Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 62 of 199
Found at i:23893430 original size:14 final size:16
Alignment explanation
Indices: 23893411--23893443 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
23893401 AATATAATTT
23893411 TAAAAT-TTTAAA-GA
1 TAAAATATTTAAAGGA
23893425 TAAAATATTTAAAGGA
1 TAAAATATTTAAAGGA
23893441 TAA
1 TAA
23893444 TATTAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 6 0.35
16 5 0.29
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (16 bp):
TAAAATATTTAAAGGA
Found at i:23902528 original size:13 final size:13
Alignment explanation
Indices: 23902494--23902531 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23902484 TTCTTCATTA
23902494 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
23902507 -TTGTGGAAAAGTG
1 CTT-TTGAAAAGTG
23902520 CTTTTGAAAAGT
1 CTTTTGAAAAGT
23902532 TTGAGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 2 0.10
13 17 0.81
14 2 0.10
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:23904592 original size:18 final size:16
Alignment explanation
Indices: 23904569--23904602 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
23904559 AATCAGGTTT
23904569 TCATTACTTAATTAAATA
1 TCATTA-TTAA-TAAATA
23904587 TCATTATTAATAAATA
1 TCATTATTAATAAATA
23904603 AAACTCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TCATTATTAATAAATA
Found at i:23905384 original size:7 final size:7
Alignment explanation
Indices: 23905373--23905440 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
23905363 GGCAGAACAA
23905373 AGCAGAG
1 AGCAGAG
*
23905380 GGCAGAG
1 AGCAGAG
*
23905387 AGCAGTG
1 AGCAGAG
23905394 TAGCAGAG
1 -AGCAGAG
* *
23905402 -GGA-ACC
1 AGCAGA-G
*
23905408 AGCAAAG
1 AGCAGAG
*
23905415 AGCAAAG
1 AGCAGAG
23905422 AGCAGAG
1 AGCAGAG
23905429 AGCAGAG
1 AGCAGAG
23905436 AGCAG
1 AGCAG
23905441 TGAAGCAGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
5 1 0.02
6 2 0.04
7 38 0.79
8 7 0.15
ACGTcount: A:0.41, C:0.16, G:0.40, T:0.03
Consensus pattern (7 bp):
AGCAGAG
Found at i:23905845 original size:52 final size:52
Alignment explanation
Indices: 23905714--23905872 Score: 212
Period size: 51 Copynumber: 3.1 Consensus size: 52
23905704 ACTTCAGCTC
* * * * * * *
23905714 AAACTTCAACTTTTCTCAATTTTATTTTATTTTATTTGGTAAGCACTTTTTTT
1 AAACTTTAACTCTTCTCAAATTT-TTTGAGTTTATTTTGTAAGCACGTTTTTT
*
23905767 AAACTTTAGCTCTTCTC-AATTTTTTGAGTTTATTTTGTAAGCACGTTTTTT
1 AAACTTTAACTCTTCTCAAATTTTTTGAGTTTATTTTGTAAGCACGTTTTTT
* *
23905818 AAACTTTAACTCTTCTCAAATTTTTTGAGCTTATTTTGCAAGCACGTTTTTT
1 AAACTTTAACTCTTCTCAAATTTTTTGAGTTTATTTTGTAAGCACGTTTTTT
23905870 AAA
1 AAA
23905873 TCCATGTGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 41 0.44
52 39 0.41
53 14 0.15
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (52 bp):
AAACTTTAACTCTTCTCAAATTTTTTGAGTTTATTTTGTAAGCACGTTTTTT
Found at i:23906130 original size:34 final size:34
Alignment explanation
Indices: 23906077--23906143 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
23906067 GTGGTTCTTA
**
23906077 AACTTTAATTCCTCTCTAACTGTGTTAATTTCTG
1 AACTTTAATTCCTCTCTAACCATGTTAATTTCTG
*
23906111 AACTTTAGTT-CTCTCCTAACCATGTTAATTTCT
1 AACTTTAATTCCTCT-CTAACCATGTTAATTTCT
23906144 AAATGTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (34 bp):
AACTTTAATTCCTCTCTAACCATGTTAATTTCTG
Found at i:23908428 original size:19 final size:17
Alignment explanation
Indices: 23908403--23908449 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
23908393 CGAGATCCGA
23908403 AAATAAAAATATTTAGATT
1 AAATAAAAA-ATTTAGA-T
*
23908422 TAATAAATAAATTTAGAT
1 AAATAAA-AAATTTAGAT
23908440 AAATAAAAAA
1 AAATAAAAAA
23908450 AACGAGTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.12
18 7 0.28
19 13 0.52
20 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (17 bp):
AAATAAAAAATTTAGAT
Found at i:23909822 original size:30 final size:31
Alignment explanation
Indices: 23909707--23909851 Score: 99
Period size: 30 Copynumber: 4.8 Consensus size: 31
23909697 TTACATTAAG
*
23909707 TTTTGAGGATTTAATTAAAATGTTTC-AAGAT
1 TTTTGAGGATTTAATTAAAAT-TTTCAAACAT
* *
23909738 TTTTGAGAATTTAATTAAAATTTGCAGAAC-T
1 TTTTGAGGATTTAATTAAAATTTTCA-AACAT
* * * *
23909769 TTGT-AGTG-TTTAATGACAGTTTTCAAACAT
1 TTTTGAG-GATTTAATTAAAATTTTCAAACAT
*
23909799 TTTTG-GGGTTTAATTAAAATTTTCTAAA-AT
1 TTTTGAGGATTTAATTAAAATTTTC-AAACAT
* *
23909829 TCTT-AGGAGCTTAA-TAAAATTTT
1 TTTTGAGGA-TTTAATTAAAATTTT
23909852 TTAAAAATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
29 4 0.04
30 52 0.58
31 31 0.35
32 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTTGAGGATTTAATTAAAATTTTCAAACAT
Found at i:23909843 original size:31 final size:32
Alignment explanation
Indices: 23909808--23909882 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
23909798 TTTTTGGGGT
23909808 TTAATTAAAATTTTCT-AAAATTCTTAGGAG-C
1 TTAATTAAAATTTTCTAAAAATT-TTAGGAGCC
*
23909839 TTAA-TAAAATTTTTTAAAAATTTTAGGAGCC
1 TTAATTAAAATTTTCTAAAAATTTTAGGAGCC
*
23909870 TTACTTAAAATTT
1 TTAATTAAAATTT
23909883 CCAAAGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
30 17 0.44
31 14 0.36
32 8 0.21
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (32 bp):
TTAATTAAAATTTTCTAAAAATTTTAGGAGCC
Found at i:23920129 original size:6 final size:6
Alignment explanation
Indices: 23920115--23920150 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
23920105 TTCTACCATG
*
23920115 TTAAGT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
23920151 AAAACATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:23925689 original size:41 final size:41
Alignment explanation
Indices: 23925639--23925720 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
23925629 AAATCAGTAT
23925639 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
1 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
*
23925680 AAAATTATAATTAACTTATATAATTTAAATACTAATTAATA
1 AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
23925721 CAAGCTTACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAATTATAATTAACCTATATAATTTAAATACTAATTAATA
Found at i:23939948 original size:56 final size:52
Alignment explanation
Indices: 23939834--23939935 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
23939824 GAACTAGTAA
23939834 CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
1 CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
23939886 CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTA
1 CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTA
23939936 GTCCAAGTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (52 bp):
CCCAACATATCGATAATCTTTCTTTCTAAAGCATTAACCGCAAGTAAGTACT
Found at i:23943114 original size:24 final size:24
Alignment explanation
Indices: 23943096--23943165 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
23943086 CGTTAATTGG
23943096 TCTTTGGAGCTACCCGTTATAGGC
1 TCTTTGGAGCTACCCGTTATAGGC
*
23943120 TCTTTGGAGTTACCCGTTATAGGC
1 TCTTTGGAGCTACCCGTTATAGGC
* *
23943144 TCTTTGTGAGCTTCCTGTTATA
1 TCTTTG-GAGCTACCCGTTATA
23943166 TTACCCGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 29 0.71
25 12 0.29
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (24 bp):
TCTTTGGAGCTACCCGTTATAGGC
Found at i:23947732 original size:23 final size:22
Alignment explanation
Indices: 23947688--23947732 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
23947678 TAATCAATTC
**
23947688 TAATCCCTATAAATATGGTATA
1 TAATCCCTATAAATATACTATA
*
23947710 TAATCTCCTATAAATCTACTATA
1 TAATC-CCTATAAATATACTATA
23947733 CAAATATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TAATCCCTATAAATATACTATA
Found at i:23948991 original size:14 final size:14
Alignment explanation
Indices: 23948972--23949001 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23948962 AAAAGTTTTG
23948972 AAAACATCAAAATC
1 AAAACATCAAAATC
23948986 AAAACATCAAAATC
1 AAAACATCAAAATC
23949000 AA
1 AA
23949002 TCTTTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAACATCAAAATC
Found at i:23949840 original size:16 final size:16
Alignment explanation
Indices: 23949819--23949867 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
23949809 CGCTGTATTG
*
23949819 GAATAGAGGCATAATA
1 GAATAGAGGCGTAATA
* *
23949835 GAATAGATGCGTAATG
1 GAATAGAGGCGTAATA
23949851 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
23949867 G
1 G
23949868 GTAATTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:23949933 original size:44 final size:46
Alignment explanation
Indices: 23949847--23949939 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
23949837 ATAGATGCGT
*
23949847 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAACGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
* *
23949893 AATGGCATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
23949937 AAT
1 AAT
23949940 ACAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAACGG
Found at i:23949935 original size:39 final size:42
Alignment explanation
Indices: 23949847--23949952 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 42
23949837 ATAGATGCGT
*
23949847 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAACGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--A--G
*
23949893 AATGGCATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTT-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAG
* *
23949932 AATGGAATACAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
23949953 CATAAGGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
39 17 0.31
40 1 0.02
44 15 0.28
45 3 0.06
46 18 0.33
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (42 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAG
Found at i:23950225 original size:16 final size:15
Alignment explanation
Indices: 23950097--23950242 Score: 59
Period size: 18 Copynumber: 9.3 Consensus size: 15
23950087 AATTATTATT
23950097 AAATATAATTTAATAA
1 AAATATAATTTAAT-A
*
23950113 AATATATGAATTTACTA
1 AA-ATAT-AATTTAATA
23950130 AAATCATAATATATAATA
1 AAAT-ATAAT-T-TAATA
** * * *
23950148 CTATAAAAATATAATTT
1 AAAT-ATAATTTAA-TA
* *
23950165 AAA-ATAATTATTATT
1 AAATATAATT-TAATA
23950180 AAATATAATTTAATA
1 AAATATAATTTAATA
*
23950195 AAA-AT-A-TT-ATT
1 AAATATAATTTAATA
23950206 AAATATAATTTAATCAA
1 AAATATAATTTAAT--A
*
23950223 AATATATAATTTGATA
1 AA-ATATAATTTAATA
23950239 AAAT
1 AAAT
23950243 TCTTAGTATT
Statistics
Matches: 97, Mismatches: 18, Indels: 31
0.66 0.12 0.21
Matches are distributed among these distances:
11 5 0.05
12 4 0.04
13 2 0.02
14 4 0.04
15 19 0.20
16 21 0.22
17 14 0.14
18 28 0.29
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (15 bp):
AAATATAATTTAATA
Found at i:23950239 original size:26 final size:26
Alignment explanation
Indices: 23950090--23950227 Score: 125
