *
22883203 CTATTTCCATATAACTGATTCATTTACCATTCCATATAT
1 CTATTTTCATATAACTGATTCATTAACCATTCCATATAT
22883242 CTA-TTTCATATAAC
1 CTATTTTCATATAAC
22883256 CATTTCATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 10 0.22
39 15 0.33
40 20 0.43
41 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (39 bp):
CTATTTTCATATAACTGATTCATTAACCATTCCATATAT
Found at i:22883249 original size:25 final size:26
Alignment explanation
Indices: 22883207--22883259 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
22883197 GTATATCTAT
*
22883207 TTCCATATAACTGATTCAT-TTACCA
1 TTCCATATAACTGATTCATATAACCA
*
22883232 TTCCATATATCT-ATTTCATATAACCA
1 TTCCATATAACTGA-TTCATATAACCA
22883258 TT
1 TT
22883260 TCATTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (26 bp):
TTCCATATAACTGATTCATATAACCA
Found at i:22883253 original size:13 final size:13
Alignment explanation
Indices: 22883167--22883263 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
22883157 ATACAACTAT
*
22883167 TTTCATATAATCGA
1 TTTCATAT-ATCTA
22883181 -TTCATATAATC-A
1 TTTCATAT-ATCTA
*
22883193 TTTCGTATATCTA
1 TTTCATATATCTA
*
22883206 TTTCCATATAACTGA
1 TTT-CATATATCT-A
* *
22883221 -TTCATTTA-CCA
1 TTTCATATATCTA
*
22883232 TTCCATATATCTA
1 TTTCATATATCTA
* *
22883245 TTTCATATAACCA
1 TTTCATATATCTA
22883258 TTTCAT
1 TTTCAT
22883264 TTTACACATT
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
11 1 0.02
12 11 0.17
13 44 0.67
14 9 0.14
15 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTCATATATCTA
Found at i:22883268 original size:39 final size:40
Alignment explanation
Indices: 22883163--22883273 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 40
22883153 CTTAATACAA
* * * *
22883163 CTATTTTCATATAA-TCGATTCATATA-ATCATTTCGTATAT
1 CTATTTCCATATAACTC-ATTCATTTACA-CATTCCATATAT
*
22883203 CTATTTCCATATAACTGATTCATTTAC-CATTCCATATAT
1 CTATTTCCATATAACTCATTCATTTACACATTCCATATAT
22883242 CTATTT-CATATAAC-CATTTCATTTTACACATT
1 CTATTTCCATATAACTCA-TTCA-TTTACACATT
22883274 TAGCACATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.02
38 12 0.20
39 21 0.35
40 25 0.42
41 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.46
Consensus pattern (40 bp):
CTATTTCCATATAACTCATTCATTTACACATTCCATATAT
Found at i:22885543 original size:24 final size:24
Alignment explanation
Indices: 22885515--22885583 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
22885505 ACACTCCACA
*
22885515 TTGTGGCCAAGCCACTCAATAGCG
1 TTGTGGCCAAGCCACTCAATAACG
* *
22885539 TTGTGGTCAAGCCACTCAATAATG
1 TTGTGGCCAAGCCACTCAATAACG
* **
22885563 TTCTAACCAAGCCACTCAATA
1 TTGTGGCCAAGCCACTCAATA
22885584 TTGCAGATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (24 bp):
TTGTGGCCAAGCCACTCAATAACG
Found at i:22885650 original size:39 final size:39
Alignment explanation
Indices: 22885570--22885661 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 39
22885560 ATGTTCTAAC
* * * ** **
22885570 CAAGCCACTCAATATTGCAGATAAGCTGCATGTTGTTGT
1 CAAGCCACTCAATATCGCAGACAAGCTACACCTTGCGGT
22885609 CAAGCCACTCAATATCGCAGACAAGCTACACCTTGCGGT
1 CAAGCCACTCAATATCGCAGACAAGCTACACCTTGCGGT
**
22885648 CAAGATACTCAATA
1 CAAGCCACTCAATA
22885662 ATGTTGTGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (39 bp):
CAAGCCACTCAATATCGCAGACAAGCTACACCTTGCGGT
Found at i:22887105 original size:9 final size:9
Alignment explanation
Indices: 22887091--22887116 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22887081 ATATTTATAA
22887091 CTCATAAAC
1 CTCATAAAC
22887100 CTCATAAAC
1 CTCATAAAC
22887109 CTCATAAA
1 CTCATAAA
22887117 TAAAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (9 bp):
CTCATAAAC
Found at i:22887532 original size:16 final size:15
Alignment explanation
Indices: 22887490--22887532 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
22887480 CTAATTCAAG
22887490 CATATATCACA-TAA
1 CATATATCACATTAA
22887504 CATATATTC-CATTAA
1 CATATA-TCACATTAA
22887519 TCATATATCACATT
1 -CATATATCACATT
22887533 TCACACATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.32
15 7 0.28
16 10 0.40
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (15 bp):
CATATATCACATTAA
Found at i:22889631 original size:50 final size:49
Alignment explanation
Indices: 22889568--22889752 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 49
22889558 TATTAGAGGA
* * *
22889568 CCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCT
1 CCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGA--ACT
* *
22889620 CCC-GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACT
* * * *
22889668 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAG-ACAT
1 CCCA-GTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC-T
* * *
22889717 CCCATGTAAAACCATGTTTGGGACATGGCTTTGGCA
1 CCCA-GTAAGACCATGTCTGGGACATGGCATTGGCA
22889753 TGTTATTATC
Statistics
Matches: 114, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 8 0.07
49 37 0.32
50 66 0.58
52 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
CCCAGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACT
Found at i:22894918 original size:50 final size:50
Alignment explanation
Indices: 22894811--22894995 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
22894801 ATTTGGGTAA
* * * **
22894811 AGAGATCTCATGTAAGACCATGTCTAGGACATGACATTGGTATCATTGAGATTATG
1 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCA-TGG--GCACCGAG---ATG
* * *
22894867 AGAGGTCTCATGTAAGAACATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
* ** * * *
22894917 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATA
1 AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
** *
22894967 AGAACTCTCATGTAAGACCATATCTAGGA
1 AGAGGTCTCATGTAAGACCATGTCTAGGA
22894996 TATGTCATTG
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
50 66 0.63
53 5 0.05
55 2 0.02
56 32 0.30
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (50 bp):
AGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATG
Found at i:22895056 original size:49 final size:49
Alignment explanation
Indices: 22894875--22895057 Score: 145
Period size: 50 Copynumber: 3.7 Consensus size: 49
22894865 TGAGAGGTCT
* * * * ** **
22894875 CATGTAAGAACATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAGAACTCC
** * * *
22894925 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGATACAAGAACTCC
* * * *
22894975 CATGTAAGACCATATCTAGGATATGTCATTGGCA-G-TACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACGATACAAG-AAC-TCC
* *
22895024 CATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
22895058 TGTTATTATC
Statistics
Matches: 105, Mismatches: 26, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
47 5 0.05
48 4 0.04
49 30 0.29
50 66 0.63
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACGATACAAGAACTCC
Found at i:22899228 original size:38 final size:38
Alignment explanation
Indices: 22899173--22899245 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
22899163 ACCCGGATGA
** *
22899173 ATGGAATATGTGCTACTAT-AAGCCTCTGATAGAATGTC
1 ATGGAATATGTAATACTATGAA-CCTATGATAGAATGTC
22899211 ATGGAATATGTAATACTATGAACCTATGATAGAAT
1 ATGGAATATGTAATACTATGAACCTATGATAGAAT
