Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 132 of 410
Found at i:39918197 original size:50 final size:49
Alignment explanation
Indices: 39918118--39918229 Score: 143
Period size: 50 Copynumber: 2.3 Consensus size: 49
39918108 GTACATGTAT
* * * *
39918118 GCTCATATGAGCTATGAATCGGTATGCTCTCACGAGCTAGAAATCGGTAA
1 GCTCATATGAGCTAAGAATCAGTAAGCTCTCACGAGCTA-AAATCAGTAA
* * * *
39918168 GCTCATACGAGCTAAGAATTAGTAAGCTCTCATGAGCTAAAATTAGTAA
1 GCTCATATGAGCTAAGAATCAGTAAGCTCTCACGAGCTAAAATCAGTAA
39918217 GCTCATATGAGCT
1 GCTCATATGAGCT
39918230 GTGGTGTGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 20 0.38
50 33 0.62
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (49 bp):
GCTCATATGAGCTAAGAATCAGTAAGCTCTCACGAGCTAAAATCAGTAA
Found at i:39918216 original size:24 final size:24
Alignment explanation
Indices: 39918149--39918229 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 24
39918139 GTATGCTCTC
**
39918149 ACGAGCTAGAAATCGGTAAGCTCAT
1 ACGAGCTA-AAATTAGTAAGCTCAT
39918174 ACGAGCTAAGAATTAGTAAGCTC-T
1 ACGAGCTAA-AATTAGTAAGCTCAT
*
39918198 CATGAGCTAAAATTAGTAAGCTCAT
1 -ACGAGCTAAAATTAGTAAGCTCAT
*
39918223 ATGAGCT
1 ACGAGCT
39918230 GTGGTGTGTC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 22 0.44
25 28 0.56
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (24 bp):
ACGAGCTAAAATTAGTAAGCTCAT
Found at i:39919530 original size:14 final size:14
Alignment explanation
Indices: 39919508--39919537 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39919498 CAATCATTAG
*
39919508 TGTGGTCAATTTAA
1 TGTGCTCAATTTAA
39919522 TGTGCTCAATTTAA
1 TGTGCTCAATTTAA
39919536 TG
1 TG
39919538 CGAAAGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (14 bp):
TGTGCTCAATTTAA
Found at i:39924456 original size:30 final size:29
Alignment explanation
Indices: 39924362--39924463 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
39924352 TATAGTGAAT
* * *
39924362 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
39924391 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
39924419 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
39924449 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
39924464 CAATCTTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:39931489 original size:48 final size:50
Alignment explanation
Indices: 39931424--39931608 Score: 182
Period size: 48 Copynumber: 3.8 Consensus size: 50
39931414 TGTGCTAGTG
* * * **
39931424 GAGCCAATGTAAAACCATGTCTGGGACATGGCATTGACATTGAGA-C-GA
1 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGACACGGAGATCTGA
* *
39931472 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATCTGA
1 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGACACGGAGATCTGA
* * * **
39931522 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGACTC-GATTTC-GA
1 GAGCTAATGTAAGACCATGTCTGGGACATGGCATC-GACACGGAGATCTGA
* * *
39931571 TAG-TCAATGTAAGACCATATTTGGGACATGGCATCGAC
1 GAGCT-AATGTAAGACCATGTCTGGGACATGGCATCGAC
39931609 TTGATGGATG
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 42 0.36
49 31 0.27
50 40 0.34
51 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (50 bp):
GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGACACGGAGATCTGA
Found at i:39938886 original size:79 final size:80
Alignment explanation
Indices: 39938750--39938967 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 80
39938740 GAATCACGTA
*** * **
39938750 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T
*
39938812 AGTAACTCGCACGAATG
64 AGTAACTCGCACGAACG
* *
39938829 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
39938892 TTAACTCGCACGAACG
65 GTAACTCGCACGAACG
** * *
39938908 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
39938968 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 63 0.54
80 50 0.43
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAACG
Found at i:39938967 original size:40 final size:39
Alignment explanation
Indices: 39938776--39938967 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 39
39938766 GGATATAACG
* ** *
39938776 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
39938816 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
39938856 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
39938895 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
39938935 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
39938968 CATCATTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 83 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:39941886 original size:25 final size:26
Alignment explanation
Indices: 39941833--39941901 Score: 104
Period size: 25 Copynumber: 2.7 Consensus size: 26
39941823 CTTATTTTTC
* *
39941833 AATTAAACTCAATTTAATTAATATTTA
1 AATTTAACTCAAATTAA-TAATATTTA
39941860 AATTTAACTCAAATTAA-AATATTTA
1 AATTTAACTCAAATTAATAATATTTA
39941885 AATTTAACTCAAATTAA
1 AATTTAACTCAAATTAA
39941902 CCCCCAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 25 0.62
27 15 0.38
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTTAACTCAAATTAATAATATTTA
Found at i:39942613 original size:25 final size:25
Alignment explanation
Indices: 39942584--39942633 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
39942574 TTTCGTTCCA
39942584 GGTCTATTTCCTACATGGAGATGAT
1 GGTCTATTTCCTACATGGAGATGAT
39942609 GGTCTATTTCCTACATGGAGATGAT
1 GGTCTATTTCCTACATGGAGATGAT
39942634 AGTCCACGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (25 bp):
GGTCTATTTCCTACATGGAGATGAT
Found at i:39952218 original size:28 final size:28
Alignment explanation
Indices: 39952186--39952305 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 28
39952176 TACGTACATG
39952186 CATATGGCCCA-CTAGGCCCAATCTCATT
1 CATATGGCCCATC-AGGCCCAATCTCATT
* * * *
39952214 TATAT-GCTCATCCGGCCCAAT-TCACGTC
1 CATATGGCCCATCAGGCCCAATCTCA--TT
* * *
39952242 CATATGGCCCATCAAGCCCTATTCACATT
1 CATATGGCCCATCAGGCCC-AATCTCATT
*
39952271 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATCTCATT
*
39952299 TATATGG
1 CATATGG
39952306 TCTATCCGGA
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
26 3 0.04
27 12 0.17
28 23 0.33
29 28 0.40
30 2 0.03
31 2 0.03
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCTCATT
Found at i:39958721 original size:29 final size:28
Alignment explanation
Indices: 39958656--39958801 Score: 118
Period size: 29 Copynumber: 5.1 Consensus size: 28
39958646 ACATACATGC
* *
39958656 ATATGGCCCA-CTAGGCCCAATCTCA-TTT
1 ATATGGCCCATC-AGACCCAAT-TCACATT
* *
39958684 ATATGGCCCATCCGACCCAATTCACGTCT
1 ATATGGCCCATCAGACCCAATTCACAT-T
*
39958713 ATATGGCCCATCAGGCCCAATTCACATT
1 ATATGGCCCATCAGACCCAATTCACATT
* * *
39958741 CATATGGCCCATTAGGCCCAATCTCA-TTT
1 -ATATGGCCCATCAGACCCAAT-TCACATT
* * * *
39958770 ATATGGCCTATCCGGCCCAAATCACATT
1 ATATGGCCCATCAGACCCAATTCACATT
39958798 ATAT
1 ATAT
39958802 TCACGCTCAC
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.06
28 42 0.42
29 48 0.48
30 3 0.03
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATCAGACCCAATTCACATT
Found at i:39958773 original size:57 final size:55
Alignment explanation
Indices: 39958656--39958801 Score: 152
Period size: 57 Copynumber: 2.6 Consensus size: 55
39958646 ACATACATGC