Period size: 26 Copynumber: 5.1 Consensus size: 26
23950080 TTAACATAAT
23950090 TATTATTAAATATAATTTAATAAAATA
1 TATTATTAAATATAATTTAATAAAA-A
* * * * * *
23950117 TATGAATTTACTAAAATCATAATATATAA
1 TAT-TATTAAATATAAT-TTAATA-AAAA
* * *
23950146 TACTATAAAAATATAATTTAA-AATAAT
1 TATTAT-TAAATATAATTTAATAA-AAA
23950173 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
*
23950199 TATTATTAAATATAATTTAATCAAAA
1 TATTATTAAATATAATTTAATAAAAA
23950225 TAT
1 TAT
23950228 ATAATTTGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
26 44 0.51
27 12 0.14
28 14 0.16
29 14 0.16
30 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (26 bp):
TATTATTAAATATAATTTAATAAAAA
Found at i:23954077 original size:21 final size:21
Alignment explanation
Indices: 23954051--23954091 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23954041 ATCTGCTCAA
* *
23954051 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
23954072 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
23954092 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:23958260 original size:15 final size:14
Alignment explanation
Indices: 23958234--23958269 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
23958224 ACCGGAGGGA
23958234 ATAAACAATAAAATG
1 ATAAA-AATAAAATG
23958249 ATGAAAAATAAAATG
1 AT-AAAAATAAAATG
23958264 ATAAAA
1 ATAAAA
23958270 TGAATCACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (14 bp):
ATAAAAATAAAATG
Found at i:23958826 original size:10 final size:10
Alignment explanation
Indices: 23958811--23958837 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
23958801 GTAGCATCTA
23958811 TAACAATGCT
1 TAACAATGCT
23958821 TAACAATGCT
1 TAACAATGCT
23958831 TAACAAT
1 TAACAAT
23958838 TAATAAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (10 bp):
TAACAATGCT
Found at i:23966889 original size:15 final size:15
Alignment explanation
Indices: 23966869--23966903 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
23966859 AATTAACTCA
23966869 TTTATAAAATATATT
1 TTTATAAAATATATT
23966884 TTTATAAAATATATT
1 TTTATAAAATATATT
23966899 TTTAT
1 TTTAT
23966904 TATAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAAAATATATT
Found at i:23974590 original size:3 final size:3
Alignment explanation
Indices: 23974582--23974607 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23974572 CTCGTCTTTC
23974582 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23974608 TTTAACTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23986486 original size:21 final size:22
Alignment explanation
Indices: 23986444--23986486 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23986434 ATTCCCTCAA
*
23986444 TAAAAGATAATAGACGAATGGT
1 TAAAAGATAATAGACCAATGGT
*
23986466 TAAAATATAATA-ACCAATGGT
1 TAAAAGATAATAGACCAATGGT
23986487 AACTATTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (22 bp):
TAAAAGATAATAGACCAATGGT
Found at i:23989889 original size:31 final size:31
Alignment explanation
Indices: 23989854--23989916 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
23989844 GTAAACCAAG
23989854 AGTAAAGAATATGCTATATCCTTAAGAATCT
1 AGTAAAGAATATGCTATATCCTTAAGAATCT
23989885 AGTAAAGAATATGCTATATCCTTAAGAATCT
1 AGTAAAGAATATGCTATATCCTTAAGAATCT
23989916 A
1 A
23989917 TCATTAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (31 bp):
AGTAAAGAATATGCTATATCCTTAAGAATCT
Found at i:23993482 original size:13 final size:14
Alignment explanation
Indices: 23993448--23993479 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
23993438 AAGACATGTT
*
23993448 ATTTTAGTTAATGG
1 ATTTTAATTAATGG
23993462 ATTTTAATTAATGG
1 ATTTTAATTAATGG
23993476 ATTT
1 ATTT
23993480 AATGGCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
ATTTTAATTAATGG
Found at i:24001354 original size:12 final size:12
Alignment explanation
Indices: 24001337--24001372 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
24001327 TCACCGATGA
*
24001337 ATAGATATAGAT
1 ATAGATATAAAT
24001349 ATAGATATAAAT
1 ATAGATATAAAT
*
24001361 ATATATATAAAT
1 ATAGATATAAAT
24001373 CCATGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
ATAGATATAAAT
Found at i:24002654 original size:77 final size:78
Alignment explanation
Indices: 24002550--24002699 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 78
24002540 ATTGTACCAA
*
24002550 AAATATATATATACAAAATTTTAAGTTTAATTCAATCATTTGTATTTTAAAAAATAAATATAT-C
1 AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
24002614 ATTTATTATCATC
66 ATTTATTATCATC
* * *
24002627 AAATATATATATACAAGATTTTAAGTTTGACTCAATTATTTGTATTTTAAAAAATAAATATATCC
1 AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
*
24002692 TTTTATTA
66 ATTTATTA
24002700 AGAAGTTAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 59 0.88
78 8 0.12
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (78 bp):
AAATATATATATACAAAATTTTAAGTTTAACTCAATCATTTGTATTTTAAAAAATAAATATATCC
ATTTATTATCATC
Found at i:24008023 original size:42 final size:42
Alignment explanation
Indices: 24007965--24008048 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
24007955 CTTTAGTAGG
* *
24007965 CGGTTCCTGGCTACCATCAGCCCCAAAATTCTCAACTTTACC
1 CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
* * * *
24008007 CGGTTCCTGACCACCATCTGCCTCAAATTTCTCATCTTTACC
1 CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
24008049 TAACTCAGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.38, G:0.11, T:0.30
Consensus pattern (42 bp):
CGGTTCCTGACCACCATCAGCCCCAAAATTCTCAACTTTACC
Found at i:24010649 original size:48 final size:48
Alignment explanation
Indices: 24010567--24010660 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
24010557 TTTCTTGGCT
* *
24010567 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
*
24010615 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
24010661 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:24012035 original size:42 final size:42
Alignment explanation
Indices: 24011931--24012222 Score: 310
Period size: 42 Copynumber: 6.9 Consensus size: 42
24011921 GAGCCTCCAT
*
24011931 CACCTTGGTGGC-TCGGATGTGTGGGAGCCTC-AGCCACCATCGG
1 CACCTTGGT-GCAT-GGATGTGCGGGAGCCTCGAG-CACCATCGG
* ** *
24011974 TAACCTTAATGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 -CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
* *
24012017 CACCTTGGTGCATGGATGTGCGGGAGCATCG-GACACCACCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAG-CACCATCGG
* * ** * *
24012059 CAAACTAGGCCCTTGGTTGTG-GGGAGCCTCGGAG-ACCATCGG
1 C-ACCTTGGTGCATGGATGTGCGGGAGCCTC-GAGCACCATCGG
*
24012101 CACCTCGGTGCTAT-GATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGC-ATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
24012143 CACCTTGGTGCTTGGATGTGCGGGAGCCTCGAGCACCATCGG
1 CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
*
24012185 CACCTTGGTGCATGGATGAGCGGGAGCCTTC-AGCACCA
1 CACCTTGGTGCATGGATGTGCGGGAGCC-TCGAGCACCA
24012223 AAGCTAAAGT
Statistics
Matches: 209, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
41 16 0.08
42 140 0.67
43 43 0.21
44 10 0.05
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (42 bp):
CACCTTGGTGCATGGATGTGCGGGAGCCTCGAGCACCATCGG
Found at i:24012458 original size:24 final size:24
Alignment explanation
Indices: 24012430--24012508 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
24012420 CCGGTTAGGT
*
24012430 TCCCGGTGGTGCTCCGGTGATCCG
1 TCCCGGTGGTGCTCCGGTGAACCG
* *
24012454 TCCCGGCGGTGCTCCGGCGAACCG
1 TCCCGGTGGTGCTCCGGTGAACCG
24012478 TCCC-GTCGGTGCTCCGGTGAACCG
1 TCCCGGT-GGTGCTCCGGTGAACCG
*
24012502 TTCCGGT
1 TCCCGGT
24012509 AGCATAGGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.02
24 44 0.94
25 2 0.04
ACGTcount: A:0.06, C:0.37, G:0.35, T:0.22
Consensus pattern (24 bp):
TCCCGGTGGTGCTCCGGTGAACCG
Found at i:24012662 original size:85 final size:84
Alignment explanation
Indices: 24012513--24013233 Score: 639
Period size: 85 Copynumber: 8.5 Consensus size: 84
24012503 TCCGGTAGCA
* *
24012513 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCT-GGTGCTAGGATGTGCAGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCT-TGATGTGCGGGAG
* *
24012577 CCCCGGACACCATCGGCAAAC
64 CCTCGGACACCATCGGCAACC
* ** * *
24012598 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGCACCTCGGTGCTTCGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
* *
24012663 CTCGGGCACCATCGACAACC
65 CTCGGACACCATCGGCAACC
24012683 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTATGATGTGCGGGAGC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCT-TGATGTGCGGGAGC
**
24012748 CTCGGACACTGTCGGCAACC
65 CTCGGACACCATCGGCAACC
* * * *
24012768 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTT-GATGTGCGGGAGC
*
24012833 CTCGCG-TACCATCGGCAACC
65 CTCG-GACACCATCGGCAACC
* * * ** ** *
24012853 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
* **
24012918 CCTCGGCCACCATCGGCAAAA
64 CCTCGGACACCATCGGCAACC
* * * ** *
24012939 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAG
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGAG
*
24013004 CCTCGGGCACCAT-GGC-ACC
64 CCTCGGACACCATCGGCAACC
* ** * * * ** * ** *
24013023 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTGGTCGTGCGGGA
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
24013087 GCCTC-GAGCACCATCGGC-ACC
63 GCCTCGGA-CACCATCGGCAACC
* ** * * * * * * ** * *
24013108 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACCTAGGCCCTTGGTCGTGCGAGA
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGC-ACCTCGGTGCTTGAT-GTGCGGGA
* * *
24013172 GGCTCGGGCACCATCGGCAAAC
63 GCCTCGGACACCATCGGCAACC
* *
24013194 TAAGCCCTTGGTTGTGCGGGAGCCTCGGGCACCATCGGCA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCA
24013234 AAATAGGAGG
Statistics
Matches: 540, Mismatches: 81, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.00
84 71 0.13
85 332 0.61
86 136 0.25
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (84 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCACCTCGGTGCTTGATGTGCGGGAGCC
TCGGACACCATCGGCAACC
Found at i:24013120 original size:298 final size:299
Alignment explanation
Indices: 24012584--24013240 Score: 1113
Period size: 298 Copynumber: 2.2 Consensus size: 299
24012574 GAGCCCCGGA
* * * ** * **
24012584 CACCATCGGCAAACTAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCT
1 CACCATCGGCAAACTAAGCCCTTGGTAGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
24012648 TCGATGTGCGGGAGCCTCGGGCACCATCGACAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
66 TCGATGTGCGGGAGCCTCGGACACCATCGACAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
*
24012713 ACCATCGGCACCTCGGTGCTATGATGTGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
131 ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