22899246 ATCTCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.94
39 2 0.06
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (38 bp):
ATGGAATATGTAATACTATGAACCTATGATAGAATGTC
Found at i:22901872 original size:24 final size:21
Alignment explanation
Indices: 22901843--22901887 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
22901833 ATTTAACCCG
22901843 TCTTCAAAACGAACACACATTTCT
1 TCTTC-AAACG-ACACA-ATTTCT
*
22901867 TCTTCAGACGACACAATTTCT
1 TCTTCAAACGACACAATTTCT
22901888 CGAGTATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 4 0.20
24 5 0.25
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (21 bp):
TCTTCAAACGACACAATTTCT
Found at i:22911302 original size:27 final size:25
Alignment explanation
Indices: 22911247--22911305 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 25
22911237 AGGCTTACCC
* *
22911247 ATATTATTTTTAAAAATATATATTT
1 ATATTATTTTTAAAAATATATAATA
* *
22911272 ATATTATTTTTAATTTAATATTTAATA
1 ATATTATTTTTAA--AAATATATAATA
22911299 ATATTAT
1 ATATTAT
22911306 ATATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.46
27 15 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTTTTAAAAATATATAATA
Found at i:22911311 original size:24 final size:24
Alignment explanation
Indices: 22911284--22911335 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
22911274 ATTATTTTTA
*
22911284 ATTTAATATTTAATAATATTATAT
1 ATTTAATATTTAATAAAATTATAT
** * *
22911308 ATTTTTTATTTATTAAAATTTTAT
1 ATTTAATATTTAATAAAATTATAT
22911332 ATTT
1 ATTT
22911336 TGTCAAAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTAATATTTAATAAAATTATAT
Found at i:22911336 original size:24 final size:24
Alignment explanation
Indices: 22911290--22911336 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22911280 TTTAATTTAA
*
22911290 TATTTAATAATATTATATATTTTT
1 TATTTAATAAAATTATATATTTTT
* *
22911314 TATTTATTAAAATTTTATATTTT
1 TATTTAATAAAATTATATATTTT
22911337 GTCAAAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTTAATAAAATTATATATTTTT
Found at i:22912599 original size:20 final size:20
Alignment explanation
Indices: 22912559--22912599 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
22912549 ATTATTTTTT
*
22912559 AAAATTATAAAAAATATATA
1 AAAATTATAAAAAATAAATA
22912579 AAAATTATAAATAAA-AAATA
1 AAAATTATAAA-AAATAAATA
22912599 A
1 A
22912600 TGTCCAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATTATAAAAAATAAATA
Found at i:22914421 original size:19 final size:19
Alignment explanation
Indices: 22914371--22914423 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
22914361 CTAAACCCAC
22914371 ATTCAATTTAAATAATTAAA
1 ATTCAATTTAAA-AATTAAA
*
22914391 ATT-ATTTTTAAAAATT-AA
1 ATTCA-ATTTAAAAATTAAA
22914409 ATTCAATTATAAAAA
1 ATTCAATT-TAAAAA
22914424 CATGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 7 0.25
19 12 0.43
20 9 0.32
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTCAATTTAAAAATTAAA
Found at i:22916484 original size:17 final size:19
Alignment explanation
Indices: 22916462--22916499 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
22916452 GGTCAGCTTA
22916462 CATGTTTAAC-T-CATATG
1 CATGTTTAACTTACATATG
22916479 CATGTTTAACTTACATATG
1 CATGTTTAACTTACATATG
22916498 CA
1 CA
22916500 ATGATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
CATGTTTAACTTACATATG
Found at i:22918220 original size:44 final size:44
Alignment explanation
Indices: 22918127--22918221 Score: 113
Period size: 44 Copynumber: 2.1 Consensus size: 44
22918117 ATAGAAGCGT
* * *
22918127 AATGAAATAGAGGCGTAATAGCAATTTAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAATTT-ATTGTTTGATTGAATGG
*
22918172 AATGGAATAGAGGCGTAATAG-TATTCT-TGTGTTTGATTGAATGG
1 AATGGAATAGAGGCGTAATAGCAATT-TAT-TGTTTGATTGAATGG
22918216 AATGGA
1 AATGGA
22918222 GGTGTAATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGCAATTTATTGTTTGATTGAATGG
Found at i:22918708 original size:31 final size:31
Alignment explanation
Indices: 22918646--22918731 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
22918636 TTAGCAGAAT
** *** *
22918646 TTTTAATAAGATTATTGTTATTGTTATTAAA
1 TTTTAATAAGATTATTAATATAAATAATAAA
22918677 TTTTAATAAGATTATTAATATAAATAATAAA
1 TTTTAATAAGATTATTAATATAAATAATAAA
* *
22918708 TAATTTAATCATATT-TTAATATAA
1 T--TTTAATAAGATTATTAATATAA
22918732 TTATTATTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
31 26 0.58
32 9 0.20
33 10 0.22
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTTAATAAGATTATTAATATAAATAATAAA
Found at i:22920937 original size:40 final size:39
Alignment explanation
Indices: 22920893--22921031 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
22920883 CTAAAGCCTA
* *
22920893 CTAGGCACTATGCCCGATA-ATTACACCGACACGAAGCTTG
1 CTAGGCATTAGGCCCGATAGA-TACACCGACACGAAGC-TG
* * *
22920933 CTAGGCATTAAGCCCGATAGATAC-CCTGGCACAAAGCCTG
1 CTAGGCATTAGGCCCGATAGATACACC-GACACGAAG-CTG
* * *
22920973 CTAGGCATTAGGCCCAATAGATATACTGACACGAAGACTG
1 CTAGGCATTAGGCCCGATAGATACACCGACACGAAG-CTG
**
22921013 CTAGGCAGAAGGCCCGATA
1 CTAGGCATTAGGCCCGATA
22921032 CATTACAGTA
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 76 0.94
41 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (39 bp):
CTAGGCATTAGGCCCGATAGATACACCGACACGAAGCTG
Found at i:22932246 original size:47 final size:47
Alignment explanation
Indices: 22932192--22932286 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
22932182 ATGCAGGAAA
22932192 AGGCACGTCCTTAGAACAAGAAGGAATAGTCTTGATTAACGGAACAC
1 AGGCACGTCCTTAGAACAAGAAGGAATAGTCTTGATTAACGGAACAC
22932239 AGGCACGTCCTTAGAACAAGAAGGAATAGTCTTGATTAACGGAACAC
1 AGGCACGTCCTTAGAACAAGAAGGAATAGTCTTGATTAACGGAACAC
22932286 A
1 A
22932287 CGTGGGTACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (47 bp):
AGGCACGTCCTTAGAACAAGAAGGAATAGTCTTGATTAACGGAACAC
Found at i:22942764 original size:40 final size:40
Alignment explanation
Indices: 22942738--22942819 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
22942728 GAGTCATCTA
22942738 CAATTCAATTTGGCTTTTATTAGATAACATCATATACTAT
1 CAATTCAATTTGGCTTTTATTAGATAACATCATATACTAT
22942778 CAATTCAATTTGGCTTTTATTAGATAACATCATATACTAT
1 CAATTCAATTTGGCTTTTATTAGATAACATCATATACTAT
22942818 CA
1 CA
22942820 CATTAAGCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (40 bp):
CAATTCAATTTGGCTTTTATTAGATAACATCATATACTAT
Found at i:22943225 original size:51 final size:51
Alignment explanation
Indices: 22943157--22943314 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
22943147 ATCACATTTA
*
22943157 TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
22943208 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
22943259 TCACTAGTCACTGATCATATAAGTGTAGCTAAAGTTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
22943310 TCACT
1 TCACT
22943315 GATCAGAAGT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:22946728 original size:22 final size:22
Alignment explanation
Indices: 22946703--22946788 Score: 102
Period size: 22 Copynumber: 3.8 Consensus size: 22
22946693 TATTAAACAA
22946703 AGAGCACTAAAGTGCTATACAG
1 AGAGCACTAAAGTGCTATACAG
22946725 AGAGCAC-AAATGTGCTATACAG