* *
39958656 ATATGGCCCA-CTAGGCCCAATCTCATTTATATGGCCCATCCGACCCAATTCACGTCT
1 ATATGGCCCATC-AGGCCCAATCACA-TTATATGGCCCATCAGACCCAATTCAC-TCT
* * *
39958713 ATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCA-TTT
1 ATATGGCCCATCAGGCCCAA-TCACATT-ATATGGCCCATCAGACCCAAT-TCACTCT
* *
39958770 ATATGGCCTATCCGGCCCAAATCACATTATAT
1 ATATGGCCCATCAGGCCC-AATCACATTATAT
39958802 TCACGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
56 4 0.05
57 45 0.58
58 25 0.32
59 3 0.04
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (55 bp):
ATATGGCCCATCAGGCCCAATCACATTATATGGCCCATCAGACCCAATTCACTCT
Found at i:39976087 original size:38 final size:38
Alignment explanation
Indices: 39976045--39976139 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
39976035 TATTTAAGCT
*
39976045 CATCCAACCAAACACACCACATAGGACCTCGAAAGGCC
1 CATCCAACCAAACACACCACATAGGACCTCAAAAGGCC
39976083 CATCCAACCAAACACACCACATAGGACCTCAAAAGGCC
1 CATCCAACCAAACACACCACATAGGACCTCAAAAGGCC
**
39976121 CATCCAACCCTACACACCA
1 CATCCAACCAAACACACCA
39976140 TGCATGTAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.40, C:0.42, G:0.09, T:0.08
Consensus pattern (38 bp):
CATCCAACCAAACACACCACATAGGACCTCAAAAGGCC
Found at i:39980896 original size:27 final size:28
Alignment explanation
Indices: 39980842--39980909 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
39980832 ATTTGTACAA
39980842 CACTAAGTGTGCGAGTTTGATCATATAG
1 CACTAAGTGTGCGAGTTTGATCATATAG
* *
39980870 CACTAAGTGTGCTAG-TTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATCATATAG
39980897 CACTAAGTGTGCG
1 CACTAAGTGTGCG
39980910 GACTCACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATCATATAG
Found at i:39980920 original size:27 final size:27
Alignment explanation
Indices: 39980842--39980921 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 27
39980832 ATTTGTACAA
* *
39980842 CACTAAGTGTGCGAGTTTGA-TCATATAG
1 CACTAAGTGTGCGAG-CTCACT-ATATAG
* * * *
39980870 CACTAAGTGTGCTAGTTGATTATATAG
1 CACTAAGTGTGCGAGCTCACTATATAG
39980897 CACTAAGTGTGCG-GACTCACTATAT
1 CACTAAGTGTGCGAG-CTCACTATAT
39980922 GCTTTTGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.64
28 15 0.33
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (27 bp):
CACTAAGTGTGCGAGCTCACTATATAG
Found at i:39982986 original size:23 final size:22
Alignment explanation
Indices: 39982942--39982986 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
39982932 AAATGTTATA
* *
39982942 TGTTTTGATATTGCATAAAATG
1 TGTTTTGAGATTGCAGAAAATG
*
39982964 TGTTTATGAGATTGCAGATAATG
1 TGTTT-TGAGATTGCAGAAAATG
39982987 ATTGAATTGT
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:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (22 bp):
TGTTTTGAGATTGCAGAAAATG
Found at i:39983192 original size:47 final size:47
Alignment explanation
Indices: 39983138--39983267 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 47
39983128 GTGTGAATAA
* * * *
39983138 TACCTTGATTTGGCTACGGGCCCTGATATAGGTATTTTGAAAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAAAGAAGT
* * * * ** *
39983185 TACCTTGATTTAGCTATGGACCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAAAGAAGT
* *
39983232 TACCTTGATTTGGCTACGGGCTATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACT
39983268 TATCGATTGT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCTGAAAGAAGT
Found at i:39985314 original size:22 final size:23
Alignment explanation
Indices: 39985272--39985314 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
39985262 ATTATTATTT
*
39985272 AATTTTAATATTTTTATTTATAA
1 AATTTTAATATTTTTAGTTATAA
39985295 AATTTTAATATTTTT-GTTAT
1 AATTTTAATATTTTTAGTTAT
39985315 TTTATATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTTTAATATTTTTAGTTATAA
Found at i:39988838 original size:1 final size:1
Alignment explanation
Indices: 39988832--39988868 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
39988822 TGAGATAGCC
*
39988832 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39988869 AACCTGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:39990308 original size:16 final size:16
Alignment explanation
Indices: 39990268--39990311 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
39990258 AAGAATATTC
*
39990268 TTTTCAAAAATTTAAA
1 TTTTCAAAAAATTAAA
** *
39990284 TTTAAAAAAAATTAAT
1 TTTTCAAAAAATTAAA
39990300 TTTTCAAAAAAT
1 TTTTCAAAAAAT
39990312 AAGATTTTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTTCAAAAAATTAAA
Found at i:39990446 original size:23 final size:22
Alignment explanation
Indices: 39990399--39990449 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
39990389 ATGAACTTCA
* *
39990399 AAAATTT-TAAGAAATTATAAC
1 AAAATTTCTAAAAAAATATAAC
39990420 -AAATTTCTAAAAAAATATATAC
1 AAAATTTCTAAAAAAATATA-AC
39990442 AAAATTTC
1 AAAATTTC
39990450 AAATGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 2 0.08
23 7 0.28
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTTCTAAAAAAATATAAC
Found at i:39994602 original size:49 final size:50
Alignment explanation
Indices: 39994477--39994608 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
39994467 TACGAGATGT
* *
39994477 GTCAGTATAAGACCATGTCTAGGACAAGGCATCGGCACGAATATGTGAGA
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGA
* * * *
39994527 G-CTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCG-AT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACGAATATGTGAGA
*
39994576 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTAGGACATGGCATC
39994609 AGCATTATAC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 35 0.49
50 33 0.46
51 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGAATATGTGAGA
Found at i:39996752 original size:32 final size:32
Alignment explanation
Indices: 39996715--39996778 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
39996705 TGAATGTGTA
** *
39996715 TGTTTAAGTCCGGCAATGCCTCGTACCCTGTT
1 TGTTTAAGTCCGAAAATGCCTCATACCCTGTT
**
39996747 TGTTTAAGTTTGAAAATGCCTCATACCCTGTT
1 TGTTTAAGTCCGAAAATGCCTCATACCCTGTT
39996779 CTGACGTCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (32 bp):
TGTTTAAGTCCGAAAATGCCTCATACCCTGTT
Found at i:40004346 original size:22 final size:22
Alignment explanation
Indices: 40004321--40004377 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
40004311 CAACTCATTG
*
40004321 GAGCTTATTGTTCAGCTCGATA
1 GAGCTTATTGTTCAGCTCAATA
* *
40004343 GAGCTTACCAT-TTCAGCTTAATA
1 GAGCTTA--TTGTTCAGCTCAATA
40004366 GAGCTTATTGTT
1 GAGCTTATTGTT
40004378 TATCAGTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
23 17 0.61
24 1 0.04
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (22 bp):
GAGCTTATTGTTCAGCTCAATA
Found at i:40015175 original size:28 final size:28
Alignment explanation
Indices: 40015140--40015238 Score: 146
Period size: 28 Copynumber: 3.5 Consensus size: 28
40015130 TATGACTATA
*
40015140 AATGTGATTGGGCCTGACGGGCTATATG
1 AATGTGATTGGGCCTGATGGGCTATATG
* *
40015168 AAAGTGATTGGGCCTGATGGGCCATATG
1 AATGTGATTGGGCCTGATGGGCTATATG
40015196 AATGTGATTGGGTCC-GATGGGCTATATG
1 AATGTGATTGGG-CCTGATGGGCTATATG
*
40015224 AATGAGATTGGGCCT
1 AATGTGATTGGGCCT
40015239 AAAGGGGCCA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 59 0.94