* *
24012778 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTGCGAGAACCTCGCGTACC
196 GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
*
24012843 ATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
261 ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
* *
24012882 CACCATCGGCAAACTAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAATAGGCCCT
1 CACCATCGGCAAACTAAGCCCTTGGTAGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
* *
24012947 T-GGTCGTGCGGGAGCCTCGGACACCATCGGCAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGG
66 TCGAT-GTGCGGGAGCCTCGGACACCATCGACAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGG
24013011 CACCAT-GGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
130 CACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTT
24013075 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
195 GGTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCAC
24013140 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
260 CATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
*
24013180 CACCATCGGCAAACTAAGCCCTTGGTTGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGG
1 CACCATCGGCAAACTAAGCCCTTGGTAGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGG
24013241 AGGATAATGT
Statistics
Matches: 337, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
298 268 0.80
299 69 0.20
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.18
Consensus pattern (299 bp):
CACCATCGGCAAACTAAGCCCTTGGTAGTGCGGGAGCCTCGGGCACCATCGGCAAAATAGGCCCT
TCGATGTGCGGGAGCCTCGGACACCATCGACAAACTAGGCCCTTGGTCGTGCGGGAGCCTCGGGC
ACCATCGGCACCTCGGTGCTATGATGGGCGGGAGCCTCGGACACTGTCGGCAACCTAGGCCCTTG
GTCGTGCGGGAGCCTCGAGCACCATCGGCACCTTGGTGCTTGGATGTCCGAGAACCTCGCGCACC
ATCGACAACCTAGGCCCTTGGTCGTGCGAGAGGCTCGGG
Found at i:24013235 original size:43 final size:43
Alignment explanation
Indices: 24012513--24013234 Score: 732
Period size: 43 Copynumber: 17.0 Consensus size: 43
24012503 TCCGGTAGCA
24012513 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
** * * * * *
24012556 T-GGTGCTAGGAT-GTGCAGGAGCCCCGGACACCATCGGCAAAC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
24012598 TAAGCCCTTGGTATTGCAGGAGCCTCGGGCGCCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * *
24012640 TCGGTGCTTCGAT-GTGCGGGAGCCTCGGGCACCATCGACAACC
1 TAGGCCCTT-GGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
24012683 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * **
24012725 TCGGTGCTATGAT-GTGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
24012768 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * *
24012810 TTGGTGCTTGGAT-GTGCGAGAACCTCGCGTACCATCGGCAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
24012853 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * **
24012896 TAAGCCCTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAAAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
24012939 TAGGCCCTTGGTCGTGCGGGAGCCTCGGACACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
24012982 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCAT-GGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * **
24013023 TCGGTGCTATGAT-GGGCGGGAGCCTCGGACACTGTCGGCAACC
1 TAGGCCCT-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
*
24013066 TAGGCCCTTGGTCGTGCGGGAGCCTCGAGCACCATCGGC-ACC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* ** * * * * *
24013108 TTGGTGCTTGGAT-GTCCGAGAACCTCGCGCACCATCGACAACC
1 TAGGCCCTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* * *
24013151 TAGGCCCTTGGTCGTGCGAGAGGCTCGGGCACCATCGGCAAAC
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
* *
24013194 TAAGCCCTTGGTTGTGCGGGAGCCTCGGGCACCATCGGCAA
1 TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAA
24013235 AATAGGAGGA
Statistics
Matches: 552, Mismatches: 108, Indels: 38
0.79 0.15 0.05
Matches are distributed among these distances:
41 25 0.05
42 178 0.32
43 349 0.63
ACGTcount: A:0.17, C:0.32, G:0.33, T:0.18
Consensus pattern (43 bp):
TAGGCCCTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACC
Found at i:24020979 original size:33 final size:33
Alignment explanation
Indices: 24020930--24021027 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 33
24020920 TGGAATGTTG
* *
24020930 TTTGCATCTGTATGGTATACTTTTTAAGTTACC
1 TTTGGATCTGTATGGTATGCTTTTTAAGTTACC
* * *
24020963 TTTGGATCTGTCTGGTATGCTTTTTATGTTA-T
1 TTTGGATCTGTATGGTATGCTTTTTAAGTTACC
* *
24020995 TTTTGATTCTGTATGATATGCTTTTTAAGTTAC
1 TTTGGA-TCTGTATGGTATGCTTTTTAAGTTAC
24021028 ATTGTCACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
32 5 0.09
33 49 0.91
ACGTcount: A:0.18, C:0.11, G:0.17, T:0.53
Consensus pattern (33 bp):
TTTGGATCTGTATGGTATGCTTTTTAAGTTACC
Found at i:24022558 original size:19 final size:18
Alignment explanation
Indices: 24022521--24022559 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24022511 TTTTCTTATT
* *
24022521 TTGAAAAAATAATAGAGA
1 TTGAAAAAAAAATAAAGA
24022539 TTGAAAAAAAAAGTAAAGA
1 TTGAAAAAAAAA-TAAAGA
24022558 TT
1 TT
24022560 AGGGTTGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
TTGAAAAAAAAATAAAGA
Found at i:24040301 original size:24 final size:24
Alignment explanation
Indices: 24040205--24040302 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
24040195 AGTTACCCGT
24040205 TAAGCTCGCATGAGCTTTCTGATT-
1 TAAGCTCGCATGAGCTTTCTG-TTA
** *
24040229 TAAGCTCTTATGAGCTTCCTGTTA
1 TAAGCTCGCATGAGCTTTCTGTTA
* * *
24040253 TTAAGC-CTGGATAAGCTTTCCGTTA
1 -TAAGCTC-GCATGAGCTTTCTGTTA
*
24040278 TAAGCTCACATGAGCTTTCTGTTA
1 TAAGCTCGCATGAGCTTTCTGTTA
24040302 T
1 T
24040303 TTGGCTTGGA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
23 2 0.03
24 38 0.66
25 18 0.31
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (24 bp):
TAAGCTCGCATGAGCTTTCTGTTA
Found at i:24051279 original size:24 final size:24
Alignment explanation
Indices: 24051214--24051279 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
24051204 GAGTTATCTG
*
24051214 TTAAGCTCGCACGAGCTTTCTGAT
1 TTAAGCTCGCATGAGCTTTCTGAT
*
24051238 TTAAGCTCGCATGTGCTTTCTGAT
1 TTAAGCTCGCATGAGCTTTCTGAT
**
24051262 TTAAGCTCTTATGAGCTT
1 TTAAGCTCGCATGAGCTT
24051280 CATGTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (24 bp):
TTAAGCTCGCATGAGCTTTCTGAT
Found at i:24051336 original size:24 final size:24
Alignment explanation
Indices: 24051215--24051336 Score: 81
Period size: 24 Copynumber: 5.0 Consensus size: 24
24051205 AGTTATCTGT
*
24051215 TAAGCTCGCACGAGCTTTCTGATT-
1 TAAGCTCGCATGAGCTTTCTG-TTA
*
24051239 TAAGCTCGCATGTGCTTTCTGATT-
1 TAAGCTCGCATGAGCTTTCTG-TTA
**
24051263 TAAGCTCTTATGAGC-TTCATGTTA
1 TAAGCTCGCATGAGCTTTC-TGTTA
* * * **
24051287 TTAAGC-CTGTATAAGCTTCCCATTA
1 -TAAGCTC-GCATGAGCTTTCTGTTA
*
24051312 TAAGCTCACATGAGCTTTCTGTTA
1 TAAGCTCGCATGAGCTTTCTGTTA
24051336 T
1 T
24051337 TTGGCTTGGA
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
23 5 0.07
24 54 0.71
25 15 0.20
26 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (24 bp):
TAAGCTCGCATGAGCTTTCTGTTA
Found at i:24054438 original size:13 final size:14
Alignment explanation
Indices: 24054420--24054453 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
24054410 AACAACCAAA
24054420 AACAATACTT-GTG
1 AACAATACTTCGTG
24054433 AACAATA-TTCGTG
1 AACAATACTTCGTG
24054446 AACAATAC
1 AACAATAC
24054454 CCATGAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (14 bp):
AACAATACTTCGTG
Found at i:24058783 original size:87 final size:87
Alignment explanation
Indices: 24058637--24058818 Score: 346
Period size: 87 Copynumber: 2.1 Consensus size: 87
24058627 CTTCATTACA
24058637 ACTTCATCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
24058702 GTCATGGCTTGGCGTCTCTTCG
66 GCCATGGCTTGGCGTCTCTTCG
24058724 ACTTCATCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
1 ACTTCATCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
*
24058789 GCCGTGGCTTGGCGTCTCTTCG
66 GCCATGGCTTGGCGTCTCTTCG
24058811 ACTTCATC
1 ACTTCATC
24058819 TTCCGAACTG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 93 1.00
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (87 bp):
ACTTCATCGACAGTGGAACCATTCTCCCCAAGGAACTCAACCTCAGTAGCCTTTCTTTTGGCAAT
GCCATGGCTTGGCGTCTCTTCG
Found at i:24062925 original size:27 final size:27
Alignment explanation
Indices: 24062895--24062948 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
24062885 GTTATTTTTC
24062895 AACGCATAGGTGAAAGATCGGATTGAA
1 AACGCATAGGTGAAAGATCGGATTGAA
* *
24062922 AACGCGTAGGTGAAAGATCTGATTGAA
1 AACGCATAGGTGAAAGATCGGATTGAA
24062949 GTTATCGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (27 bp):
AACGCATAGGTGAAAGATCGGATTGAA
Found at i:24065868 original size:19 final size:21
Alignment explanation
Indices: 24065829--24065871 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
24065819 TTGATTGGCC
*
24065829 AAAATTATTAAGAATTATTTA
1 AAAATTATTAAGAACTATTTA
24065850 AAAATTA-TAA-AACTATTTA
1 AAAATTATTAAGAACTATTTA
24065869 AAA
1 AAA
24065872 TGAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
21 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATTATTAAGAACTATTTA
Found at i:24065922 original size:18 final size:17
Alignment explanation
Indices: 24065899--24065942 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
24065889 TGTTATATAG
* *
24065899 AAAAATTAAAAATTATTT
1 AAAAATTAAAAA-CATAT
24065917 AAAAATATAAAAACATAT
1 AAAAAT-TAAAAACATAT
24065935 AAAAATTA
1 AAAAATTA
24065943 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTAAAAACATAT
Found at i:24065937 original size:29 final size:28
Alignment explanation
Indices: 24065893--24065951 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
24065883 GCAAAATGTT
*
24065893 ATATAGAAAAATTAAAAATTATTTAAAA
1 ATATAGAAAAATTAAAAATTATTAAAAA
24065921 ATATA-AAAACATATAAAAATTATTAAAAA
1 ATATAGAAAA-AT-TAAAAATTATTAAAAA
24065950 AT
1 AT
24065952 TTATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.14
28 7 0.25
29 17 0.61
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
ATATAGAAAAATTAAAAATTATTAAAAA
Found at i:24066865 original size:9 final size:9
Alignment explanation
Indices: 24066853--24066938 Score: 102
Period size: 9 Copynumber: 9.4 Consensus size: 9
24066843 AAAATAAAAA
*
24066853 AATTTGGGT
1 AATTCGGGT
24066862 AATTCGGGT
1 AATTCGGGT
*
24066871 ATTTTTC-GGT
1 A--ATTCGGGT
*
24066881 AATTCGGTT
1 AATTCGGGT
24066890 AATTCGGGT
1 AATTCGGGT
*
24066899 AATTCGGTT
1 AATTCGGGT
*
24066908 AATTTGGGT
1 AATTCGGGT
24066917 AATTCGGGT
1 AATTCGGGT
24066926 AATTCGGGT
1 AATTCGGGT
24066935 AATT
1 AATT
24066939 TTTAACCAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
8 3 0.05
9 55 0.85
10 4 0.06
11 3 0.05