1 AGAGCACTAAA-GTGCTATACAG
* *
22946747 AGAGCACTAATGTGCTAATAAGCGG
1 AGAGCACTAAAGTGCT-AT-A-CAG
*
22946772 AGAGCACTAACGTGCTA
1 AGAGCACTAAAGTGCTA
22946789 GAAATCAGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.05
22 30 0.54
23 4 0.07
24 2 0.04
25 17 0.30
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (22 bp):
AGAGCACTAAAGTGCTATACAG
Found at i:22946799 original size:25 final size:25
Alignment explanation
Indices: 22946703--22946847 Score: 109
Period size: 25 Copynumber: 6.3 Consensus size: 25
22946693 TATTAAACAA
*
22946703 AGAGCACTAAAGTGCT-AT-A-CAG
1 AGAGCACTAACGTGCTAATAATCAG
* *
22946725 AGAGCACAAATGTGCT-AT-A-CAG
1 AGAGCACTAACGTGCTAATAATCAG
* * *
22946747 AGAGCACTAATGTGCTAATAAGCGG
1 AGAGCACTAACGTGCTAATAATCAG
22946772 AGAGCACTAACGTGCTAGA-AATCAG
1 AGAGCACTAACGTGCTA-ATAATCAG
*
22946797 AGAG------CGTGCTAGTAATCAG
1 AGAGCACTAACGTGCTAATAATCAG
* *
22946816 AGAGTACTGACGTGCTAATAATCAG
1 AGAGCACTAACGTGCTAATAATCAG
22946841 AGAGCAC
1 AGAGCAC
22946848 GCTAAACTCC
Statistics
Matches: 102, Mismatches: 10, Indels: 19
0.78 0.08 0.15
Matches are distributed among these distances:
19 17 0.17
22 35 0.34
23 2 0.02
24 1 0.01
25 46 0.45
26 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (25 bp):
AGAGCACTAACGTGCTAATAATCAG
Found at i:22946806 original size:19 final size:19
Alignment explanation
Indices: 22946782--22946819 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22946772 AGAGCACTAA
22946782 CGTGCTAGAAATCAGAGAG
1 CGTGCTAGAAATCAGAGAG
*
22946801 CGTGCTAGTAATCAGAGAG
1 CGTGCTAGAAATCAGAGAG
22946820 TACTGACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (19 bp):
CGTGCTAGAAATCAGAGAG
Found at i:22947979 original size:51 final size:51
Alignment explanation
Indices: 22947911--22948068 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
22947901 ATCACATTTA
*
22947911 TCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
22947962 TCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTAG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
22948013 TCACTTGTTACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
22948064 TCACT
1 TCACT
22948069 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:22951646 original size:38 final size:34
Alignment explanation
Indices: 22951588--22951657 Score: 86
Period size: 38 Copynumber: 1.9 Consensus size: 34
22951578 CAACATCTTG
22951588 AAATTTTTTTATTTTTATTTCAATTTTTCAATTT
1 AAATTTTTTTATTTTTATTTCAATTTTTCAATTT
**
22951622 AAATTTCTTTTAGTTATTTCATTTCCTTTTTTCAAT
1 AAATTT-TTTTA-TT-TTT-ATTTCAATTTTTCAAT
22951658 AAACTACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 6 0.20
35 5 0.17
36 2 0.07
37 3 0.10
38 14 0.47
ACGTcount: A:0.24, C:0.10, G:0.01, T:0.64
Consensus pattern (34 bp):
AAATTTTTTTATTTTTATTTCAATTTTTCAATTT
Found at i:22953698 original size:43 final size:43
Alignment explanation
Indices: 22953627--22953712 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
22953617 TTTTATCTTA
* * * * *
22953627 GAAAAAATAATTTAAAAAGAGGAAAAGATAATCTTGGGTTGTT
1 GAAAAAAGAATTGAAAAAGAGCAAAAGATAAACATGGGTTGTT
**
22953670 GAAAAAAGAATTGAAAAAGAGCTGAAGATAAACATGGGTTGTT
1 GAAAAAAGAATTGAAAAAGAGCAAAAGATAAACATGGGTTGTT
22953713 TGTTTTACCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.49, C:0.03, G:0.23, T:0.24
Consensus pattern (43 bp):
GAAAAAAGAATTGAAAAAGAGCAAAAGATAAACATGGGTTGTT
Found at i:22960702 original size:16 final size:16
Alignment explanation
Indices: 22960677--22960724 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
22960667 ATTCAATCCA
*
22960677 AAAATCATATTTTTGC
1 AAAATTATATTTTTGC
22960693 AAAATTATATTTTTGC
1 AAAATTATATTTTTGC
*
22960709 AAAATTATACTTTTGC
1 AAAATTATATTTTTGC
22960725 TCCTATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (16 bp):
AAAATTATATTTTTGC
Found at i:22963884 original size:40 final size:40
Alignment explanation
Indices: 22963832--22964045 Score: 158
Period size: 40 Copynumber: 5.5 Consensus size: 40
22963822 AATCATTGTT
*
22963832 GGTTTATTCGACTAGTGCTGGGCACACATTTGATATCGTC
1 GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
* * * * * *
22963872 GGTTTATCCGACTAGCGCTAGGCGCA-A-CTCAT-T-GTT
1 GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
* * * * *
22963908 GGTTTATCCGACTAGAGCTGGGCACA-A---AACATTGTT
1 GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
* * ** *
22963944 GATTTATCGGACTAGTTTTGGGAACACATTTGATATCGTC
1 GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
* * * *
22963984 AGTTTATCTGACAAGTGCTGGGCACACATTTGATATCATC
1 GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
*
22964024 GGTTTATCC-ATCTAGCGCTGGG
1 GGTTTATCCGA-CTAGTGCTGGG
22964046 TGAAAAACTG
Statistics
Matches: 133, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
34 1 0.01
35 1 0.01
36 49 0.37
37 2 0.02
38 3 0.02
39 2 0.02
40 75 0.56
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (40 bp):
GGTTTATCCGACTAGTGCTGGGCACACATTTGATATCGTC
Found at i:22963918 original size:36 final size:36
Alignment explanation
Indices: 22963796--22963958 Score: 148
Period size: 36 Copynumber: 4.4 Consensus size: 36
22963786 GTATTTTTCA
*
22963796 GTTTAGCCGACTAGCGCTGGGTGCA-AAATCATTGTTG
1 GTTTATCCGACTAGCGCT-GG-GCACAAATCATTGTTG
* * * * *
22963833 GTTTATTCGACTAGTGCTGGGCACACATTTGATATCGTCG
1 GTTTATCCGACTAGCGCTGGGCACA-A-ATCAT-T-GTTG
* * *
22963873 GTTTATCCGACTAGCGCTAGGCGCAACTCATTGTTG
1 GTTTATCCGACTAGCGCTGGGCACAAATCATTGTTG
* *
22963909 GTTTATCCGACTAGAGCTGGGCACAAAACATTGTTG
1 GTTTATCCGACTAGCGCTGGGCACAAATCATTGTTG
* *
22963945 ATTTATCGGACTAG
1 GTTTATCCGACTAG
22963959 TTTTGGGAAC
Statistics
Matches: 101, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
35 3 0.03
36 49 0.49
37 17 0.17
38 6 0.06
39 2 0.02
40 24 0.24
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (36 bp):
GTTTATCCGACTAGCGCTGGGCACAAATCATTGTTG
Found at i:22964165 original size:24 final size:24
Alignment explanation
Indices: 22964138--22964184 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22964128 ATTGAAGAAG
*
22964138 GTTGAAAAGGATATAAATGAAAAT
1 GTTGAAAAAGATATAAATGAAAAT
*
22964162 GTTGAAAAAGATATCAATGAAAA
1 GTTGAAAAAGATATAAATGAAAA
22964185 GGTCAGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.23
Consensus pattern (24 bp):
GTTGAAAAAGATATAAATGAAAAT
Found at i:22965298 original size:11 final size:11
Alignment explanation
Indices: 22965282--22965314 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
22965272 TTAGTATTCA
22965282 TGAGATATGAT
1 TGAGATATGAT
22965293 TGAGATATGAT
1 TGAGATATGAT
22965304 TGAGATATGAT
1 TGAGATATGAT
22965315 ATTGTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (11 bp):
TGAGATATGAT
Found at i:22973976 original size:17 final size:17
Alignment explanation
Indices: 22973954--22973992 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22973944 ATTAAAAGTG
22973954 TGCATACTATAATAGTT
1 TGCATACTATAATAGTT
* * *
22973971 TGCATATTGTTATAGTT
1 TGCATACTATAATAGTT
22973988 TGCAT
1 TGCAT
22973993 GAAATAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (17 bp):
TGCATACTATAATAGTT
Found at i:22976858 original size:17 final size:16