29 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTGATGGGCTATATG
Found at i:40016528 original size:17 final size:18
Alignment explanation
Indices: 40016495--40016529 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
40016485 TTCAAAGAAG
40016495 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
40016513 GGTTTTCGAT-AAAACAA
1 GGTTTTCAATGAAAACAA
40016530 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:40019816 original size:40 final size:40
Alignment explanation
Indices: 40019757--40019898 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
40019747 AAATTGAATG
* * *
40019757 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
40019797 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
40019837 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
40019877 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
40019899 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:40019922 original size:40 final size:40
Alignment explanation
Indices: 40019795--40019924 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
40019785 ATGCTGGAAA
* * *
40019795 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
40019835 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
40019875 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
40019915 TTATATCCGG
1 TTATATCCGG
40019925 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:40026905 original size:40 final size:40
Alignment explanation
Indices: 40026846--40026976 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
40026836 CGGGACTTTA
* * *
40026846 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
40026886 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
40026926 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
40026966 CCCGGATATAA
1 CCCGGATATAA
40026977 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:40027009 original size:39 final size:40
Alignment explanation
Indices: 40026863--40027013 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
40026853 ATCACGATTT
* * * *
40026863 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
40026903 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
40026943 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
40026982 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
40027014 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:40036587 original size:22 final size:24
Alignment explanation
Indices: 40036537--40036588 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
40036527 GATAATAGTG
*
40036537 AGCTCGATTGAGCTGGAATCGAGA
1 AGCTCTATTGAGCTGGAATCGAGA
*
40036561 AGCTCTATTGAGCT-GAAT-GGGA
1 AGCTCTATTGAGCTGGAATCGAGA
40036583 AGCTCT
1 AGCTCT
40036589 TTCAAGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 13 0.50
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (24 bp):
AGCTCTATTGAGCTGGAATCGAGA
Found at i:40037434 original size:31 final size:31
Alignment explanation
Indices: 40037396--40037454 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
40037386 AGCTTAGTCA
40037396 AATGTCAAGCCCTAAAATGGCTGATTTTTTT
1 AATGTCAAGCCCTAAAATGGCTGATTTTTTT
40037427 AATGTCAAGCCCTAAAATGGCTGATTTT
1 AATGTCAAGCCCTAAAATGGCTGATTTT
40037455 CTTTCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (31 bp):
AATGTCAAGCCCTAAAATGGCTGATTTTTTT
Found at i:40041172 original size:39 final size:39
Alignment explanation
Indices: 40040946--40041161 Score: 342
Period size: 39 Copynumber: 5.5 Consensus size: 39
40040936 ATAAAGCATG
40040946 CGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* **
40040987 TGGGACTTAGCCCGGATATAACGCCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
**
40041026 CGGGACTTAGCCCGGATATAGCACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
40041065 CGGGACTTAGCCCGGGTATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
40041104 CAGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
40041143 CGAGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
40041162 TTTTCCAGCA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 155 0.96
40 2 0.01
41 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:40041197 original size:39 final size:39
Alignment explanation
Indices: 40041154--40041246 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
40041144 GAGACTTAGC
* *
40041154 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
40041193 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
40041232 CCGGATATTTTTCCA
1 CCGGATATTTTTCCA
40041247 ATACCATGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:40041209 original size:117 final size:119
Alignment explanation
Indices: 40040944--40041210 Score: 362
Period size: 117 Copynumber: 2.3 Consensus size: 119
40040934 CCATAAAGCA
**
40040944 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCCCGGATATAAC
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
* *
40041009 GCCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAGCACCAGCACGAATGCC
66 ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAGCACCAGCACGAATGCC
* * *
40041063 TTCGGGAC-TT-AGCCCGGGTATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAT
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
**** **
40041126 ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATTTTTCCAGCACTTA-GCC
66 ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAGCACCAGCACGAATGCC
* * *
40041179 TGC-GGACTTTAAGTCCGGATATATTTCCAGCA
1 TGCGGGACTTTAAGCCCGGATATAATACCAGCA
40041211 TAAAGCCTGC
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
115 4 0.03
116 7 0.05
117 108 0.84
118 2 0.02
119 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (119 bp):
TGCGGGACTTTAAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAAC
ACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAGCACCAGCACGAATGCC
Found at i:40046083 original size:30 final size:30
Alignment explanation
Indices: 40046047--40046177 Score: 162
Period size: 30 Copynumber: 4.5 Consensus size: 30
40046037 GACAAGATTG
* *
40046047 GCACTAAGTGTGC-AGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGA-GTTTAAAATTATATA
*
40046077 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40046105 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
40046135 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
40046164 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40046178 GATTCATTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
28 23 0.25
29 20 0.22
30 48 0.52
31 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:40046138 original size:58 final size:59
Alignment explanation
Indices: 40046047--40046177 Score: 169
Period size: 58 Copynumber: 2.2 Consensus size: 59
40046037 GACAAGATTG
* * * * *
40046047 GCACTAAGTGTGC-AGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
40046105 GCACTAAGTGTGCGA-GCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
40046164 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
40046178 GATTCATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.03
58 40 0.62
59 22 0.34
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:40067797 original size:13 final size:13
Alignment explanation