ACGTcount: A:0.22, C:0.08, G:0.28, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:24067116 original size:12 final size:12
Alignment explanation
Indices: 24067099--24067123 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24067089 AGTAATTTCG
24067099 GGTCGGTTAACC
1 GGTCGGTTAACC
24067111 GGTCGGTTAACC
1 GGTCGGTTAACC
24067123 G
1 G
24067124 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:24072569 original size:31 final size:31
Alignment explanation
Indices: 24072534--24072607 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
24072524 TTCAAAATGG
* * *
24072534 TCAAATAAGGGCCAAATCTTTTT-TAAAGTGC
1 TCAAATAAGGGCCAAAT-TTTTTAAAAAATAC
*
24072565 TCAAATAAGGACCAAATTTTTTAAAAAATAC
1 TCAAATAAGGGCCAAATTTTTTAAAAAATAC
24072596 TCAAATAAGGGC
1 TCAAATAAGGGC
24072608 TTTTCAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 5 0.14
31 32 0.86
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (31 bp):
TCAAATAAGGGCCAAATTTTTTAAAAAATAC
Found at i:24078484 original size:30 final size:31
Alignment explanation
Indices: 24078408--24078484 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
24078398 TATTTAATAA
*
24078408 AATAATAAATTATTAATATAAGTAATTATTTC
1 AATAATAAATT-TTAATATAAGCAATTATTTC
* * * *
24078440 AATAA-AATTATTTAATATTA-CATTTATTTT
1 AATAATAAAT-TTTAATATAAGCAATTATTTC
24078470 AATAATAAATTTTAA
1 AATAATAAATTTTAA
24078485 CAGTAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 17 0.46
31 14 0.38
32 6 0.16
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
AATAATAAATTTTAATATAAGCAATTATTTC
Found at i:24081219 original size:23 final size:23
Alignment explanation
Indices: 24081153--24081225 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 23
24081143 ACAGCGTCCT
24081153 GTTATTAGCTC-TCATGAGCTTCCC
1 GTTA-TAGCTCTTC-TGAGCTTCCC
*
24081177 GTTATATGGTTCTTGC-GAGCTTCCC
1 GTTATA--GCTCTT-CTGAGCTTCCC
*
24081202 GTTATAGCTCTTCTGAGCATCCC
1 GTTATAGCTCTTCTGAGCTTCCC
24081225 G
1 G
24081226 ATAGGTTGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
22 1 0.02
23 16 0.39
24 4 0.10
25 18 0.44
26 1 0.02
27 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (23 bp):
GTTATAGCTCTTCTGAGCTTCCC
Found at i:24087114 original size:25 final size:25
Alignment explanation
Indices: 24087083--24087180 Score: 99
Period size: 25 Copynumber: 3.9 Consensus size: 25
24087073 AATCTCTTTC
* *
24087083 GAGCCATGTAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGA
* *
24087108 GAGCCATATAACGGGAAGCTCTTGC
1 GAGCCATATAACGGGAAGCTCATGA
* **
24087133 GAGCCA-ATTATCGGGAAGCTCCGGA
1 GAGCCATA-TAACGGGAAGCTCATGA
* *
24087158 GAGCCAAATAACGAGAAGCTCAT
1 GAGCCATATAACGGGAAGCTCAT
24087181 AAAAGCCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.02
25 58 0.97
26 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGA
Found at i:24087151 original size:50 final size:50
Alignment explanation
Indices: 24087076--24087205 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
24087066 AATCGAAAAT
* * * * *
24087076 CTCTTTCGAGCC-ATGTAACGGGAAGCTCATGTGAGCCATATAACGGGAAG
1 CTCTTACGAGCCAAT-TATCGGGAAGCTCATGAGAGCCAAATAACGAGAAG
* **
24087126 CTCTTGCGAGCCAATTATCGGGAAGCTCCGGAGAGCCAAATAACGAGAAG
1 CTCTTACGAGCCAATTATCGGGAAGCTCATGAGAGCCAAATAACGAGAAG
* ** *
24087176 CTCATAAAAGCCAATTATCGGGACGCTCAT
1 CTCTTACGAGCCAATTATCGGGAAGCTCAT
24087206 AAGTGCTGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 63 0.97
51 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (50 bp):
CTCTTACGAGCCAATTATCGGGAAGCTCATGAGAGCCAAATAACGAGAAG
Found at i:24087187 original size:25 final size:25
Alignment explanation
Indices: 24087159--24087207 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24087149 AGCTCCGGAG
24087159 AGCCAAATAACGAGAAGCTCATAAA
1 AGCCAAATAACGAGAAGCTCATAAA
* * * *
24087184 AGCCAATTATCGGGACGCTCATAA
1 AGCCAAATAACGAGAAGCTCATAA
24087208 GTGCTGTGGT
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:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (25 bp):
AGCCAAATAACGAGAAGCTCATAAA
Found at i:24088678 original size:7 final size:7
Alignment explanation
Indices: 24088668--24088692 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24088658 TAAATTATAA
24088668 AAAAGTG
1 AAAAGTG
24088675 AAAAGTG
1 AAAAGTG
24088682 AAAAGTG
1 AAAAGTG
24088689 AAAA
1 AAAA
24088693 TAAGGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (7 bp):
AAAAGTG
Found at i:24089242 original size:23 final size:23
Alignment explanation
Indices: 24089216--24089278 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
24089206 CGTTATAATT
24089216 TGCACTTCGGTGCCCCTGACATA
1 TGCACTTCGGTGCCCCTGACATA
*
24089239 TGCAC-TCTGGTGCCCCTAACATA
1 TGCACTTC-GGTGCCCCTGACATA
**
24089262 -GCACTTATGTGCCCCTG
1 TGCACTTCGGTGCCCCTG
24089279 TTTATTCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.17, C:0.35, G:0.21, T:0.27
Consensus pattern (23 bp):
TGCACTTCGGTGCCCCTGACATA
Found at i:24090734 original size:50 final size:50
Alignment explanation
Indices: 24090673--24090778 Score: 205
Period size: 50 Copynumber: 2.1 Consensus size: 50
24090663 ATCCCTCATA
24090673 TTATTA-TTAGATGCAAGGTCATAGTCATTCTTTTAGTGTACCTCCCATT
1 TTATTACTTAGATGCAAGGTCATAGTCATTCTTTTAGTGTACCTCCCATT
24090722 TTATTACTTAGATGCAAGGTCATAGTCATTCTTTTAGTGTACCTCCCATT
1 TTATTACTTAGATGCAAGGTCATAGTCATTCTTTTAGTGTACCTCCCATT
24090772 TTATTAC
1 TTATTAC
24090779 CTTTGTCTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 6 0.11
50 50 0.89
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (50 bp):
TTATTACTTAGATGCAAGGTCATAGTCATTCTTTTAGTGTACCTCCCATT
Found at i:24101178 original size:113 final size:109
Alignment explanation
Indices: 24100634--24101375 Score: 394
Period size: 113 Copynumber: 6.5 Consensus size: 109
24100624 ATACGCCGTT
* * * * * * * * *
24100634 AAATCTCTTAACCAAAACGCTGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGCGTTTACGCG
1 AAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGATGTAT-ATAGAATTAGTGGCGCTTA-GTG
* * *
24100699 AAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAAACGCCGCA
63 AAACGCCGTTAAA-GATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCA
* * * * *
24100747 AAATAGCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATCTTAGAATTAGTGCCGTTTA-TAGG
1 AAATATCTTAACCAAAACGCAGAGTTTGGTCTTGATGTAT-ATAGAATTAGTGGCGCTTAGT--G
* * *** *
24100811 AAAACGCCGTTAAAGTACAGTAATAGCGGTGCTTCACGGAAGCGCCGTA
63 -AAACGCCGTTAAAG-ATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCA
* * * ** * * * *
24100860 AACTAT-TTGAACCGAAACACATCGTTTTGGTCTTGATTTATACTACAACTAGTGGCGCATACGG
1 AAATATCTT-AACCAAAACGCAGAG-TTTGGTCTTGATGTATA-TAGAATTAGTGGCGCTTA--G
* * * * **
24100924 TCAAACGCCGGTAAAGAATAGTATTAGCGGCGATTTGTGTCTAGCGCCGCA
61 TGAAACGCCGTTAAAG-ATAGTAATAGCGGCGCTTTGTG-GAAGCGCCGCA
* * * * * *
24100975 AAATATCTTAACAAAAATGCAGCGTTGTGATCTTAATGTATATAAAATTAGTGGCGCTTA-TGGT
1 AAATATCTTAACCAAAACGCAGAGTT-TGGTCTTGATGTATATAGAATTAGTGGCGCTTAGT-G-
** *
24101039 AAACCGCCGCGAAAGATATTAATAGCGGCGCTTTGTGAGAAGCGCCGCA
63 AAA-CGCCGTTAAAGATAGTAATAGCGGCGCTTTGTG-GAAGCGCCGCA
* * * * *
24101088 AAATATATTAACCAAAACGCATAATTTCGTCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGA
1 AAATATCTTAACCAAAACGCAGAGTTTGGT-CTTGATGTATA-TAGAATTAGTGGCGCTTAGTGA
* * * ** * *
24101153 AACACCGTTAAAGCATAGTATTAGCGGCGCTTGGGTAAAAGCGCCACC
64 AACGCCGTTAAAG-ATAGTAATAGCGGCGCTT-TGTGGAAGCGCCGCA
* * ** * * * * *
24101201 AAATATCTGAACCAAAATGCATCGTTTTGGTATTGATGTATACTTGATTTAGTGGCGATTTCGGT
1 AAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGATGTATA-TAGAATTAGTGGCG-CTT-AGT
* * * * * ** *
24101266 AAAACGCCGCTAAAGCATAGTATTAGCGGTGATTTGTTGCTAGCGCCGCG
62 GAAACGCCGTTAAAG-ATAGTAATAGCGGCGCTTTG-TGGAAGCGCCGCA
* * * * * * * *
24101316 ACATACCATAAACAAAACACA-ACGTTTTGGTCTTAATTTATACTAAAATTAGTGGCGCTT
1 AAATATCTTAACCAAAACGCAGA-G-TTTGGTCTTGATGTATA-TAGAATTAGTGGCGCTT
24101376 TGTTGAAAGT
Statistics
Matches: 479, Mismatches: 124, Indels: 51
0.73 0.19 0.08
Matches are distributed among these distances:
111 1 0.00
112 45 0.09
113 202 0.42
114 111 0.23
115 117 0.24
116 2 0.00
117 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (109 bp):
AAATATCTTAACCAAAACGCAGAGTTTGGTCTTGATGTATATAGAATTAGTGGCGCTTAGTGAAA
CGCCGTTAAAGATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCA
Found at i:24101620 original size:90 final size:90
Alignment explanation
Indices: 24101469--24101672 Score: 383
Period size: 90 Copynumber: 2.3 Consensus size: 90
24101459 AATCATATTT
24101469 GGTTTA-GGTATAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
1 GGTTTAGGGT-TAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAA
24101533 GTTTAAAGTTTAGGGTTTACGATGTA
65 GTTTAAAGTTTAGGGTTTACGATGTA
*
24101559 GGTTTAGGGTTAGAGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
1 GGTTTAGGGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
24101624 TTTAAAGTTTAGGGTTTACGATGTA
66 TTTAAAGTTTAGGGTTTACGATGTA
24101649 GGTTTAGGGTTAGGGTATTAGGGT
1 GGTTTAGGGTTAGGGTATTAGGGT
24101673 GTAAATTTAG
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
90 108 0.97
91 3 0.03
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (90 bp):
GGTTTAGGGTTAGGGTATTAGGGTTCATTATATAATGTTTAGTATTTTTGGATTACAGTGTAAAG
TTTAAAGTTTAGGGTTTACGATGTA
Found at i:24101669 original size:14 final size:14
Alignment explanation
Indices: 24101652--24101699 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
24101642 CGATGTAGGT
*
24101652 TTAGGGTTAGGGTA
1 TTAGGGTTAGAGTA
*
24101666 TTAGGGTGTA-AAT-
1 TTAGGGT-TAGAGTA
24101679 TTAGGGTTAGAGTA
1 TTAGGGTTAGAGTA
24101693 TTAGGGT
1 TTAGGGT
24101700 GTTTTGGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 15 0.54
15 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAGGGTTAGAGTA
Found at i:24101735 original size:22 final size:21
Alignment explanation
Indices: 24101705--24101751 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
24101695 AGGGTGTTTT
*
24101705 GGGTTTAAGGTTTAAGAGTCTG
1 GGGTATAAGGTTTAAG-GTCTG
*
24101727 GGGTATAAGGTTTAAGGTTTG
1 GGGTATAAGGTTTAAGGTCTG
24101748 GGGT
1 GGGT
24101752 TTAGGCTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.36
Consensus pattern (21 bp):
GGGTATAAGGTTTAAGGTCTG
Found at i:24102911 original size:22 final size:22
Alignment explanation
Indices: 24102885--24102931 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24102875 ACTATTCCGA
*
24102885 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
24102907 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
24102929 TTA
1 TTA
24102932 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:24103336 original size:71 final size:71
Alignment explanation
Indices: 24103237--24103437 Score: 350
Period size: 71 Copynumber: 2.8 Consensus size: 71
24103227 TGAGTGGATT
*