Alignment explanation
Indices: 22976836--22976897 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 16
22976826 TTCGCTAGGT
22976836 GATACTATCCACCAGGA
1 GATACTATCCACCA-GA
* *
22976853 GATACTATTCGCCA-A
1 GATACTATCCACCAGA
*
22976868 TTGATACTATCCGCCAGA
1 --GATACTATCCACCAGA
22976886 TGATACTATCCA
1 -GATACTATCCA
22976898 TCATGCAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
15 1 0.03
17 36 0.95
18 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (16 bp):
GATACTATCCACCAGA
Found at i:22978850 original size:265 final size:266
Alignment explanation
Indices: 22978366--22978887 Score: 773
Period size: 265 Copynumber: 2.0 Consensus size: 266
22978356 ACTTACTTAT
* *
22978366 TTTATCTTCCCTTCTTAGGACCACCGAAGAAATAAAAAAATCTTCAATGGCTACGTCAGAGGATA
1 TTTATCTTCCCTTCTTAGGACCACCGAAGAAATAAAAAAACCTTCAATGACTACGTCAGAGGATA
*
22978431 CATACTGTGTGAGGCTTCTAGTGTTTTTGTATTATACATGACAAATGAAGGTGGCAACAAGGCTT
66 CATACTGTGTGAGGCTTCTAGTGATTTTGTATTATACATGACAAATGAAGGTGGCAACAAGGCTT
* * * * * *
22978496 GAAATTTGAAGAACAATATGTTGTAACTAAAAATGCATTCGTCAAACTGTGTTCTTTCCTTAAAT
131 GAAATTTAAAGAACAATATGTTGAAACAAAAAAAGCATTCGTCAAACTATGTTATTTCCTTAAAT
* *
22978561 CTTTACAAAGAATTTTTATGTTTTAAAAG-TTTTGGGTTCTTAAGCTTAAATGTTTTATATACTT
196 ATTTACAAAGAATTTTTATGTTTTAAAAGTTTTTGGGTCCTTAAGCTTAAATGTTTTATATACTT
22978625 GCTCTG
261 GCTCTG
** **
22978631 TTTATCTTCCCTTCTTAGGACCATTGAAGAAATAAAGGAACCTTCAATGACTACG-CTAGAGGAT
1 TTTATCTTCCCTTCTTAGGACCACCGAAGAAATAAAAAAACCTTCAATGACTACGTC-AGAGGAT
* * * **
22978695 ACATATTGTGTGAGGCTTCTAGTGATTTTGTATTATGCATGACAAATGAGGGTGGGGACAAGGCT
65 ACATACTGTGTGAGGCTTCTAGTGATTTTGTATTATACATGACAAATGAAGGTGGCAACAAGGCT
* * *
22978760 TGAAATTTAAAGAACAATATTTTGAAACAAAAAAAGTATTTGTCAAACTATGTTATTTCCTTAAA
130 TGAAATTTAAAGAACAATATGTTGAAACAAAAAAAGCATTCGTCAAACTATGTTATTTCCTTAAA
*
22978825 TATTTATAATA-AAGTTTTT-TGTTTTAAAAGTTTTTGGGTCCTTAAGCTTAAATGTTTTATATA
195 TATTTACAA-AGAA-TTTTTATGTTTTAAAAGTTTTTGGGTCCTTAAGCTTAAATGTTTTATATA
22978888 TTACTACTAT
Statistics
Matches: 229, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
264 1 0.00
265 191 0.83
266 37 0.16
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (266 bp):
TTTATCTTCCCTTCTTAGGACCACCGAAGAAATAAAAAAACCTTCAATGACTACGTCAGAGGATA
CATACTGTGTGAGGCTTCTAGTGATTTTGTATTATACATGACAAATGAAGGTGGCAACAAGGCTT
GAAATTTAAAGAACAATATGTTGAAACAAAAAAAGCATTCGTCAAACTATGTTATTTCCTTAAAT
ATTTACAAAGAATTTTTATGTTTTAAAAGTTTTTGGGTCCTTAAGCTTAAATGTTTTATATACTT
GCTCTG
Found at i:22980045 original size:17 final size:17
Alignment explanation
Indices: 22980011--22980045 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
22980001 CTTAAGAACA
* *
22980011 AAAGAAAGAATTATGAG
1 AAAGAAAGAATGAAGAG
22980028 AAAGAAAGAATGAAGAG
1 AAAGAAAGAATGAAGAG
22980045 A
1 A
22980046 GGAAGATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (17 bp):
AAAGAAAGAATGAAGAG
Found at i:22985694 original size:20 final size:19
Alignment explanation
Indices: 22985645--22985700 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
22985635 CTTGCAAAAT
22985645 TGTGACTATGTGATGTGGAA
1 TGTGAC-ATGTGATGTGGAA
* *
22985665 TGAGTA-ATGTGATGTGTTAA
1 TGTG-ACATGTGATGTG-GAA
22985685 TGTGACATGTGATGTG
1 TGTGACATGTGATGTG
22985701 CAACTGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.37
20 18 0.60
21 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.34, T:0.38
Consensus pattern (19 bp):
TGTGACATGTGATGTGGAA
Found at i:22985708 original size:20 final size:19
Alignment explanation
Indices: 22985645--22985708 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
22985635 CTTGCAAAAT
*
22985645 TGTGACTATGTGATGTGGAA
1 TGTGAC-ATGTGATGTGCAA
* *
22985665 TGAGTA-ATGTGATGTGTTAA
1 TGTG-ACATGTGATGTG-CAA
22985685 TGTGACATGTGATGTGCAA
1 TGTGACATGTGATGTGCAA
22985704 CTGTG
1 -TGTG
22985709 TTAGCTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 13 0.36
20 22 0.61
21 1 0.03
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.36
Consensus pattern (19 bp):
TGTGACATGTGATGTGCAA
Found at i:22988095 original size:42 final size:42
Alignment explanation
Indices: 22988030--22988155 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 42
22988020 GAGGTGTGAT
*
22988030 TTCGTGTAAGACACTGTCTGGGACATTGGCATCGATATGA-GA
1 TTCGTGTAAGAC-CTGTTTGGGACATTGGCATCGATATGATGA
*
22988072 TTACGTGTTAGACCTGTTTGGGACATTGGCA-CTG-TAT-ATGA
1 TT-CGTGTAAGACCTGTTTGGGACATTGGCATC-GATATGATGA
**
22988113 TTCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATATG-TGA
1 TTCGTGTAAGA-CCTGTTTGGGACATTGGCATCGATATGATGA
22988155 T
1 T
22988156 AACATGTAAG
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
40 9 0.12
41 26 0.36
42 28 0.39
43 9 0.12
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (42 bp):
TTCGTGTAAGACCTGTTTGGGACATTGGCATCGATATGATGA
Found at i:22988137 original size:41 final size:41
Alignment explanation
Indices: 22988030--22988150 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 41
22988020 GAGGTGTGAT
* *
22988030 TTCGTGTAAGACACTGTCTGGGACATTGGCATCGATATGAGA
1 TTCGTGTAAGACCCTGTTTGGGACATTGGCATCGATAT-AGA
*
22988072 TTACGTGTTAGA-CCTGTTTGGGACATTGGCA-CTG-TATATGA
1 TT-CGTGTAAGACCCTGTTTGGGACATTGGCATC-GATATA-GA
**
22988113 TTCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATAT
1 TTCGTGTAAGACCCTGTTTGGGACATTGGCATCGATAT
22988151 GTGATAACAT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
40 9 0.13
41 26 0.39
42 24 0.36
43 8 0.12
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
TTCGTGTAAGACCCTGTTTGGGACATTGGCATCGATATAGA
Found at i:22988185 original size:83 final size:83
Alignment explanation
Indices: 22988030--22988196 Score: 192
Period size: 83 Copynumber: 2.0 Consensus size: 83
22988020 GAGGTGTGAT
** * * * * * *
22988030 TTCGTGTAAGACACTGTCTGGGACATTGGCATCGATATGAGATTACGTGTTAGACCTGTTTGGGA
1 TTCGTGTAAGACACTGTCTGGGACAGAGGCATCGATATGAGATAACATGTAAGACCTATCTGAGA
22988095 CATTGGCACTGTATATGA
66 CATTGGCACTGTATATGA
* * *
22988113 TTCGTGTAAGACCCTGTTTGGGACAGAGGCATCGATATGTGATAACATGTAAGACCATATCTGAG
1 TTCGTGTAAGACACTGTCTGGGACAGAGGCATCGATATGAGATAACATGTAAGACC-TATCTGAG
* * *
22988178 ATA-TGGCATTGTATGTGA
65 ACATTGGCACTGTATATGA
22988196 T
1 T
22988197 ATATGTGTTT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
83 62 0.90
84 7 0.10
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (83 bp):
TTCGTGTAAGACACTGTCTGGGACAGAGGCATCGATATGAGATAACATGTAAGACCTATCTGAGA
CATTGGCACTGTATATGA
Found at i:22988393 original size:13 final size:13
Alignment explanation
Indices: 22988375--22988402 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22988365 GAGAAAAATG
22988375 ATTGTATATGTGT
1 ATTGTATATGTGT
22988388 ATTGTATATGTGT
1 ATTGTATATGTGT
22988401 AT
1 AT
22988403 GAGATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATTGTATATGTGT
Found at i:22989647 original size:23 final size:23
Alignment explanation
Indices: 22989604--22989648 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22989594 TTTGACATAA
* *
22989604 TGCTAGTTTGGTATCTATTTTCT
1 TGCTAGTTTGATACCTATTTTCT
22989627 TGCTAGTTTCGATACCT-TTTTC
1 TGCTAGTTT-GATACCTATTTTC