Indices: 40067781--40067806 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40067771 TAAATAATTT
40067781 TTTGAAAATTTTG
1 TTTGAAAATTTTG
40067794 TTTGAAAATTTTG
1 TTTGAAAATTTTG
40067807 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:40068915 original size:42 final size:42
Alignment explanation
Indices: 40068853--40068969 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 42
40068843 TAGGGTTGGT
* * *
40068853 TGAGATTACGTGTAAAACCATATCTGGGATATGACATCGGTA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
* * * * * *
40068895 TGAGATTTTGTGTAAGACCATAGCTGAGCTATTGGCATCGATT
1 TGAGATTATGTGTAAGACCATATCTGGGATA-TGACATCGATA
**
40068938 TGAGATCCCT-TGTAAGACCATATCTGGGATAT
1 TGAGAT-TATGTGTAAGACCATATCTGGGATAT
40068970 AGCATTGGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 26 0.44
43 32 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:40073497 original size:40 final size:39
Alignment explanation
Indices: 40073332--40073515 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40073322 AAATTGAATG
* * *
40073332 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40073372 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40073412 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40073452 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40073491 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40073516 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40073540 original size:80 final size:81
Alignment explanation
Indices: 40073372--40073560 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40073362 GCTGGAAATT
* * * *
40073372 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40073437 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40073453 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40073516 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40073532 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40073561 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40081614 original size:40 final size:39
Alignment explanation
Indices: 40081449--40081632 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40081439 AAATTGAATG
* * *
40081449 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40081489 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40081529 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40081569 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40081608 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40081633 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40081657 original size:80 final size:81
Alignment explanation
Indices: 40081489--40081677 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40081479 GCTGGAAATT
* * * *
40081489 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40081554 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40081570 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40081633 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40081649 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40081678 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40085437 original size:40 final size:39
Alignment explanation
Indices: 40085272--40085455 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40085262 AAATTGAATG
* * *
40085272 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40085312 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40085352 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40085392 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40085431 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40085456 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40085480 original size:80 final size:81
Alignment explanation
Indices: 40085312--40085500 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40085302 GCTGGAAATT
* * * *
40085312 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40085377 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40085393 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40085456 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40085472 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40085501 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40093555 original size:40 final size:39
Alignment explanation
Indices: 40093390--40093573 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
40093380 AAATTGAATG
* * *
40093390 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
40093430 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
40093470 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
40093510 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
40093549 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
40093574 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:40093598 original size:80 final size:81
Alignment explanation
Indices: 40093430--40093618 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
40093420 GCTGGAAATT
* * * *
40093430 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
40093495 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
40093511 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
40093574 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
40093590 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
40093619 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:40095214 original size:24 final size:23
Alignment explanation
Indices: 40095145--40095215 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
40095135 GTTATATAAT
*
40095145 GGGAAGCTCATAAGAGCCATAATC
1 GGGAAGCTCACAAGAGCCAT-ATC
* **
40095169 GGGAAGTTCACAAAGAATCATATC
1 GGGAAGCTCAC-AAGAGCCATATC
40095193 GGGAAGCTCACAAGGAGCCATAT
1 GGGAAGCTCACAA-GAGCCATAT
40095216 AATGGGAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.05
24 29 0.76
25 7 0.18
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (23 bp):
GGGAAGCTCACAAGAGCCATATC
Found at i:40103533 original size:35 final size:35
Alignment explanation
Indices: 40103487--40103557 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
40103477 ACCGTTTGAG
*
40103487 ACTACCAAGAGAGTAGGGCCAGTTGCCTATCGGTT
1 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCGGTT
40103522 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCGGTT
1 ACTACCAAGAGAGAAGGGCCAGTTGCCTATCGGTT
40103557 A
1 A
40103558 GCCTTACCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (35 bp):
ACTACCAAGAGAGAAGGGCCAGTTGCCTATCGGTT
Found at i:40109196 original size:13 final size:13
Alignment explanation
Indices: 40109178--40109203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40109168 AATCAACTTG
40109178 TGATAAATAGAAC
1 TGATAAATAGAAC
40109191 TGATAAATAGAAC
1 TGATAAATAGAAC
40109204 ACAAGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
TGATAAATAGAAC
Found at i:40109308 original size:26 final size:27
Alignment explanation
Indices: 40109274--40109344 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 27
40109264 TATAATTTAG
*
40109274 ATAATTATAAAAAATATTAAA-ATATTT
1 ATAA-TATAAATAATATTAAATATATTT
* * *
40109301 TTAATATATATAATGATTAAATTTTATTT
1 ATAATATAAATAAT-ATTAAA-TATATTT
40109330 ATAATATAAATAATA