24103237 TGAAATAATTTTTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
24103302 TGAGTC
66 TGAGTC
*
24103308 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTAAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
*
24103373 TGGGTC
66 TGAGTC
*
24103379 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
24103438 CTGGATCTGG
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
70 2 0.02
71 122 0.98
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:24103363 original size:37 final size:37
Alignment explanation
Indices: 24103251--24103428 Score: 122
Period size: 36 Copynumber: 5.0 Consensus size: 37
24103241 ATAATTTTTT
24103251 TTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGA
1 TTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGA
* * * * **
24103288 TTTGAAATAAT-TTCTGA-G-TCTGAAATA--ATTTGTT
1 TTTG--ATTATGTTGTTATGTTCTGAAATATGCTTTGGA
*
24103322 TTTGATTATGTTGTTATGTTCTAAAATATGCTTTGGA
1 TTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGA
* ** * * * **
24103359 TTTGA-AATAAT-TTCTGGGTCTGAAATA--ATTTGTT
1 TTTGATTATGTTGTTAT-GTTCTGAAATATGCTTTGGA
*
24103393 TTTGATTATGTTGTTATGTTCTGAATTATGCTTTGG
1 TTTGATTATGTTGTTATGTTCTGAAATATGCTTTGG
24103429 TTCTGAAATC
Statistics
Matches: 99, Mismatches: 30, Indels: 24
0.65 0.20 0.16
Matches are distributed among these distances:
32 4 0.04
33 4 0.04
34 18 0.18
35 23 0.23
36 24 0.24
37 18 0.18
38 4 0.04
39 4 0.04
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.51
Consensus pattern (37 bp):
TTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGA
Found at i:24103592 original size:14 final size:14
Alignment explanation
Indices: 24103573--24103602 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24103563 ATAAAAGGTT
24103573 TTTAGTTAATCATC
1 TTTAGTTAATCATC
24103587 TTTAGTTAATCATC
1 TTTAGTTAATCATC
24103601 TT
1 TT
24103603 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:24104637 original size:9 final size:9
Alignment explanation
Indices: 24104614--24104766 Score: 76
Period size: 9 Copynumber: 17.9 Consensus size: 9
24104604 ATATATTCAT
24104614 TTACATAAC
1 TTACATAAC
24104623 --ACATAAC
1 TTACATAAC
24104630 TTACATAAC
1 TTACATAAC
* *
24104639 CTACTTAA-
1 TTACATAAC
*
24104647 -TATATAAC
1 TTACATAAC
*
24104655 TTGCATAAC
1 TTACATAAC
* *
24104664 TTAAATAAG
1 TTACATAAC
24104673 TTACATAA-
1 TTACATAAC
24104681 TAATACATAA-
1 T--TACATAAC
*
24104691 -TACACAAC
1 TTACATAAC
24104699 TTACAT-A-
1 TTACATAAC
*
24104706 TGTAAATAA-
1 T-TACATAAC
*
24104715 -TACAGAAC
1 TTACATAAC
24104723 TTACATAAC
1 TTACATAAC
*
24104732 TTACATACC
1 TTACATAAC
* *
24104741 CTACATAAA
1 TTACATAAC
* *
24104750 TTAAATAAG
1 TTACATAAC
24104759 TTACATAA
1 TTACATAA
24104767 TAATACATAC
Statistics
Matches: 108, Mismatches: 24, Indels: 24
0.69 0.15 0.15
Matches are distributed among these distances:
7 24 0.22
8 6 0.06
9 71 0.66
10 7 0.06
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:24104745 original size:18 final size:17
Alignment explanation
Indices: 24104724--24104785 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
24104714 ATACAGAACT
24104724 TACATAACTTACATACCC
1 TACATAA-TTACATACCC
* ***
24104742 TACATAAATTAAATAAGT
1 TACAT-AATTACATACCC
24104760 TACATAATAATACATACCC
1 TACATAAT--TACATACCC
24104779 TACATAA
1 TACATAA
24104786 ATTAAATAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
17 3 0.09
18 16 0.48
19 14 0.42
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (17 bp):
TACATAATTACATACCC
Found at i:24104777 original size:37 final size:37
Alignment explanation
Indices: 24104733--24104806 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
24104723 TTACATAACT
24104733 TACATACCCTACATAAATTAAATAAGTTACATAATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
*
24104770 TACATACCCTACATAAATTAAATAAGTTACATTATAA
1 TACATACCCTACATAAATTAAATAAGTTACATAATAA
24104807 GGTTTCTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (37 bp):
TACATACCCTACATAAATTAAATAAGTTACATAATAA
Found at i:24104839 original size:15 final size:15
Alignment explanation
Indices: 24104815--24104847 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24104805 AAGGTTTCTA
*
24104815 TATTAGTATTAAATT
1 TATTACTATTAAATT
24104830 TATTACTATTAAATT
1 TATTACTATTAAATT
24104845 TAT
1 TAT
24104848 AAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:24105179 original size:27 final size:25
Alignment explanation
Indices: 24105119--24105188 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
24105109 CAAAAAAAAA
* * *
24105119 ACTTACATAACTTAGATAATATCCT
1 ACTTACATAAATTAAATAATATCAT
* *
24105144 ACATA-ATAAATTACATAATAATACAT
1 ACTTACATAAATTAAATAAT-AT-CAT
24105170 ACTTACATAAATTAAATAA
1 ACTTACATAAATTAAATAA
24105189 GTTACATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 12 0.33
25 6 0.17
26 6 0.17
27 12 0.33
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (25 bp):
ACTTACATAAATTAAATAATATCAT
Found at i:24105213 original size:16 final size:16
Alignment explanation
Indices: 24105161--24105531 Score: 131
Period size: 16 Copynumber: 22.2 Consensus size: 16
24105151 AAATTACATA
*
24105161 ATAA-TACATACTTAC
1 ATAACTACATAATTAC
* *
24105176 ATAAATTAAATAAGTTAC
1 AT-AACTACATAA-TTAC
* *
24105194 ATAA-TACACAACTGAC
1 ATAACTACATAA-TTAC
24105210 ATAACTTACATAA-TAC
1 ATAAC-TACATAATTAC
*
24105226 ATAATTTACATAA-TAC
1 ATAA-CTACATAATTAC
*
24105242 ACAACTGACATAACTTAC
1 ATAACT-ACATAA-TTAC
24105260 ATAA-TACATAATTTAC
1 ATAACTACATAA-TTAC
* *
24105276 ATAA-TACACAACTGAC
1 ATAACTACATAA-TTAC
24105292 ATAACTTACATAA-TAC
1 ATAAC-TACATAATTAC
** *
24105308 ATATTTTACATCACTTAC
1 ATA-ACTACAT-AATTAC
*
24105326 ATAA-GACATAACTTAC
1 ATAACTACATAA-TTAC
* *
24105342 ATAAGTTTCATAA-TAC
1 ATAA-CTACATAATTAC
*
24105358 ACAACTGACATAACTTAC
1 ATAACT-ACATAA-TTAC
*
24105376 ATAA-TACATATTTTAC
1 ATAACTACATA-ATTAC
* *
24105392 ATCACTTACATAA-GAC
1 ATAAC-TACATAATTAC
*
24105408 ATAACTTACATAAGTTTC
1 ATAAC-TACATAA-TTAC
* *
24105426 ATAA-TACACAACTGAC
1 ATAACTACATAA-TTAC
24105442 ATAACTTACATAA-TAC
1 ATAAC-TACATAATTAC
* *
24105458 ACAACTTACATAAGTTTC
1 ATAAC-TACATAA-TTAC
* *
24105476 ATAA-GACACAACTTAC
1 ATAACTACATAA-TTAC
*
24105492 ATAGCTTACATAACTTAC
1 ATAAC-TACATAA-TTAC
*
24105510 ACAACTTACATAACTTAC
1 ATAAC-TACATAA-TTAC
24105528 ATAA
1 ATAA
24105532 TAAATAAGTT
Statistics
Matches: 269, Mismatches: 56, Indels: 59
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.02
16 162 0.60
17 10 0.04
18 92 0.34
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (16 bp):
ATAACTACATAATTAC
Found at i:24105236 original size:25 final size:25
Alignment explanation
Indices: 24105152--24105532 Score: 218
Period size: 25 Copynumber: 15.1 Consensus size: 25
24105142 CTACATAATA
24105152 AATTACATAATAATACAT-ACTTACAT
1 AATTACATAAT--TACATAACTTACAT
* *
24105178 AAATTAAATAAGTTACATAA--TACAC
1 -AATTACATAA-TTACATAACTTACAT
*
24105203 AACTGACATAACTTACATAA--TACAT
1 AA-TTACATAA-TTACATAACTTACAT
* *
24105228 AATTTACATAA-TACACAACTGACAT
1 AA-TTACATAATTACATAACTTACAT
*
24105253 AACTTACATAA-TACATAATTTACAT
1 AA-TTACATAATTACATAACTTACAT
* *
24105278 AA-TACACAACTGACATAACTTACAT
1 AATTACATAA-TTACATAACTTACAT
* *
24105303 AA-TACATATTTTACATCACTTACAT
1 AATTACATA-ATTACATAACTTACAT
* * *
24105328 AA-GACATAACTTACATAAGTTTCAT
1 AATTACATAA-TTACATAACTTACAT
* *
24105353 AA-TACACAACTGACATAACTTACAT
1 AATTACATAA-TTACATAACTTACAT
* *
24105378 AA-TACATATTTTACATCACTTACAT
1 AATTACATA-ATTACATAACTTACAT
* * *
24105403 AA-GACATAACTTACATAAGTTTCAT
1 AATTACATAA-TTACATAACTTACAT
* *
24105428 AA-TACACAACTGACATAACTTACAT
1 AATTACATAA-TTACATAACTTACAT
* * *
24105453 AA-TACACAACTTACATAAGTTTCAT
1 AATTACATAA-TTACATAACTTACAT
* * *
24105478 AA-GACACAACTTACATAGCTTACAT
1 AATTACATAA-TTACATAACTTACAT
*
24105503 AACTTACACAACTTACATAACTTACAT
1 AA-TTACATAA-TTACATAACTTACAT
24105530 AAT
1 AAT
24105533 AAATAAGTTA
Statistics
Matches: 287, Mismatches: 54, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
23 12 0.04
24 2 0.01
25 233 0.81
26 6 0.02
27 33 0.11
28 1 0.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.30
Consensus pattern (25 bp):
AATTACATAATTACATAACTTACAT
Found at i:24105240 original size:41 final size:41
Alignment explanation
Indices: 24105166--24105470 Score: 315
Period size: 41 Copynumber: 7.8 Consensus size: 41
24105156 ACATAATAAT
* *
24105166 ACAT-ACTTACATAAATTAAATAAGTTACATAATACACAACTG
1 ACATAACTTACAT-AA-TACATAATTTACATAATACACAACTG
24105208 ACATAACTTACATAATACATAATTTACATAATACACAACTG
1 ACATAACTTACATAATACATAATTTACATAATACACAACTG
24105249 ACATAACTTACATAATACATAATTTACATAATACACAACTG
1 ACATAACTTACATAATACATAATTTACATAATACACAACTG
* * *
24105290 ACATAACTTACATAATACATATTTTACATCACTTACATAA--G
1 ACATAACTTACATAATACATAATTTACAT-A-ATACACAACTG
*
24105331 ACATAACTTAC---AT--A-AGTTT-CATAATACACAACTG
1 ACATAACTTACATAATACATAATTTACATAATACACAACTG
* * *
24105365 ACATAACTTACATAATACATATTTTACATCACTTACATAA--G
1 ACATAACTTACATAATACATAATTTACAT-A-ATACACAACTG
*
24105406 ACATAACTTAC---AT--A-AGTTT-CATAATACACAACTG
1 ACATAACTTACATAATACATAATTTACATAATACACAACTG
* *
24105440 ACATAACTTACATAATACACAACTTACATAA
1 ACATAACTTACATAATACATAATTTACATAA
24105471 GTTTCATAAG
Statistics
Matches: 224, Mismatches: 16, Indels: 47
0.78 0.06 0.16
Matches are distributed among these distances:
32 12 0.05
33 2 0.01
34 30 0.13
35 8 0.04
36 2 0.01
37 4 0.02
38 4 0.02
39 2 0.01
40 7 0.03
41 125 0.56
42 8 0.04
43 20 0.09
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (41 bp):
ACATAACTTACATAATACATAATTTACATAATACACAACTG
Found at i:24105305 original size:75 final size:73
Alignment explanation
Indices: 24105258--24105533 Score: 369
Period size: 75 Copynumber: 3.7 Consensus size: 73
24105248 GACATAACTT
24105258 ACATAA-TACATAA-TTTACATAATACACAACTGACATAACTTACATAATACATATTTTACATCA
1 ACATAACTACATAAGTTT-CATAATACACAACTGACATAACTTACATAATACATA-TTTACATCA
24105321 CTTACATAAG
64 CTTACATAAG
24105331 ACATAACTTACATAAGTTTCATAATACACAACTGACATAACTTACATAATACATATTTTACATCA
1 ACATAAC-TACATAAGTTTCATAATACACAACTGACATAACTTACATAATACATA-TTTACATCA
24105396 CTTACATAAG
64 CTTACATAAG
* * *
24105406 ACATAACTTACATAAGTTTCATAATACACAACTGACATAACTTACATAATACACAACTTACATAA
1 ACATAAC-TACATAAGTTTCATAATACACAACTGACATAACTTACATAATACA-TATTTACATCA
* *
24105471 GTTTCATAAG
64 CTTACATAAG
* * *
24105481 ACACAACTTACAT-AGCTTACATAACTTACACAACTTACATAACTTACATAATA
1 ACATAAC-TACATAAG-TTTCATAA--TACACAACTGACATAACTTACATAATA
24105534 AATAAGTTAT
Statistics
Matches: 188, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
73 6 0.03
74 2 0.01
75 150 0.80
76 4 0.02
77 26 0.14
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (73 bp):
ACATAACTACATAAGTTTCATAATACACAACTGACATAACTTACATAATACATATTTACATCACT
TACATAAG
Found at i:24107885 original size:42 final size:42