22989649 CAAAAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (23 bp):
TGCTAGTTTGATACCTATTTTCT
Found at i:22995176 original size:151 final size:151
Alignment explanation
Indices: 22994899--22995201 Score: 419
Period size: 151 Copynumber: 2.0 Consensus size: 151
22994889 TTAGAGATCT
* * *
22994899 ATGTGAAATTGTGAATAAAGTGGATTCAGGCGCTGGTCATAAGTTCTACCAGTGGCTGGGTATAC
1 ATGTGAAACTGTGAATAAAGTGAATTCAGGCGCTAGTCATAAGTTCTACCAGTGGCTGGGTATAC
* * * * * ** *
22994964 CGGCATATGTTGCAGATACCTGATAACTTGTGTGAGCAGGACTGAGTAGTTACGGATGACTGACA
66 CGGCATATGCTGCAGATACCTGACAACTTGTGTGAGAAGCACTGAGTAGTGACAAAAGACTGACA
* *
22995029 ACTTGTGTGAGCAGGCCCGTG
131 ACTTGTATGAGCAGACCCGTG
* *
22995050 ATGTGAAACTGTGATTAAAGTGAATTCAGGTGCTAGT-ATTAAGTTCTACCAGTGGCTGGGTATA
1 ATGTGAAACTGTGAATAAAGTGAATTCAGGCGCTAGTCA-TAAGTTCTACCAGTGGCTGGGTATA
* * *
22995114 CCGGCATATGCTGCGGATACCTGACAGCTTGTGTGAGAAGCACTGAGTAGTGCCAAAAGACTGAC
65 CCGGCATATGCTGCAGATACCTGACAACTTGTGTGAGAAGCACTGAGTAGTGACAAAAGACTGAC
*
22995179 AGCTTGTATGAGCAGACCCGTG
130 AACTTGTATGAGCAGACCCGTG
22995201 A
1 A
22995202 AAGTGAATAG
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
150 1 0.01
151 131 0.99
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (151 bp):
ATGTGAAACTGTGAATAAAGTGAATTCAGGCGCTAGTCATAAGTTCTACCAGTGGCTGGGTATAC
CGGCATATGCTGCAGATACCTGACAACTTGTGTGAGAAGCACTGAGTAGTGACAAAAGACTGACA
ACTTGTATGAGCAGACCCGTG
Found at i:23000595 original size:22 final size:22
Alignment explanation
Indices: 23000548--23000592 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
23000538 ATGCAATCTT
*
23000548 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
23000570 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
23000593 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:23000840 original size:23 final size:23
Alignment explanation
Indices: 23000796--23000840 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23000786 TCTTGTTTTG
* *
23000796 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
*
23000819 TTGATTTGTATATTATTGATTT
1 TTGATTTGTATATAATTGATTT
23000841 CAAATCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.13, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:23001332 original size:23 final size:22
Alignment explanation
Indices: 23001302--23001345 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
23001292 ATAATTCAAA
*
23001302 TACATATATATGTTTCTTATATG
1 TACATATATATATTT-TTATATG
23001325 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
23001346 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:23005499 original size:11 final size:11
Alignment explanation
Indices: 23005483--23005510 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23005473 AGATCCAATT
23005483 AAAAAAAACCA
1 AAAAAAAACCA
23005494 AAAAAAAACCA
1 AAAAAAAACCA
23005505 AAAAAA
1 AAAAAA
23005511 TTAAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACCA
Found at i:23005530 original size:20 final size:20
Alignment explanation
Indices: 23005507--23005545 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23005497 AAAAACCAAA
*
23005507 AAAATTAAAAAATCAAAATC
1 AAAATTAAAAAATAAAAATC
23005527 AAAATTAAAAAATAAAAAT
1 AAAATTAAAAAATAAAAAT
23005546 GACAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATTAAAAAATAAAAATC
Found at i:23006963 original size:44 final size:44
Alignment explanation
Indices: 23006914--23007296 Score: 556
Period size: 44 Copynumber: 8.7 Consensus size: 44
23006904 GATACTAGTT
* **
23006914 CTATCTCCCTAGAAAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
**
23006958 CTATCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
**
23007002 CTATCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
*
23007046 CTATCTCCCTTGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* * *
23007090 CTATCTCCCTGGTCACCAGTGGAATAGGTTGAAGATTATGAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* *
23007134 CTATCTCCCTGGTCAGTAGTAGAATAGGTTGAAGATTGTAAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
*
23007178 CTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTC
*
23007222 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAATATTGTGAA-TC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTC
* * *
23007266 CTATCTCTCTGAG-CAACAGTGGAGTAGGTTG
1 CTATCTCCCTG-GTCAGCAGTGGAATAGGTTG
23007297 GAAATTACAT
Statistics
Matches: 316, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
44 313 0.99
45 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
Found at i:23007355 original size:44 final size:44
Alignment explanation
Indices: 23007307--23007605 Score: 141
Period size: 44 Copynumber: 6.8 Consensus size: 44
23007297 GAAATTACAT
*
23007307 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGA
* * * ** *
23007351 ATCTTATCTTCCC-AAG--GTAGTAGGAAAGCAAATTTAAG-CCACTA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG--AGTAGATTGAAGACGGCGA
** * * * ** **
23007395 GCCTTATCTCCCTGAGTAGCAGTGGAGTA-AGTTGAAGATTGTAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGA-TTGAAGACGGCGA
* * * * ***
23007439 ACCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTAC-A
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGA
* * *
23007482 GATCTTATATCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGA
* * ** *
23007527 ATCTTATCTTCCC-AAGGTAGTAG-GGAAGTAGATTTAAG-CCACTA
1 ATCTTATC-TCCCTAA-GCAGTAGTGG-AGTAGATTGAAGACGGCGA
** *
23007571 GCCTTATCTCCCTGAGCAGTAGTGGAGTAG-TTGAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAA
23007606 AATTACAGAT
Statistics
Matches: 193, Mismatches: 45, Indels: 36
0.70 0.16 0.13
Matches are distributed among these distances:
42 10 0.05
43 30 0.16
44 113 0.59
45 36 0.19
46 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGA
Found at i:23007401 original size:88 final size:87
Alignment explanation
Indices: 23007309--23007605 Score: 282
Period size: 88 Copynumber: 3.4 Consensus size: 87
23007299 AATTACATAT
*
23007309 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAG
* *
23007374 GAAAGCAAATTTAAGCCACTAGC
66 G-AAGTAGATTTAAGCCACTAGC
* * * ** ** * *
23007397 CTTATCTCCCTGAGTAGCAGTGGAGTA-AGTTGAAGATTGTAAACCTTATC-TCCCTAAGCAGCA
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGA-TTGAAGACGGCGAATCTTATCTTCCC-AAG--GTA
* * *** *
23007460 GT-GG-AGTAGGTTGAAAATTAC-AGAT
62 GTAGGAAGTAGATT-TAAGCCACTAG-C
* * *
23007485 CTTATATCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAATCTTATCTTCCCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTA-
23007550 GGAAGTAGATTTAAGCCACTAGC
65 GGAAGTAGATTTAAGCCACTAGC
*
23007573 CTTATCTCCCTGAGCAGTAGTGGAGTAG-TTGAA
1 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAA
23007606 AATTACAGAT
Statistics
Matches: 158, Mismatches: 39, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
86 4 0.03
87 16 0.10
88 118 0.75
89 16 0.10
90 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAG
GAAGTAGATTTAAGCCACTAGC
Found at i:23007405 original size:176 final size:176
Alignment explanation
Indices: 23007223--23007605 Score: 567
Period size: 176 Copynumber: 2.2 Consensus size: 176
23007213 TTGTGAATCC
* * * * *