1 ATAATATAAATAATA
40109345 AAGTTCAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
26 8 0.23
27 9 0.26
28 1 0.03
29 17 0.49
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (27 bp):
ATAATATAAATAATATTAAATATATTT
Found at i:40109540 original size:21 final size:21
Alignment explanation
Indices: 40109502--40109541 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
40109492 AATATTTTTA
*
40109502 TTGAAATTATATTTTTTTAAT
1 TTGAAATTATATTCTTTTAAT
40109523 TTGATAATTAT-TTCTTTTA
1 TTGA-AATTATATTCTTTTA
40109542 TGTTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTGAAATTATATTCTTTTAAT
Found at i:40110754 original size:3 final size:3
Alignment explanation
Indices: 40110746--40110771 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
40110736 GTATCTTGTT
40110746 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
40110772 GTAAATTGAC
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:40113045 original size:39 final size:39
Alignment explanation
Indices: 40113002--40113079 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
40112992 AAGTATTTCT
40113002 CAGGGTTTGAAACCACCTAAACTCCTAACAAATTGGTTA
1 CAGGGTTTGAAACCACCTAAACTCCTAACAAATTGGTTA
*
40113041 CAGGGTTTGAAACCACCTGAACTCCTAACAAATTGGTTA
1 CAGGGTTTGAAACCACCTAAACTCCTAACAAATTGGTTA
40113080 TGTCCTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (39 bp):
CAGGGTTTGAAACCACCTAAACTCCTAACAAATTGGTTA
Found at i:40114657 original size:24 final size:24
Alignment explanation
Indices: 40114630--40114716 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
40114620 CTTATTATGT
40114630 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
40114654 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
40114678 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
40114702 TCGCACACATAGTGC
1 TCGCACACATAGTGC
40114717 ATTTGAGATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:40117814 original size:3 final size:3
Alignment explanation
Indices: 40117808--40117933 Score: 55
Period size: 3 Copynumber: 42.7 Consensus size: 3
40117798 AATATTGATG
* * * * * * *
40117808 ATA ATA ATA AAA ATA ATA ATA AGA GTA TTA ATA TTT ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
40117856 GTG ATA ATA ATA ATA GAAA ATA ATA A-A GA-A ATG ATA TTA GTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* *
40117901 GTA ATA A-A A-A ATGA A-A ATA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT
40117934 GGTAAATACA
Statistics
Matches: 89, Mismatches: 28, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
2 8 0.09
3 77 0.87
4 4 0.04
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:40118198 original size:23 final size:23
Alignment explanation
Indices: 40118172--40118219 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
40118162 CGGAAATCGC
40118172 CCGTTTTGACTTATATAAGGGTA
1 CCGTTTTGACTTATATAAGGGTA
40118195 CCGTTTTGACTTATATAAGGGTA
1 CCGTTTTGACTTATATAAGGGTA
40118218 CC
1 CC
40118220 AAACGGTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (23 bp):
CCGTTTTGACTTATATAAGGGTA
Found at i:40122395 original size:5 final size:5
Alignment explanation
Indices: 40122381--40122424 Score: 72
Period size: 5 Copynumber: 9.0 Consensus size: 5
40122371 AATATATTAA
*
40122381 ATAT- ATATG ATATG ATATG ATATG ATATG ATGTG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
40122425 TAATATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:40126355 original size:352 final size:352
Alignment explanation
Indices: 40125711--40126768 Score: 2107
Period size: 352 Copynumber: 3.0 Consensus size: 352
40125701 GCTAAAAATT
40125711 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
1 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
*
40125776 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCCTGAGTTTGTA
66 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
40125841 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
131 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
40125906 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
196 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
40125971 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
261 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
40126036 TTTAAAAATTTTAAAAATATTTTTTAA
326 TTTAAAAATTTTAAAAATATTTTTTAA
40126063 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
1 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
40126128 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
66 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
40126193 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
131 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
40126258 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
196 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
40126323 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
261 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
40126388 TTTAAAAATTTTAAAAATATTTTTTAA
326 TTTAAAAATTTTAAAAATATTTTTTAA
40126415 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
1 AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
40126480 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
66 ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
40126545 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
131 TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
40126610 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
196 ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
40126675 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
261 AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
40126740 TTTAAAAATTTTAAAAATATTTTTTAA
326 TTTAAAAATTTTAAAAATATTTTTTAA
40126767 AA
1 AA
40126769 AACTTATTTT
Statistics
Matches: 705, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
352 705 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (352 bp):
AATTTTTATGGCTAAGCTATAAAAATGTTTACCCAACTATTTTTTTATTTTATTTTGGTCACTTA
ATTATTAATTCTTTTTAGTTATTAAGCTTTTTGAATTTAAATATTTTAGTCATCTTGAGTTTGTA
TGAGCTTTTTTTATCGGTATAGTTACAAAGTTAGATCTCTAATGTTTACTCAATCTATTAATTTG
ATCTTAAATATAAAAAATTCAACAAATTTAACTCTCAATGTTTAAAAAATTATCATTTTGGTTCT
AATTTTTTAAAAATTTAATAAATTCAACTCTTAATATTTACAAAATCTATGAATTTAGTCTTAAC
TTTAAAAATTTTAAAAATATTTTTTAA
Found at i:40127149 original size:61 final size:61
Alignment explanation
Indices: 40127051--40127178 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
40127041 ATATTTTTAA
* * * * *
40127051 TTTTTAGAGTTAGGACTAAATTGACAGACTTTATAAATATTGA-GAGTTAAATCTATTAAAT
1 TTTTTACAATTAGAACTAAAATGACAAACTTTATAAATATTGAGGAG-TAAATCTATTAAAT
* * *
40127112 TTTTTACAATTAGAACTAAAATGACAAATTTTTTAAATATTGAGGAGTAAATTTATTAAAT
1 TTTTTACAATTAGAACTAAAATGACAAACTTTATAAATATTGAGGAGTAAATCTATTAAAT
40127173 TTTTTA
1 TTTTTA
40127179 TATTTAGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 55 0.95
62 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (61 bp):
TTTTTACAATTAGAACTAAAATGACAAACTTTATAAATATTGAGGAGTAAATCTATTAAAT
Found at i:40131590 original size:50 final size:49
Alignment explanation
Indices: 40131515--40131650 Score: 191
Period size: 50 Copynumber: 2.8 Consensus size: 49
40131505 TGAATACACG
* *