Alignment explanation
Indices: 24107676--24107903 Score: 260
Period size: 42 Copynumber: 5.4 Consensus size: 42
24107666 TTACTTTTAA
* * * * *
24107676 TAAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGCTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTTTTTTC
* * *
24107719 AAAGCGTCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
24107761 AAAGCGCCGCTAAAGAACATGATCTTTAGGGGCGTTTCTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* *
24107803 TAAGCGCCGCTAAAGAGCATGATCTTTAGTGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
* * *
24107845 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACATTTTTTTATG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGC-GTTTTTT-TC
*
24107889 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
24107904 TTAGTGACGT
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
42 113 0.70
43 33 0.20
44 16 0.10
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
Found at i:24110969 original size:24 final size:24
Alignment explanation
Indices: 24110937--24111040 Score: 190
Period size: 24 Copynumber: 4.3 Consensus size: 24
24110927 CAGAGAACAG
24110937 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
24110961 GAAGGTGGCAAGAGTACGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
*
24110985 GAAGGTGGCAAGAGTAAGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
*
24111009 GAAGGTGGCAAGAGTAGGACACAA
1 GAAGGTGGCAAGAGTACGACACAA
24111033 GAAGGTGG
1 GAAGGTGG
24111041 AAACAAGACT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.41, C:0.13, G:0.37, T:0.09
Consensus pattern (24 bp):
GAAGGTGGCAAGAGTACGACACAA
Found at i:24112581 original size:34 final size:34
Alignment explanation
Indices: 24112543--24112617 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
24112533 TTTTCTTCAA
24112543 TCTTCTTTCTTTGTTTTTCACCCAAGAATTTTTT
1 TCTTCTTTCTTTGTTTTTCACCCAAGAATTTTTT
24112577 TCTTCTTTCTTTGTTTTTCACCCAAGAATTTTTT
1 TCTTCTTTCTTTGTTTTTCACCCAAGAATTTTTT
24112611 TCTTCTT
1 TCTTCTT
24112618 ATCTCGTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.60
Consensus pattern (34 bp):
TCTTCTTTCTTTGTTTTTCACCCAAGAATTTTTT
Found at i:24114794 original size:11 final size:13
Alignment explanation
Indices: 24114774--24114805 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24114764 AATAAATTAA
24114774 TAAAATATCAT-T
1 TAAAATATCATAT
24114786 TAAAA-ATCATAT
1 TAAAATATCATAT
24114798 TAAAATAT
1 TAAAATAT
24114806 TAATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:24119574 original size:102 final size:101
Alignment explanation
Indices: 24119450--24119634 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
24119440 ACCCGGTTCA
* * *
24119450 CATAGTAGACTGCACATAGTACTACAGATGTGACCATTTTCA-TCCAATACACGTAGTAGCCCGC
1 CATAGTAGACTGCACATAGTACTACACATGTGACC--TATCATTCCAATACACGTAGTAACCCGC
*
24119514 ACATATTACTACACACGTGATCGAAGCTATCTGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* * ** *
24119552 CATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTTCGGTACACGTAGTAACCTGCAC
1 CATAGTAGACTGCACATAGTACTACACATGTGACCTATCATTCCAATACACGTAGTAACCCGCAC
24119617 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
24119635 CCTAGCAACT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 36 0.49
102 33 0.45
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGACTGCACATAGTACTACACATGTGACCTATCATTCCAATACACGTAGTAACCCGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:24119615 original size:50 final size:50
Alignment explanation
Indices: 24119443--24119638 Score: 171
Period size: 51 Copynumber: 3.9 Consensus size: 50
24119433 AAATGATACC
* * * * * * *
24119443 CGGTTCACATAGTAGACTGCACATAGTACTACAGATGTGACCATTTTCA-TC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC--TATCATTT
** * * ** * *
24119494 CAATACACGTAGTAGCCCGCACATATTACTACACACGTGATCGAAGC-TAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCTATCATTT
* * *
24119544 CTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTT
1 C-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTT
*
24119595 CGGTACACGTAGTAACCTGCACATAGTACTACACACGTGACCTA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTA
24119639 GCAACTTCAC
Statistics
Matches: 111, Mismatches: 30, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
50 44 0.40
51 66 0.59
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTATCATTT
Found at i:24138258 original size:17 final size:17
Alignment explanation
Indices: 24138217--24138252 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24138207 CAAAATCAAA
*
24138217 TTAAAATTTATTTTTAT
1 TTAATATTTATTTTTAT
*
24138234 TTAATATTTTTTTTTAT
1 TTAATATTTATTTTTAT
24138251 TT
1 TT
24138253 TTTATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTAATATTTATTTTTAT
Found at i:24138908 original size:20 final size:20
Alignment explanation
Indices: 24138868--24138907 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24138858 TTATGTATTA
24138868 TGTTCTTTTGAAATTCATTT
1 TGTTCTTTTGAAATTCATTT
24138888 TGTTACTTTT-AAATTC-TTT
1 TGTT-CTTTTGAAATTCATTT
24138907 T
1 T
24138908 TCAATGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 10 0.53
21 5 0.26
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (20 bp):
TGTTCTTTTGAAATTCATTT
Found at i:24139485 original size:30 final size:31
Alignment explanation
Indices: 24139440--24139501 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
24139430 TCAAATTTAT
*
24139440 GAATAGTCCCAGTACTTCACT-CAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
* **
24139470 GAATAATCCCTGTACTTTGCTCCAAGTTGTG
1 GAATAATCCCAGTACTTCACTCCAAGTTGTG
24139501 G
1 G
24139502 CACTACCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (31 bp):
GAATAATCCCAGTACTTCACTCCAAGTTGTG
Found at i:24143129 original size:6 final size:6
Alignment explanation
Indices: 24143118--24143168 Score: 66
Period size: 6 Copynumber: 8.0 Consensus size: 6
24143108 AAATATATAT
*
24143118 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTAAA TTTTTAA TTTTTA ATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTT-A TTTTTA TTTTTA
24143169 AAATACTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 29 0.69
7 7 0.17
8 6 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:24143154 original size:8 final size:7
Alignment explanation
Indices: 24143116--24143167 Score: 65
Period size: 7 Copynumber: 7.7 Consensus size: 7
24143106 ATAAATATAT
*
24143116 ATTTTTT
1 ATTTTTA
24143123 ATTTTT-
1 ATTTTTA
24143129 ATTTTT-
1 ATTTTTA
24143135 ATTTTT-
1 ATTTTTA
24143141 ATTTTTAA
1 ATTTTT-A
24143149 ATTTTTA
1 ATTTTTA
24143156 ATTTTTA
1 ATTTTTA
24143163 ATTTT
1 ATTTT
24143168 AAAATACTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.42
7 19 0.44
8 6 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
ATTTTTA
Found at i:24145582 original size:21 final size:21
Alignment explanation
Indices: 24145558--24145597 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24145548 TAATGATGAC
24145558 ATTAATAATA-ATAATAATACT
1 ATTAATAATATA-AATAATACT
24145579 ATTAATAATATAAATAATA
1 ATTAATAATATAAATAATA
24145598 TTGCTACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAATAATATAAATAATACT
Found at i:24145587 original size:24 final size:24
Alignment explanation
Indices: 24145560--24145619 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
24145550 ATGATGACAT
*
24145560 TAATAATAATAATAATACTATTAA
1 TAATAATAATAATAATACTACTAA
* *
24145584 TAAT-ATAAATAATATTGCTACTAA
1 TAATAAT-AATAATAATACTACTAA
*
24145608 TAATAAAAATAA
1 TAATAATAATAA
24145620 CGATAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 27 0.90
25 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
TAATAATAATAATAATACTACTAA
Found at i:24145594 original size:18 final size:18
Alignment explanation
Indices: 24145563--24145613 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
24145553 ATGACATTAA
*
24145563 TAATAATAATAATACTAT
1 TAATAATAATAATAATAT
24145581 TAATAAT-ATAAATAATAT
1 TAATAATAAT-AATAATAT
** *
24145599 TGCTACTAATAATAA
1 TAATAATAATAATAA
24145614 AAATAACGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (18 bp):
TAATAATAATAATAATAT
Found at i:24150907 original size:22 final size:22
Alignment explanation
Indices: 24150879--24150949 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
24150869 TAATTTCTCC
*
24150879 TTTCTTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTTCTCTCTTTCTT
24150901 TTTCTTTCTTTC-C-CTTTCTGT
1 TTTCTTTCTTTCTCTCTTTCT-T
* * *
24150922 TTTCGTTTCTATCTCTGTTTATT
1 TTTC-TTTCTTTCTCTCTTTCTT
24150945 TTTCT
1 TTTCT
24150950 ATTTCTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
22 20 0.49
23 6 0.15
24 4 0.10
ACGTcount: A:0.03, C:0.23, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTCTTTCTT
Found at i:24150948 original size:18 final size:17
Alignment explanation
Indices: 24150927--24150960 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24150917 TCTGTTTTCG
24150927 TTTCTATCTCTGTTTATT
1 TTTCTATCTCT-TTTATT
*
24150945 TTTCTATTTCTTTTAT
1 TTTCTATCTCTTTTAT
24150961 CTATTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTCTATCTCTTTTATT
Found at i:24153406 original size:25 final size:25
Alignment explanation
Indices: 24153332--24153406 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
24153322 TACATGTATC
* *
24153332 CTCATACGAGCT-ATGAATTGGTATG
1 CTCATACGAGCTGA-GAATCGGTAAG
* **
24153357 CTC-TCACGAGCTGTGAATCAATAAG
1 CTCAT-ACGAGCTGAGAATCGGTAAG
24153382 CTCATACGAGCTGAGAATCGGTAAG
1 CTCATACGAGCTGAGAATCGGTAAG
24153407 TTATCATGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
CTCATACGAGCTGAGAATCGGTAAG
Found at i:24153635 original size:22 final size:23
Alignment explanation
Indices: 24153593--24153636 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
24153583 TATACAAAAC
* *
24153593 ACATATATATAATTCAATTTAAA
1 ACATATAAATAATACAATTTAAA
24153616 ACATATAAAT-ATACAATTTAA
1 ACATATAAATAATACAATTTAA
24153637 TTACACGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (23 bp):
ACATATAAATAATACAATTTAAA
Found at i:24178604 original size:148 final size:148
Alignment explanation
Indices: 24178336--24178633 Score: 596
Period size: 148 Copynumber: 2.0 Consensus size: 148
24178326 GATACTTAGG
24178336 GTCGATGAAATCATTACATGTGCTCCAAGGAAGAGAGAGGACAGAATGTAAAATTGACTTCTCAA
1 GTCGATGAAATCATTACATGTGCTCCAAGGAAGAGAGAGGACAGAATGTAAAATTGACTTCTCAA
24178401 TTTCAATGTCAATGTCAATCTAAGAGGCGCATTTTTTCTCTGTTGTAATGGATAGCCATCTATCT
66 TTTCAATGTCAATGTCAATCTAAGAGGCGCATTTTTTCTCTGTTGTAATGGATAGCCATCTATCT
24178466 TGGCATTTGTTTCTTTAA
131 TGGCATTTGTTTCTTTAA
24178484 GTCGATGAAATCATTACATGTGCTCCAAGGAAGAGAGAGGACAGAATGTAAAATTGACTTCTCAA
1 GTCGATGAAATCATTACATGTGCTCCAAGGAAGAGAGAGGACAGAATGTAAAATTGACTTCTCAA