23007223 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAATATTGTGAATCC-TATCTCTCTGAGCAACAGT
1 TATCTCCCTGAGTCAGCAGTGGAGTA-GTTGAAGATTGT-AAACCTTATCTCCCTAAGCAACAGT
* * * *
23007286 GGAGTAGGTTGGAAATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGA
64 GGAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
23007351 ATCTTATCTTCCCAAGGTAGTAGGAAAGCAAATTTAAGCCACTAGCCT
129 ATCTTATCTTCCCAAGGTAGTAGGAAAGCAAATTTAAGCCACTAGCCT
*
23007399 TATCTCCCTGAGT-AGCAGTGGAGTAAGTTGAAGATTGTAAACCTTATCTCCCTAAGCAGCAGTG
1 TATCTCCCTGAGTCAGCAGTGGAGT-AGTTGAAGATTGTAAACCTTATCTCCCTAAGCAACAGTG
* *
23007463 GAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGTAGATCGAATACGGCGAA
65 GAGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA
* * *
23007528 TCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCT
130 TCTTATCTTCCCAAGGTAGTAGGAAAGCAAATTTAAGCCACTAGCCT
*
23007575 TATCTCCCTGAG-CAGTAGTGGAGTAGTTGAA
1 TATCTCCCTGAGTCAGCAGTGGAGTAGTTGAA
23007606 AATTACAGAT
Statistics
Matches: 187, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
175 11 0.06
176 173 0.93
177 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (176 bp):
TATCTCCCTGAGTCAGCAGTGGAGTAGTTGAAGATTGTAAACCTTATCTCCCTAAGCAACAGTGG
AGTAGGTTGAAAATTACAGATCTTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
CTTATCTTCCCAAGGTAGTAGGAAAGCAAATTTAAGCCACTAGCCT
Found at i:23009142 original size:3 final size:3
Alignment explanation
Indices: 23009134--23009168 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
23009124 TTTATTTATC
*
23009134 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23009169 GTTGTTCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23010539 original size:35 final size:35
Alignment explanation
Indices: 23010473--23010540 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
23010463 GACAACATTG
* * ***
23010473 AATTAAAATTTTAAAAAAATTTAATGTTTTAAAGA
1 AATTAAAAATATAAAAAAATTTAAAAATTTAAAGA
23010508 AATTAAAAATATAAAAAAATTTAAAAATTTAAA
1 AATTAAAAATATAAAAAAATTTAAAAATTTAAA
23010541 ATTATTGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (35 bp):
AATTAAAAATATAAAAAAATTTAAAAATTTAAAGA
Found at i:23015464 original size:6 final size:6
Alignment explanation
Indices: 23015455--23015480 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23015445 CCATGAAGAT
23015455 GATGAC GATGAC GATGAC GATGAC GA
1 GATGAC GATGAC GATGAC GATGAC GA
23015481 AGAGGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAC
Found at i:23019866 original size:23 final size:23
Alignment explanation
Indices: 23019810--23019854 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
23019800 AGGCCCGCCC
*
23019810 AAATTATTTTAATTATTTTTAAA
1 AAATTATTTAAATTATTTTTAAA
23019833 AAATTATTTAAATTATTTTTAA
1 AAATTATTTAAATTATTTTTAA
23019855 TTTAATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AAATTATTTAAATTATTTTTAAA
Found at i:23028525 original size:21 final size:20
Alignment explanation
Indices: 23028488--23028526 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23028478 TCCAATAACA
**
23028488 CACCAATAATGTGGTCAAGC
1 CACCAATAATGCAGTCAAGC
23028508 CACCAGATAATGCAGTCAA
1 CACCA-ATAATGCAGTCAA
23028527 CCTGCCAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (20 bp):
CACCAATAATGCAGTCAAGC
Found at i:23028737 original size:35 final size:35
Alignment explanation
Indices: 23028698--23028823 Score: 130
Period size: 35 Copynumber: 3.6 Consensus size: 35
23028688 AATTTGAATA
* * *
23028698 GGCATGCATAACATGCGATTCAGAAACAATATAGT
1 GGCATGCTTAACATGCGAATCAGAAACAATATAAT
* * *
23028733 GGCATGCTTACCATGCAAATCA-AACACAATTTAAT
1 GGCATGCTTAACATGCGAATCAGAA-ACAATATAAT
* **
23028768 GACATGCTTAACATATGAATCAGAAA-AAGTAATAAT
1 GGCATGCTTAACATGCGAATCAGAAACAA-T-ATAAT
23028804 GGCATGCTTAACATGCGAAT
1 GGCATGCTTAACATGCGAAT
23028824 ATGAATATCA
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
34 4 0.06
35 45 0.62
36 23 0.32
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (35 bp):
GGCATGCTTAACATGCGAATCAGAAACAATATAAT
Found at i:23032875 original size:43 final size:43
Alignment explanation
Indices: 23032801--23032948 Score: 197
Period size: 43 Copynumber: 3.4 Consensus size: 43
23032791 TGTCCCAGAC
* ** *
23032801 ATGGTCTTACATGGAAATCTCGTATAAATGCCAATAACCCAGCT
1 ATGGTCTTACA-CGAAATCTCAAATCAATGCCAATAACCCAGCT
*
23032845 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAACCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCAATGCCAATAACCCAGCT
* * ** *
23032888 ATGGTCTCACATGAAATCTCAAATCAATGCCAATAGTCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCAATGCCAATAACCCAGCT
23032931 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
23032949 ACACCTCGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 80 0.88
44 11 0.12
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCAATGCCAATAACCCAGCT
Found at i:23033161 original size:61 final size:63
Alignment explanation
Indices: 23033092--23033219 Score: 188
Period size: 61 Copynumber: 2.1 Consensus size: 63
23033082 TATATATATA
* * * *
23033092 TATATCCATATACGAATCAAATTCAGCAATGTAT-ATCTACATACAAATC-AATTCGGTAATG
1 TATATCCATATACAAATCAAATTCAGCAATGTATAAACCACATACAAATCAAATTCGGCAATG
* *
23033153 TATATCCATATACAAATCAAATTCGGCAATGTATAAACCATATACAAATCAAATTCGGCAATG
1 TATATCCATATACAAATCAAATTCAGCAATGTATAAACCACATACAAATCAAATTCGGCAATG
23033216 TATA
1 TATA
23033220 AAACATATAC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 32 0.54
62 12 0.20
63 15 0.25
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (63 bp):
TATATCCATATACAAATCAAATTCAGCAATGTATAAACCACATACAAATCAAATTCGGCAATG
Found at i:23033199 original size:32 final size:31
Alignment explanation
Indices: 23033092--23033230 Score: 172
Period size: 32 Copynumber: 4.5 Consensus size: 31
23033082 TATATATATA
* * *
23033092 TATATCCATATACGAATCAAATTCAGCAATG
1 TATAACCATATACAAATCAAATTCGGCAATG
* * * *
23033123 TATATCTACATACAAATC-AATTCGGTAATG
1 TATAACCATATACAAATCAAATTCGGCAATG
*
23033153 TATATCCATATACAAATCAAATTCGGCAATG
1 TATAACCATATACAAATCAAATTCGGCAATG
23033184 TATAAACCATATACAAATCAAATTCGGCAATG
1 TAT-AACCATATACAAATCAAATTCGGCAATG
*
23033216 TATAAAACATATACA
1 TAT-AACCATATACA
23033231 TTTAAATTCA
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 26 0.27
31 29 0.30
32 41 0.43
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.29
Consensus pattern (31 bp):
TATAACCATATACAAATCAAATTCGGCAATG
Found at i:23033454 original size:30 final size:29
Alignment explanation
Indices: 23033397--23033454 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23033387 AAATCCATTT
*
23033397 AATTTCACATTTTACACTTTAGCCCCTAA
1 AATTTCACATTTTACAATTTAGCCCCTAA
* * *
23033426 AATTTTACATTTTCTCAATTTAGTCCCTA
1 AATTTCACATTTT-ACAATTTAGCCCCTA
23033455 TTTCAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.29, C:0.24, G:0.03, T:0.43
Consensus pattern (29 bp):
AATTTCACATTTTACAATTTAGCCCCTAA
Found at i:23037524 original size:69 final size:70
Alignment explanation
Indices: 23037412--23037550 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 70
23037402 AGTTTGGCAT
23037412 GTATATGTCATTTAGGTTGATAATTATGGCTAGGGGTGAGCAAAATTCGATTCGATTCGAAAAAA