40131515 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAA-TCGCA
* * *
40131565 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCGCA
* * *
40131614 TGTGTGGTACTAAGTGCAGGCTACTATGCGTATCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA
40131651 TAGCTTCGGC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 38 0.49
50 39 0.51
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTTAATCGCA
Found at i:40131651 original size:49 final size:50
Alignment explanation
Indices: 40131515--40131651 Score: 195
Period size: 49 Copynumber: 2.8 Consensus size: 50
40131505 TGAATACACG
* * *
40131515 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCGCA
* *
40131565 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGA-TCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCGCA
* * *
40131614 TGTGTGGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
40131652 AGCTTCGGCT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 39 0.50
50 39 0.50
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTAAGTCGCA
Found at i:40133599 original size:28 final size:29
Alignment explanation
Indices: 40133567--40133681 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
40133557 TACCTGTATT
* *
40133567 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
40133595 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
40133624 TGGCCCATTAGGCCCAAATCACATTTACA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
40133653 TGGCCCGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
40133681 T
1 T
40133682 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 27 0.36
29 48 0.63
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:40133628 original size:57 final size:57
Alignment explanation
Indices: 40133558--40133673 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
40133548 AAATTCACAT
* * * *
40133558 ACCTGTATTTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCC-AATC
* * *
40133615 ACCTATATATGGCCCATTAGGCCCAAATCACATTTACATGGCCCGTTAGGCCCAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCCAATC
40133672 AC
1 AC
40133674 ATTCATATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCCAATC
Found at i:40136099 original size:16 final size:18
Alignment explanation
Indices: 40136078--40136110 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
40136068 TATACGAATT
40136078 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
40136094 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
40136111 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:40136740 original size:43 final size:43
Alignment explanation
Indices: 40136691--40136880 Score: 299
Period size: 43 Copynumber: 4.4 Consensus size: 43
40136681 GCATTACGCA
*
40136691 TGCTAGGCTCGAAGCCTGATATTAACTCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGCC
* *
40136734 TGCTAGGCTCGAACCCCGATATTAACTCATCGGCATTATAGCC
1 TGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGCC
* * *
40136777 TGCTAGCCTTGAAGCCCGATATTAACTCATCGGCATTATAGCC
1 TGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGCC
* *
40136820 TGCTAGGATCAAAGCCCGATATTAACTCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGCC
*
40136863 TGCTAGGCTTGAAGCCCG
1 TGCTAGGCTCGAAGCCCG
40136881 TGTAACCTTA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 133 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (43 bp):
TGCTAGGCTCGAAGCCCGATATTAACTCACCGGCATTATAGCC
Found at i:40141020 original size:16 final size:18
Alignment explanation
Indices: 40141001--40141033 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
40140991 CATACGAATT
40141001 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
40141017 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
40141034 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:40141844 original size:43 final size:43
Alignment explanation
Indices: 40141597--40141841 Score: 366
Period size: 43 Copynumber: 5.7 Consensus size: 43
40141587 CTGAACTCAT
* * *
40141597 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCTGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
*
40141639 TCACTGGCATTATAGCCTGCTAGGCTCGAACCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* * *
40141682 TCACCGGTATTATAGCTTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* *
40141725 TCACTGGTATTATAGCCTACTAGGCTCGAAGCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* * *
40141768 TCACCGGCATTATAGCCTGTTAGGCTCGAAGTCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
*
40141811 TCACTAGCATTATAGCCTGCTAGGCTCGAAG
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAG
40141842 TCCTGATTAG
Statistics
Matches: 183, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
42 11 0.06
43 172 0.94
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
Found at i:40145522 original size:28 final size:29
Alignment explanation
Indices: 40145490--40145604 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
40145480 TACCTGTATC
* *
40145490 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
40145518 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
40145547 TGGCCCATTAGGCCCAAATCACATTTACA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
40145576 TGGCCTATTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
40145604 T
1 T
40145605 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:40145542 original size:57 final size:58
Alignment explanation
Indices: 40145481--40145591 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
40145471 AAATTCACAT
* * *
40145481 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCCAAATC
* * *
40145538 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTACATGGCCTATTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCCA
40145592 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCACATGGCCCATTAGGCCCAAATC
Found at i:40145858 original size:16 final size:16
Alignment explanation
Indices: 40145823--40145861 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
40145813 ACTTTTGGCT
* *
40145823 TTTTGGCATTTCTACT
1 TTTTGGCATTTCGACA
*
40145839 TTTTGGCATTTCGGCA
1 TTTTGGCATTTCGACA
40145855 TTTTGGC
1 TTTTGGC
40145862 TTTTGCCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTTGGCATTTCGACA
Found at i:40150022 original size:79 final size:81
Alignment explanation
Indices: 40149886--40150068 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40149876 TCGAATGATG
* *
40149886 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40149950 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
40149965 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
40150027 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
40150045 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40150069 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:40150084 original size:40 final size:40
Alignment explanation
Indices: 40149887--40150070 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40149877 CGAATGATGT
* * * *
40149887 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
40149927 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