24178549 TTTCAATGTCAATGTCAATCTAAGAGGCGCATTTTTTCTCTGTTGTAATGGATAGCCATCTATCT
66 TTTCAATGTCAATGTCAATCTAAGAGGCGCATTTTTTCTCTGTTGTAATGGATAGCCATCTATCT
24178614 TGGCATTTGTTTCTTTAA
131 TGGCATTTGTTTCTTTAA
24178632 GT
1 GT
24178634 TTTTTGCTGC
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 150 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (148 bp):
GTCGATGAAATCATTACATGTGCTCCAAGGAAGAGAGAGGACAGAATGTAAAATTGACTTCTCAA
TTTCAATGTCAATGTCAATCTAAGAGGCGCATTTTTTCTCTGTTGTAATGGATAGCCATCTATCT
TGGCATTTGTTTCTTTAA
Found at i:24184731 original size:26 final size:27
Alignment explanation
Indices: 24184680--24184733 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
24184670 ACAGAATAGC
* *
24184680 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
24184707 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
24184733 A
1 A
24184734 GAATTTGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.65, C:0.04, G:0.31, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:24185617 original size:25 final size:24
Alignment explanation
Indices: 24185589--24185723 Score: 143
Period size: 25 Copynumber: 5.6 Consensus size: 24
24185579 ATTTTAGCGC
24185589 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTG-TTATTAGCACATCAGT
* *
24185614 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTG-TTATTAGCACATCAGT
* **
24185639 GCTCTCTGATTACTAGCACGCCAGT
1 GCTCTCTG-TTATTAGCACATCAGT
*
24185664 GCTCTCTG-T-TTAGCACATCTGT
1 GCTCTCTGTTATTAGCACATCAGT
*
24185686 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACATCAGT
24185708 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
24185724 TGCATAACAA
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
22 36 0.38
23 2 0.02
24 1 0.01
25 56 0.59
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACATCAGT
Found at i:24185687 original size:22 final size:22
Alignment explanation
Indices: 24185601--24185717 Score: 117
Period size: 22 Copynumber: 5.0 Consensus size: 22
24185591 TCTCTGATTA
24185601 TTAGCACATCAGTGCTCTCTGATT
1 TTAGCACATCAGTGCTCTCTG--T
* *
24185625 ATTAGCACGTTAGTGCTCTCTGAT
1 -TTAGCACATCAGTGCTCTCTG-T
**
24185649 TACTAGCACGCCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
24185673 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
24185695 ATAGCACTTCAGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
24185717 T
1 T
24185718 CATTAGTGCA
Statistics
Matches: 78, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
22 37 0.47
23 1 0.01
24 3 0.04
25 37 0.47
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:24190011 original size:65 final size:64
Alignment explanation
Indices: 24189930--24190050 Score: 208
Period size: 66 Copynumber: 1.9 Consensus size: 64
24189920 TTCTTCCTAC
24189930 TTTTTCCTTGATTTTATTT-TTTTTCAACTATAAATTTGATTTAACAATAATGAAATATTTTTAC
1 TTTTTCCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAAC-AT-ATGAAATATTTTTAC
24189994 T
64 T
*
24189995 TTTTTTCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAACATATGAAATA
1 TTTTTCCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAACATATGAAATA
24190051 ATGAAATATT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
64 8 0.15
65 20 0.37
66 26 0.48
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (64 bp):
TTTTTCCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAACATATGAAATATTTTTACT
Found at i:24190063 original size:65 final size:65
Alignment explanation
Indices: 24189930--24190065 Score: 188
Period size: 65 Copynumber: 2.1 Consensus size: 65
24189920 TTCTTCCTAC
* ***
24189930 TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATTTTTACT
1 TTTTTTCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATAAATACT
24189995 TTTTTTCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAAC-AT-ATGAAATAATGAAAT
1 TTTTTTCTTGATTTTATTT-TTTTTCAACTATAAATTTGATTTAACAATAATGAAAT-AT-AAAT
24190058 A-T
63 ACT
24190060 TTTTTT
1 TTTTTT
24190066 AAAAAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
64 7 0.11
65 29 0.45
66 28 0.44
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (65 bp):
TTTTTTCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATAAATACT
Found at i:24190064 original size:66 final size:65
Alignment explanation
Indices: 24189930--24190065 Score: 186
Period size: 66 Copynumber: 2.1 Consensus size: 65
24189920 TTCTTCCTAC
***
24189930 TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATTTTTACT
1 TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATAAATACT
*
24189995 TTTTTTCTTGATTTTATTTCTTTTTCAACTATAAATTTGATTTAAC-AT-ATGAAATAATGAAAT
1 TTTTTCCTTGATTTTATTT-TTTTTCAACTATAAATTTGATTTAACAATAATGAAAT-AT-AAAT
*
24190058 ATT
63 ACT
24190061 TTTTT
1 TTTTT
24190066 AAAAAAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 7 0.11
65 22 0.35
66 34 0.54
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (65 bp):
TTTTTCCTTGATTTTATTTTTTTTCAACTATAAATTTGATTTAACAATAATGAAATATAAATACT
Found at i:24195992 original size:33 final size:32
Alignment explanation
Indices: 24195955--24196101 Score: 98
Period size: 33 Copynumber: 4.4 Consensus size: 32
24195945 ATAAATCAGT
* *
24195955 TATGGTCTTATCATCAGAATGTCATAGCCTAGC
1 TATGGTCTTA-CATCAGAATGTCATAGCCCAAC
* * * * * *
24195988 TATGGTTTTACATATAAACACTGCCATGGTCCAAAC
1 TATGGTCTTACAT-CAGA-A-TGTCATAG-CCCAAC
* * * * **
24196024 -ATGGTCTTACGTTCATAGTGTCATAACCCAGT
1 TATGGTCTTAC-ATCAGAATGTCATAGCCCAAC
24196056 TATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 TATGGTCTTA-CATCAGAATGTCATAGCCCAAC
24196089 TATGGTCTTACAT
1 TATGGTCTTACAT
24196102 ATATATATAC
Statistics
Matches: 83, Mismatches: 24, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
32 9 0.11
33 50 0.60
34 2 0.02
35 17 0.20
36 5 0.06
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (32 bp):
TATGGTCTTACATCAGAATGTCATAGCCCAAC
Found at i:24196190 original size:33 final size:32
Alignment explanation
Indices: 24196145--24196305 Score: 117
Period size: 33 Copynumber: 4.8 Consensus size: 32
24196135 ACATTCAAGG
* *
24196145 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAGAA
* *
24196178 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAGA-A
* * * * * * * *
24196212 CTGTCATGGTCCAACCATGGTCTTACGCTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAGAA
* *
24196246 TGCCATAACCCAGTTAAT-GTCTTATCATCAGAA
1 TGCCATAGCCCAGCT-ATGGTCTTA-CATCAGAA
*
24196279 TGCCATAGCCCAACTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
24196306 ATATATACTG
Statistics
Matches: 95, Mismatches: 26, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
32 8 0.08
33 60 0.63
34 4 0.04
35 22 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAGAA
Found at i:24196277 original size:101 final size:101
Alignment explanation
Indices: 24195951--24196539 Score: 743
Period size: 101 Copynumber: 5.8 Consensus size: 101
24195941 TGTCATAAAT
* * * *
24195951 CAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTTTTACATATAAACACTGCCATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCATG
* *
24196016 GTCCAAACATGGTCTTACGTTCATA-GTGTCATAACC
66 GTCCAACCATGGTCTTACGTTCA-AGGTGCCATAACC
* *
24196052 CAGTTATGGTCTTATCATCAGAATGTCATAGCCCAACTATGGTCTTACATATATATATACTGCCA
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATA-A-ACACTGCCA
* * * ** *
24196117 CGATCTAACCATGACCTTACATTCAAGGTGCCATAACC
64 TGGTCCAACCATGGTCTTACGTTCAAGGTGCCATAACC
* *
24196155 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCATG
*
24196220 GTCCAACCATGGTCTTACGCTCATA-GTGCCATAACC
66 GTCCAACCATGGTCTTACGTTCA-AGGTGCCATAACC
* * *
24196256 CAGTTAAT-GTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATATATACTGCCAC
1 CAGTT-ATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCAT
* * ** *
24196320 GATCTAACCATGACCTTACATTCAAGGTGCCATAACC
65 GGTCCAACCATGGTCTTACGTTCAAGGTGCCATAACC
* ** * * * **
24196357 CAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGGTATGGTCTTACATATATATATTGTTATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCATG
*
24196422 GTCCAACCATGGTCTTACGTTCAAGGTGCCATAATC
66 GTCCAACCATGGTCTTACGTTCAAGGTGCCATAACC
* * * * * *
24196458 CAGTTATGATCTTTTCATTAAAATGCCATAGCCCAACTATGGTCTTACATTTAAACATTGCCATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCATG
*
24196523 GCCCAACCATGGTCTTA
66 GTCCAACCATGGTCTTA
24196540 TCCATCAAAT
Statistics
Matches: 423, Mismatches: 58, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
100 3 0.01
101 327 0.77
102 6 0.01
103 87 0.21
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (101 bp):
CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAACACTGCCATG
GTCCAACCATGGTCTTACGTTCAAGGTGCCATAACC
Found at i:24196425 original size:202 final size:201
Alignment explanation
Indices: 24195951--24196507 Score: 891
Period size: 202 Copynumber: 2.7 Consensus size: 201
24195941 TGTCATAAAT
* * * *
24195951 CAGTTATGGTCTTATCATCAGAATGTCATAGCCTAGCTATGGTTTTACATATAAACACTGCCATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
* * *
24196016 GTCCAAACATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGTCAT
66 GTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTAT-GTCTTATCATCAGAATGCCAT
24196081 AGCCCAACTATGGTCTTACATATATATATACTGCCACGATCTAACCATGACCTTACATTCAAGGT
130 AGCCCAACTATGGTCTTAC--ATATATATACTGCCACGATCTAACCATGACCTTACATTCAAGGT
24196146 GCCATAACC
193 GCCATAACC
24196155 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
*
24196220 GTCCAACCATGGTCTTACGCTCATAGTGCCATAACCCAGTTAATGTCTTATCATCAGAATGCCAT
66 GTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTT-ATGTCTTATCATCAGAATGCCAT
24196285 AGCCCAACTATGGTCTTACATATATATACTGCCACGATCTAACCATGACCTTACATTCAAGGTGC
130 AGCCCAACTATGGTCTTACATATATATACTGCCACGATCTAACCATGACCTTACATTCAAGGTGC
24196350 CATAACC
195 CATAACC
* * * * * *
24196357 CAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGGTATGGTCTTACATATATATATTGTTATG
1 CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
* * * *
24196422 GTCCAACCATGGTCTTACGTTCA-AGGTGCCATAATCCAGTTATGATCTTTTCATTAAAATGCCA
66 GTCCAACCATGGTCTTACGTTCATA-GTGCCATAACCCAGTTATG-TCTTATCATCAGAATGCCA
24196486 TAGCCCAACTATGGTCTTACAT
129 TAGCCCAACTATGGTCTTACAT
24196508 TTAAACATTG
Statistics
Matches: 331, Mismatches: 19, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
201 4 0.01
202 187 0.56
204 138 0.42
205 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (201 bp):
CAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATATAAACACTGTCATG
GTCCAACCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGTCTTATCATCAGAATGCCATA
GCCCAACTATGGTCTTACATATATATACTGCCACGATCTAACCATGACCTTACATTCAAGGTGCC
ATAACC
Found at i:24196512 original size:33 final size:33
Alignment explanation
Indices: 24196145--24196539 Score: 109
Period size: 33 Copynumber: 11.7 Consensus size: 33