1 GTATATGTCATTTAGGTTGATAATTATGGCTAGGGGTGAGCAAAATTCGATTCGATTCGAAAAAA
23037477 TCGAA
66 TCGAA
23037482 GTATATGTCA-TTAGGTTGATAATTATGGCTAGGGGTGAGCAAAATTCGATTCGATTCGAAAAAA
1 GTATATGTCATTTAGGTTGATAATTATGGCTAGGGGTGAGCAAAATTCGATTCGATTCGAAAAAA
23037546 TCGAA
66 TCGAA
23037551 AAAAAATTCG
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 59 0.86
70 10 0.14
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (70 bp):
GTATATGTCATTTAGGTTGATAATTATGGCTAGGGGTGAGCAAAATTCGATTCGATTCGAAAAAA
TCGAA
Found at i:23037672 original size:9 final size:9
Alignment explanation
Indices: 23037655--23037692 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
23037645 TAAATTTTCG
23037655 AATTCGAAT
1 AATTCGAAT
*
23037664 AACTCGAAT
1 AATTCGAAT
23037673 AATTCGAAT
1 AATTCGAAT
23037682 AATTCGAAT
1 AATTCGAAT
23037691 AA
1 AA
23037693 AAACTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23037737 original size:29 final size:29
Alignment explanation
Indices: 23037697--23037755 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
23037687 GAATAAAAAC
*
23037697 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
23037726 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
23037755 T
1 T
23037756 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:23039092 original size:5 final size:5
Alignment explanation
Indices: 23039084--23039131 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
23039074 CGAACAAATA
* *
23039084 ATTCG ATTCG ATTCG ATTCG ATCTCT ATCTC- ACTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG AT-TCG AT-TCG ATTCG ATTCG ATTCG AT
23039132 AAAACTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.05
5 29 0.76
6 7 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTCG
Found at i:23040126 original size:3 final size:3
Alignment explanation
Indices: 23040118--23040164 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23040108 CATGATCAAG
23040118 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
23040165 TAATAATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:23040979 original size:22 final size:21
Alignment explanation
Indices: 23040944--23041001 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
23040934 AAACGGTATC
* * *
23040944 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
23040965 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
23040988 TGCATATCATATCT
1 TACAAATCATATCT
23041002 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:23041638 original size:44 final size:44
Alignment explanation
Indices: 23041544--23041669 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 44
23041534 GAGATCCATC
* * * *
23041544 ATTCTAATCCACTCCACTACAACTTCAGGGAGAT-AGGATTGGTTT
1 ATTC-AATCTACTCCACTGCAACCTCAGGGAGATAAGAATT-GTTT
* *
23041589 CTTCAATCTATTCCACTGCAACCTCAGGGAGATAAGAATT-TCTT
1 ATTCAATCTACTCCACTGCAACCTCAGGGAGATAAGAATTGT-TT
* * *
23041633 ATTCAATTTGCTCCACTGCAACCTCGGGGAGATAAGA
1 ATTCAATCTACTCCACTGCAACCTCAGGGAGATAAGA
23041670 CTGGATGCGA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.01
44 59 0.87
45 8 0.12
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATTCAATCTACTCCACTGCAACCTCAGGGAGATAAGAATTGTTT
Found at i:23041834 original size:45 final size:45
Alignment explanation
Indices: 23041770--23042978 Score: 1456
Period size: 45 Copynumber: 26.9 Consensus size: 45
23041760 TACTTCTGTC
*
23041770 TTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * * *
23041815 TTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCCGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * * * * * *
23041860 TTCGATCCACTTTGCTACCAATATAGGAAGCCCAGATCTGTTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * ** *
23041906 TT-GATCTACTTCGCTGCTAATACAGGAAGAAAAGATCTATTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * *
23041950 TTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * *
23041996 TT-GATCTACCTCGCTGCCGATACAGGAAGACAAGATCTGTTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* *
23042041 TT-GATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * *
23042086 TT-GATCTACCTCGCTGCCGATACAGGAAGACAAGATCTGTTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * * *
23042131 TT-GATCTACTTCACTGCCAATATAGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* *
23042175 TTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATAT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * *
23042221 TT-GATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* *
23042265 TTCGATCTACTTCGCTACCAATATAGGAAGACAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * * *
23042311 TT-GATCTACTTCGCTGCCAGTACGGGAAGACAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * * *
23042355 TTAGATCTACTTCGCTACCAATATAGGAAGATAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * * *
23042401 TT-GATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGTTATA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * * *
23042445 TTCGATCTACATCGCTACCAATATAGGAAGATAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * * *
23042491 TT-GATCTACTTTGCTGCCAATACAGGAAGATAAGATCTGTTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * *
23042535 TTCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* *
23042581 TT-GATCTTCTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * *
23042625 TTCGATCTACTTAGCTGCCAATACAGGAAGACAAGATTTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * *
23042670 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTACTATA
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* *
23042715 TTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* *
23042760 TTCGATCTACTTCACTGCCAGTACAGGAAGACAAGATCTGCTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
*
23042806 TT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
* * * * *
23042850 TTCGATCTACTTCACTACTAATACAAGAAGACAAGATCTGGTATCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT-T
* * *
23042896 TT-GATCTACTTC-ATGCCAATACAGGAAGACAAGATTTG-TTTT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
23042938 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
1 -TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
23042979 TTCTCTGCAG
Statistics
Matches: 1001, Mismatches: 143, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.00
43 4 0.00
44 48 0.05
45 929 0.93
46 19 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATT
Found at i:23044518 original size:63 final size:62
Alignment explanation
Indices: 23044399--23044518 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 62
23044389 TTCCTTTATT
** * * * * *
23044399 TATTTTTTAGACTCAAAGTGCCCTTTGCGGGTTTTCACCTCGGTGTTGTTTTCTTTTTTCCC
1 TATTTTTTAGACTCAAAGCACCCTTTGCGGATTTTCACCTCGATCTTGTCTCCTTTTTTCCC
*
23044461 TATTTTTTAGGACTCAAAGCACCCTTTGCGGATTTTCACCTTGATCCTT-TCTCCTTTT
1 TATTTTTTA-GACTCAAAGCACCCTTTGCGGATTTTCACCTCGAT-CTTGTCTCCTTTT
23044519 AGGTACTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 9 0.19
63 37 0.77
64 2 0.04
ACGTcount: A:0.14, C:0.24, G:0.15, T:0.47
Consensus pattern (62 bp):
TATTTTTTAGACTCAAAGCACCCTTTGCGGATTTTCACCTCGATCTTGTCTCCTTTTTTCCC