40149967 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40150005 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40150046 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40150071 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40150092 original size:79 final size:79
Alignment explanation
Indices: 40149939--40150103 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
40149929 GGACTAAGAT
* **
40149939 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
40150004 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40150018 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
40150081 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40150097 CCGAAGG
1 CCGAAGG
40150104 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40158107 original size:79 final size:81
Alignment explanation
Indices: 40157971--40158153 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40157961 TCGAATGATG
* *
40157971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
40158035 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
40158050 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
40158112 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
40158130 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40158154 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:40158169 original size:40 final size:40
Alignment explanation
Indices: 40157972--40158155 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
40157962 CGAATGATGT
* * * *
40157972 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
40158012 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
40158052 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40158090 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
40158131 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40158156 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:40158177 original size:79 final size:79
Alignment explanation
Indices: 40158024--40158188 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
40158014 GGACTAAGAT
* **
40158024 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
40158089 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40158103 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
40158166 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40158182 CCGAAGG
1 CCGAAGG
40158189 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40159696 original size:28 final size:28
Alignment explanation
Indices: 40159656--40159710 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
40159646 CATATCGGAC
40159656 AATTTACAATTAATTTGAAATAAATGAG
1 AATTTACAATTAATTTGAAATAAATGAG
40159684 AATTTACAATTAATTTGAAATAAATGA
1 AATTTACAATTAATTTGAAATAAATGA
40159711 CATACATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (28 bp):
AATTTACAATTAATTTGAAATAAATGAG
Found at i:40160138 original size:21 final size:21
Alignment explanation
Indices: 40160114--40160161 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
40160104 CGATACATAA
40160114 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
40160135 GTGCCCAATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
40160156 GTGCCT
1 GTGCCT
40160162 GATATATGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.31, G:0.25, T:0.12
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:40161116 original size:2 final size:2
Alignment explanation
Indices: 40161109--40161134 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
40161099 ACTTTATTTC
40161109 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
40161135 TAGTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40161322 original size:3 final size:3
Alignment explanation
Indices: 40161314--40161390 Score: 56
Period size: 3 Copynumber: 27.0 Consensus size: 3
40161304 TAATTTATTT
* * * *
40161314 TAA TAA TAA TAA TAA TAA TAA TAA TAT TCA TAA TCA TAA T-T TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
40161361 T-T TAA T-A TAA -AA CTAA -AA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
40161391 ATATCTATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
2 8 0.14
3 46 0.82
4 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:40168961 original size:46 final size:48
Alignment explanation
Indices: 40168719--40169083 Score: 271
Period size: 46 Copynumber: 7.7 Consensus size: 48
40168709 AGGGTATAAT
* * *
40168719 GCCGATGCCATGTCCCAGAAATGGTCTTACACTGGC-T-CATTCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACA-TCA-CGAG
* *
40168766 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCGA-AATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-C-ATCA-CGAG
* * * *
40168815 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCTAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCA-CGAG
* * * **
40168865 GCCGATGCCATGTCCTAGACAGGGTCTTACACTAAC--ACATCTTGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCACG-AG
* *
40168911 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCACGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCACGAG
* * * * *
40168957 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCACGAG
* * *
40169003 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCACGAG
*
40169051 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG
40169084 TACACCAATG
Statistics
Matches: 262, Mismatches: 38, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.04
45 13 0.05
46 75 0.29
47 62 0.24
48 27 0.10
49 33 0.13
50 38 0.15
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCACGAG
Found at i:40169070 original size:140 final size:143
Alignment explanation
Indices: 40168716--40169081 Score: 430
Period size: 140 Copynumber: 2.6 Consensus size: 143
40168706 CACAGGGTAT
* *
40168716 AATGCCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCATTCATCAA-GT-CGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA-TCAT-AATGTGCGATG-CATGT
*
40168779 CCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTCTTA
63 CCCAGACAT-GTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAAACATGGTCTTA
40168844 CACTAGCTCTCACATATC
127 CACTAGCTCT-ACATATC
* * * * *
40168862 TATGCCGATGCCATGTCCTAGACAGGGTCTTACACTAACACATC-T--TGTAGCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATAATGT-G-CGATGCATGTC
* ** * *
40168924 CCAGACATGTCTTACACTGGCT-TACGTCA-CGAGGCCGATG-CATGTCCCAAACAT-GTCTTAC
64 CCAGACATGTCTTACACTGACTAT-CGAAATCGAGGCCAACGCCATGTCCCAAACATGGTCTTAC
* *
40168985 ACTAGCTCT-CGTCTC
128 ACTAGCTCTACATATC
40169000 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGTGGCTGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATAATGT-GC-GATGCATGTC
40169064 CCAGACATGTCTTACACT
64 CCAGACATGTCTTACACT
40169082 AGTACACCAA
Statistics
Matches: 190, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
137 2 0.01
138 41 0.22
139 1 0.01
140 48 0.25
141 13 0.07
142 12 0.06
143 16 0.08
144 15 0.08
145 7 0.04
146 35 0.18
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (143 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATAATGTGCGATGCATGTCCC
AGACATGTCTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAAACATGGTCTTACACT
AGCTCTACATATC
Found at i:40171979 original size:42 final size:44
Alignment explanation