24196135 ACATTCAAGG
* ** * *
24196145 TGCCATAACCCAGTTATGGTCTTATCA-TCAGAA
1 TGCCATAGCCCAACTATGGTCTTA-CATTTAAAA
* *
24196178 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAACTATGGTCTTACATTTAAA-A
* * * * ** * * *
24196212 CTGTCATGGTCCAACCATGGTCTTACGCTCATAG
1 -TGCCATAGCCCAACTATGGTCTTACATTTAAAA
* ** * *
24196246 TGCCATAACCCAGTTAAT-GTCTTATCA-TCAGAA
1 TGCCATAGCCCAACT-ATGGTCTTA-CATTTAAAA
* *
24196279 TGCCATAGCCCAACTATGGTCTTACATATATATAC
1 TGCCATAGCCCAACTATGGTCTTACAT-T-TAAAA
* * * * ** * **
24196314 TGCCA-CGATCTAACCATGACCTTACATTCAAGG
1 TGCCATAG-CCCAACTATGGTCTTACATTTAAAA
* ** *
24196347 TGCCATAACCCAGTTATGGTCTTATCA-TTAGAA
1 TGCCATAGCCCAACTATGGTCTTA-CATTTAAAA
** * *
24196380 TGCCATAGCCCAGGTATGGTCTTACATATATATAT
1 TGCCATAGCCCAACTATGGTCTTACAT-T-TAAAA
** * * * * * **
24196415 TGTTATGGTCCAACCATGGTCTTACGTTCAAGG
1 TGCCATAGCCCAACTATGGTCTTACATTTAAAA
** ** * *
24196448 TGCCATAATCCAGTTATGATCTTTTCA-TTAAAA
1 TGCCATAGCCCAACTATGGTC-TTACATTTAAAA
24196481 TGCCATAGCCCAACTATGGTCTTACATTTAAACA
1 TGCCATAGCCCAACTATGGTCTTACATTTAAA-A
* *
24196515 TTGCCATGGCCCAACCATGGTCTTA
1 -TGCCATAGCCCAACTATGGTCTTA
24196540 TCCATCAAAT
Statistics
Matches: 251, Mismatches: 92, Indels: 36
0.66 0.24 0.09
Matches are distributed among these distances:
32 12 0.05
33 137 0.55
34 15 0.06
35 87 0.35
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAACTATGGTCTTACATTTAAAA
Found at i:24199213 original size:42 final size:42
Alignment explanation
Indices: 24199167--24199251 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
24199157 GCACAATTAT
* * * *
24199167 TTAAGCTTGCATGTGGAGCTTTACTGATACACAACTTGTCAC
1 TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
** * *
24199209 TTAAGCTCGTGTGGGGAGCTTCGCTGATACACAGCTTGCCAC
1 TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
24199251 T
1 T
24199252 GAAAATAGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (42 bp):
TTAAGCTCGCATGGGGAGCTTCACTGATACACAACTTGCCAC
Found at i:24212335 original size:18 final size:17
Alignment explanation
Indices: 24212295--24212335 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
24212285 AAATGTCTTC
24212295 CCAACACGGTTCATTCT
1 CCAACACGGTTCATTCT
**
24212312 TAAACACGGTTCCATTCT
1 CCAACACGGTT-CATTCT
24212330 CCAACA
1 CCAACA
24212336 TAATTGGTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.29, C:0.34, G:0.10, T:0.27
Consensus pattern (17 bp):
CCAACACGGTTCATTCT
Found at i:24220749 original size:24 final size:24
Alignment explanation
Indices: 24220722--24220772 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24220712 TACTTGGGTA
*
24220722 ATTTGCCGTCAATTTATCATTTAC
1 ATTTGCCGTCAATTAATCATTTAC
** *
24220746 ATTTTTCGTCAATTAATCCTTTAC
1 ATTTGCCGTCAATTAATCATTTAC
24220770 ATT
1 ATT
24220773 CGTAGTGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTGCCGTCAATTAATCATTTAC
Found at i:24220930 original size:33 final size:33
Alignment explanation
Indices: 24220781--24220935 Score: 100
Period size: 33 Copynumber: 4.6 Consensus size: 33
24220771 TTCGTAGTGC
* * * *
24220781 CATAACCCAGTTATGGTATTATCATCAGAATGT
1 CATAGCCCAGCTATGGTCTTATCATCAAAATGT
* *
24220814 CATAGCCCAACTATGGTCTTAT-ATATAAACACTGT
1 CATAGCCCAGCTATGGTCTTATCAT-CAAA-A-TGT
* * * * * * *
24220849 CATGGTCCA-ATCATGGTCTTA-CGTTCATAGTGC
1 CATAGCCCAGCT-ATGGTCTTATC-ATCAAAATGT
* *
24220882 CATAACCCAGTTATGGTCTTATCATCAAAATGT
1 CATAGCCCAGCTATGGTCTTATCATCAAAATGT
*
24220915 CATAGCCTAGCTATGGTCTTA
1 CATAGCCCAGCTATGGTCTTA
24220936 CATATAAACA
Statistics
Matches: 89, Mismatches: 25, Indels: 16
0.68 0.19 0.12
Matches are distributed among these distances:
32 2 0.02
33 61 0.69
34 4 0.04
35 21 0.24
36 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (33 bp):
CATAGCCCAGCTATGGTCTTATCATCAAAATGT
Found at i:24220953 original size:101 final size:101
Alignment explanation
Indices: 24220766--24221004 Score: 397
Period size: 101 Copynumber: 2.4 Consensus size: 101
24220756 AATTAATCCT
* * *
24220766 TTACATTCGTAGTGCCATAACCCAGTTATGGTATTATCATCAGAATGTCATAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAAAATGTCATAGCCCAACTATGGT
* * *
24220831 CTTATATATAAACACTGTCATGGTCCAATCATGGTC
66 CTTACATATAAACACTATCATGGTCCAACCATGGTC
* * *
24220867 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGTCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAAAATGTCATAGCCCAACTATGGT
24220932 CTTACATATAAACACTATCATGGTCCAACCATGGTC
66 CTTACATATAAACACTATCATGGTCCAACCATGGTC
24220968 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTATTAT
24221005 TCGCCAATTC
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 128 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTATTATCATCAAAATGTCATAGCCCAACTATGGT
CTTACATATAAACACTATCATGGTCCAACCATGGTC
Found at i:24223021 original size:42 final size:42
Alignment explanation
Indices: 24222963--24223249 Score: 357
Period size: 42 Copynumber: 6.8 Consensus size: 42
24222953 CACTTACAGA
* *
24222963 AAAAAACGCCGCTAAAGATCATGTTCTTTAACTGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
24223005 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
24223047 AAAAAACGCCGCAAAAGATCATGTTTTTTAGCGGCGTTTAGAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-G
*
24223090 AAAAAACGCCGCAAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
24223132 AAAAAACGTCGCTAAAGATCATGTTCTTTAGCGACGCTTTGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
24223174 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTT
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-G
*
24223217 CAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCG
1 AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCG
24223250 TTAGCGGCGC
Statistics
Matches: 218, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.00
42 147 0.67
43 70 0.32
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:24223113 original size:85 final size:84
Alignment explanation
Indices: 24222963--24223249 Score: 348
Period size: 85 Copynumber: 3.4 Consensus size: 84
24222953 CACTTACAGA
* * * * *
24222963 AAAAAACGCCGCTAAAGATCATGTTCTTTAACTGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCAAAAGATCATG
24223028 TTCTTTAGCGGCGCTTAGG
66 TTCTTTAGCGGCGCTTAGG
* *
24223047 AAAAAACGCCGCAAAAGATCATGTTTTTTAGCGGCGTTTAGAAAAAAAACGCCGCAAAAGATCAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAG-AAAAAAACGCCGCAAAAGATCAT
24223112 GTTCTTTAGCGGCGCTTAGG
65 GTTCTTTAGCGGCGCTTAGG
* * * * * *
24223132 AAAAAACGTCGCTAAAGATCATGTTCTTTAGCGACGCTTTGGAAGAAAACGCCTCTAAAAG-TAA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTTAGAAAAAAACGCCGC-AAAAGATCA
* *
24223196 TGTTCTATAGCGGCGCTT-GTT
64 TGTTCTTTAGCGGCGCTTAG-G
*
24223217 CAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCG
1 AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCG
24223250 TTAGCGGCGC
Statistics
Matches: 178, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
84 39 0.22
85 130 0.73
86 9 0.05
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCAAAAGATCATG
TTCTTTAGCGGCGCTTAGG
Found at i:24223242 original size:127 final size:128
Alignment explanation
Indices: 24222962--24223249 Score: 390
Period size: 127 Copynumber: 2.3 Consensus size: 128
24222952 GCACTTACAG
* *
24222962 AAAAAAACGCCGCT-AAAGATCATGTTCTTTAACTGCGCTTAGGAAAAAACGCCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
* * * * *
24223026 TGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCAAAAGATCATGTTTTTTAGCGGCGTTTAGA
66 TGTTCTTTAGCGACGCTTAGGAAAAAACGCCGCAAAAGATAATGTTCTATAGCGGCGCTTAGA
*
24223089 AAAAAAACGCCGC-AAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGTCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
* * *
24223153 TGTTCTTTAGCGACGCTTTGGAAGAAAACGCCTCTAAAAG-TAATGTTCTATAGCGGCGCTT-GT
66 TGTTCTTTAGCGACGCTTAGGAA-AAAACGCCGC-AAAAGATAATGTTCTATAGCGGCGCTTAGA
**
24223216 TCAAAAACGCCGCTAAAAG-T-AGTGTTCTTTAGCG
1 AAAAAAACGCCGCTAAAAGATCA-TGTTCTTTAGCG
24223250 TTAGCGGCGC
Statistics
Matches: 143, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
126 1 0.01
127 106 0.74
128 31 0.22
129 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (128 bp):
AAAAAAACGCCGCTAAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCA
TGTTCTTTAGCGACGCTTAGGAAAAAACGCCGCAAAAGATAATGTTCTATAGCGGCGCTTAGA
Found at i:24224658 original size:20 final size:19
Alignment explanation
Indices: 24224616--24224658 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
24224606 AGTTATATAC
*
24224616 TTTAAAAATTGTTATGTAA
1 TTTAAAAATTGTTATGCAA
24224635 TTTAAAAATTGTTATGCAA
1 TTTAAAAATTGTTATGCAA
24224654 GTTTA
1 -TTTA
24224659 TATGTAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTAAAAATTGTTATGCAA
Found at i:24224747 original size:25 final size:25
Alignment explanation
Indices: 24224719--24224769 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24224709 AGTTTATATA
24224719 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
24224744 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
24224769 T
1 T
24224770 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Found at i:24224798 original size:17 final size:18
Alignment explanation
Indices: 24224766--24224799 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24224756 TGATTGATAA
24224766 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
24224784 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
24224800 TTAAAAATGT
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:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:24224863 original size:19 final size:19
Alignment explanation
Indices: 24224835--24224878 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
24224825 AGTTATGTAA
*
24224835 GTTATATAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
24224854 GTTATGTAATTTAAAAATT
1 GTTATGTAATTTAAAAATT
24224873 GTTATG
1 GTTATG
24224879 CAAGTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GTTATGTAATTTAAAAATT
Found at i:24224886 original size:20 final size:19
Alignment explanation
Indices: 24224842--24224886 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
24224832 TAAGTTATAT
*
24224842 AATTTAAAAATTGTTATGT
1 AATTTAAAAATTGTTATGC
24224861 AATTTAAAAATTGTTATGC
1 AATTTAAAAATTGTTATGC
24224880 AAGTTTA
1 AA-TTTA
24224887 TATGCATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
AATTTAAAAATTGTTATGC
Found at i:24224985 original size:25 final size:25
Alignment explanation
Indices: 24224947--24224997 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24224937 AGTTTATATA
24224947 TAAGTTATGATATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
*
24224972 TAAGTTATGCTATGATTGATAAATT
1 TAAGTTATGATATGATTGATAAATT
24224997 T
1 T
24224998 TGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGATATGATTGATAAATT
Done.