Found at i:23045408 original size:10 final size:10
Alignment explanation
Indices: 23045387--23045416 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
23045377 TGGCCTCTCA
23045387 TTTTTCTATTC
1 TTTTTCT-TTC
23045398 TTTTTCTTTC
1 TTTTTCTTTC
23045408 TTTTTCTTT
1 TTTTTCTTT
23045417 TTTCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:23049110 original size:3 final size:3
Alignment explanation
Indices: 23049102--23049519 Score: 836
Period size: 3 Copynumber: 139.3 Consensus size: 3
23049092 TGATAAAGAA
23049102 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049150 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049198 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049246 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049294 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049342 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049390 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049438 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23049486 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23049520 TAGGGCAAAA
Statistics
Matches: 415, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 415 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23049560 original size:15 final size:16
Alignment explanation
Indices: 23049542--23049574 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
23049532 AAATGTAAAA
23049542 AAATTTGAAAAT-AAT
1 AAATTTGAAAATGAAT
23049557 AAATTTGAAAATGAAT
1 AAATTTGAAAATGAAT
23049573 AA
1 AA
23049575 TAAGGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATTTGAAAATGAAT
Found at i:23049864 original size:22 final size:21
Alignment explanation
Indices: 23049829--23049886 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
23049819 AAACGGTATC
* * *
23049829 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
23049850 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
23049873 TGCATATCATATCT
1 TACAAATCATATCT
23049887 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:23052026 original size:27 final size:27
Alignment explanation
Indices: 23051995--23052118 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 27
23051985 AACACGTCAA
* *
23051995 GAAAGAAAAGCCTTTATGGCGTAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* * * *
23052022 GAAAGAAGAGCTTTTGCGGTATAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
*
23052049 GAAAGAAAAGCTTTTGTGGCATAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* * *
23052076 GAAAG-AAAGCCTTCGCGGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* *
23052102 AAAAGAATA-CCTTTGTG
1 GAAAGAAAAGCCTTTGTG
23052119 AAAAAATCTT
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 27 0.34
27 52 0.66
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCATAACAT
Found at i:23052056 original size:54 final size:53
Alignment explanation
Indices: 23051995--23052108 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
23051985 AACACGTCAA
* * * *
23051995 GAAAGAAAAGCCTTTATGGCGTAACATGAAAGAAGAGCTTTTGCGGTATAACAT
1 GAAAGAAAAGCCTTTATGGCATAACATGAAAGAA-AGCCTTCGCGGCATAACAT
* * *
23052049 GAAAGAAAAGCTTTTGTGGCATAACATGAAAGAAAGCCTTCGCGGCATAATAT
1 GAAAGAAAAGCCTTTATGGCATAACATGAAAGAAAGCCTTCGCGGCATAACAT
*
23052102 AAAAGAA
1 GAAAGAA
23052109 TACCTTTGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 21 0.40
54 31 0.60
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (53 bp):
GAAAGAAAAGCCTTTATGGCATAACATGAAAGAAAGCCTTCGCGGCATAACAT
Found at i:23054338 original size:25 final size:25
Alignment explanation
Indices: 23054309--23054359 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
23054299 CATTTTTAAC
* *
23054309 TTTAGTTT-AATGTATTTCAGTTTGT
1 TTTAGTTTCAAT-TAGTTAAGTTTGT
23054334 TTTAGTTTCAATTAGTTAAGTTTGT
1 TTTAGTTTCAATTAGTTAAGTTTGT
23054359 T
1 T
23054360 CCTTTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.59
Consensus pattern (25 bp):
TTTAGTTTCAATTAGTTAAGTTTGT
Found at i:23057949 original size:15 final size:15
Alignment explanation
Indices: 23057929--23057959 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23057919 GGCTAAGGTT
23057929 ATTGGGCTTAGGCTA
1 ATTGGGCTTAGGCTA
*
23057944 ATTGGGTTTAGGCTA
1 ATTGGGCTTAGGCTA
23057959 A
1 A
23057960 GGCTAATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (15 bp):
ATTGGGCTTAGGCTA
Found at i:23057962 original size:21 final size:21
Alignment explanation
Indices: 23057933--23057975 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
23057923 AAGGTTATTG
*
23057933 GGCTTAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
23057954 GGCTAAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
23057975 G
1 G
23057976 TGTTTGGGCC
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:0.21, C:0.09, G:0.35, T:0.35
Consensus pattern (21 bp):
GGCTAAGGCTAATTGGGTTTA
Found at i:23058274 original size:16 final size:16
Alignment explanation
Indices: 23058239--23058281 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23058229 GATATGAATA
*
23058239 ATTTTTATTTGTGTTC
1 ATTTTTATTTATGTTC
* *
23058255 ATTTTTATTTATTTTT
1 ATTTTTATTTATGTTC
23058271 ATTTTATATTT
1 ATTTT-TATTT
23058282 TTGATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTATGTTC
Found at i:23058299 original size:15 final size:15
Alignment explanation
Indices: 23058279--23058312 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23058269 TTATTTTATA
23058279 TTTTTGATTAT-TTTG
1 TTTTTGATT-TGTTTG
23058294 TTTTTGATTTGTTTG
1 TTTTTGATTTGTTTG
23058309 TTTT
1 TTTT
23058313 GTTTTCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (15 bp):
TTTTTGATTTGTTTG
Found at i:23072452 original size:27 final size:25
Alignment explanation
Indices: 23072371--23072437 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 25
23072361 GAGTATGAAA
23072371 TAATTTTT-TTTTAAATTTATTATT
1 TAATTTTTATTTTAAATTTATTATT
23072395 TAATCCTATTTTATTTTAAATTTATTATT
1 TAA---T-TTTTATTTTAAATTTATTATT
23072424 TAATTTTTATTTTA
1 TAATTTTTATTTTA
23072438 TAAATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.08
25 10 0.26
26 1 0.03
27 1 0.03
28 4 0.11
29 19 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (25 bp):
TAATTTTTATTTTAAATTTATTATT
Found at i:23073204 original size:25 final size:25
Alignment explanation
Indices: 23073162--23073209 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
23073152 AGTTTAATTT
**
23073162 ATAATAAAAATATTATTTTTAAAAAC
1 ATAATAAAAATAACA-TTTTAAAAAC
23073188 ATAAT-AAAATAACATTTTAAAA
1 ATAATAAAAATAACATTTTAAAA
23073210 GTGATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 7 0.35
26 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAAAAATAACATTTTAAAAAC
Found at i:23074981 original size:23 final size:23
Alignment explanation
Indices: 23074951--23074996 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23074941 TCATCACTAT
23074951 CCAATTCCTCAATTTAAACATTC
1 CCAATTCCTCAATTTAAACATTC
23074974 CCAATTCCTCAATTTAAACATTC
1 CCAATTCCTCAATTTAAACATTC
23074997 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (23 bp):
CCAATTCCTCAATTTAAACATTC
Done.