Indices: 40171922--40172025 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
40171912 TATCGACTTA
* * *
40171922 TGATTTACGTGTAAGATCATGCCTGGGACATTGGCATC-ATATT
1 TGATTTACGTGTAAGACCATGCCTGGGACAGTAGCATCAATATT
* *
40171965 TGATTT-CGTGTAAGACCCTGTCTGGGACAGTAGCATCAATATT
1 TGATTTACGTGTAAGACCATGCCTGGGACAGTAGCATCAATATT
* *
40172008 TGA-TTACATGTATGACCA
1 TGATTTACGTGTAAGACCA
40172026 AGTTTGGGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGCCTGGGACAGTAGCATCAATATT
Found at i:40173165 original size:50 final size:50
Alignment explanation
Indices: 40173089--40173336 Score: 291
Period size: 50 Copynumber: 4.9 Consensus size: 50
40173079 ACCGAAGCTC
* * *
40173089 TCTGGTACACATAATAGCCTACACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
** * * * *
40173139 TCTGGTACATGTAGTAGCATGCACTTAGTACTACACACGTAACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * *
40173189 TTTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAA
* **
40173240 T-TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAA
1 TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
**
40173290 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
40173337 AACCGTCTTA
Statistics
Matches: 164, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 123 0.75
51 41 0.25
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:40173270 original size:101 final size:100
Alignment explanation
Indices: 40173089--40173331 Score: 267
Period size: 101 Copynumber: 2.4 Consensus size: 100
40173079 ACCGAAGCTC
* * * * * * * * ***
40173089 TCTGGTACACATAATAGCCTACACTTAGTACTACACATGCGACCTAA-CAATCT-GGTACATGTA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTAT-TGGGTACGCATA
*
40173152 GTAGCATGCACTTAGTACTACACACGTA-ACCTAACCA
65 GTAGCATGCACTTAGTACTACACA--TACACCTAACAA
*
40173189 TTTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTACGCATAG
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTACGCATAG
*
40173254 TAGCCTGCACTTAGTACTACACATACGACCTAACAA
66 TAGCATGCACTTAGTACTACACATAC-ACCTAACAA
* ** *
40173290 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGTGA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA
40173332 CCTAAAACCG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
99 2 0.02
100 40 0.33
101 78 0.65
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (100 bp):
TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTACGCATAG
TAGCATGCACTTAGTACTACACATACACCTAACAA
Found at i:40173335 original size:151 final size:151
Alignment explanation
Indices: 40173092--40173376 Score: 430
Period size: 151 Copynumber: 1.9 Consensus size: 151
40173082 GAAGCTCTCT
*
40173092 GGTACACATAATAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGC
1 GGTACACATAATAGCCTACACTTAGTACTACACATACGACCTAACAATCTGGTACATGTAGTAGC
* *
40173157 ATGCACTTAGTACTACACACGTAACCT-AACCAT-TTGATACACATAGTAGCCTGCACTTAGTAC
66 ATGCACTTAGTACTACACACGTAACCTAAACCATCTT-AAACACATAGTAGCC-GCACATAGTAC
40173220 TACACACGTGATCAAAGCTATTG
129 TACACACGTGATCAAAGCTATTG
* * *
40173243 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACATGTAGTAGC
1 GGTACACATAATAGCCTACACTTAGTACTACACATACGACCTAACAATCTGGTACATGTAGTAGC
* * * * *
40173308 CTGCACTTAGTACTACACATGTGACCTAAAACCGTCTTAAACACATAGTAGCCGTACATAGTACT
66 ATGCACTTAGTACTACACACGTAACCT-AAACCATCTTAAACACATAGTAGCCGCACATAGTACT
40173373 ACAC
130 ACAC
40173377 TGTGTTCTCA
Statistics
Matches: 120, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
151 85 0.71
152 14 0.12
153 19 0.16
154 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (151 bp):
GGTACACATAATAGCCTACACTTAGTACTACACATACGACCTAACAATCTGGTACATGTAGTAGC
ATGCACTTAGTACTACACACGTAACCTAAACCATCTTAAACACATAGTAGCCGCACATAGTACTA
CACACGTGATCAAAGCTATTG
Found at i:40175264 original size:48 final size:48
Alignment explanation
Indices: 40175193--40175388 Score: 365
Period size: 48 Copynumber: 4.1 Consensus size: 48
40175183 TTCGTACAAA
*
40175193 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
40175241 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
40175289 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
* *
40175337 AACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTG
1 AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
40175385 AATG
1 AATG
40175389 ACCAAATGTG
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
AATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
Found at i:40175561 original size:37 final size:37
Alignment explanation
Indices: 40175507--40175615 Score: 184
Period size: 37 Copynumber: 2.9 Consensus size: 37
40175497 GGAAATATAT
40175507 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
*
40175544 TCCGGGTAAGACTCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
*
40175581 TCCGGGTAAGACCCGATA-ACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGA-AGACTACGTGTGGAGATTT
40175616 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 67 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
Found at i:40178538 original size:43 final size:43
Alignment explanation
Indices: 40178486--40178572 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
40178476 ATTGTGAATG
40178486 TAAAAGTATGGCATGTATAGGCTAGAAGTATTAGGATATGTTT
1 TAAAAGTATGGCATGTATAGGCTAGAAGTATTAGGATATGTTT
40178529 TAAAAGTATGGCATGTATAGGCTAGAAGTATTAGGATATGTTT
1 TAAAAGTATGGCATGTATAGGCTAGAAGTATTAGGATATGTTT
40178572 T
1 T
40178573 GTAATGTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (43 bp):
TAAAAGTATGGCATGTATAGGCTAGAAGTATTAGGATATGTTT
Found at i:40180414 original size:79 final size:82
Alignment explanation
Indices: 40180302--40180486 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
40180292 GCTACTCGTT
* * *
40180302 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
40180365 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
**
40180382 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
40180445 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
40180462 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40180487 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:40180486 original size:40 final size:40
Alignment explanation
Indices: 40180283--40180486 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
40180273 CAGAATTTAA
** *
40180283 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40180323 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40180363 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40180402 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
40180442 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40180482 CCGGA
1 CCGGA
40180487 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 94 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40183075 original size:23 final size:22
Alignment explanation
Indices: 40183024--40183081 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
40183014 CACATAAGTT
40183024 CCTGAA-ACGACACACGAGGTG
1 CCTGAATACGACACACGAGGTG
40183045 CCTG-ATACGACACACGAGGTG
1 CCTGAATACGACACACGAGGTG
40183066 CCTGATATACGACACA
1 CCTGA-ATACGACACA
40183082 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
23 10 0.29
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.14
Consensus pattern (22 bp):
CCTGAATACGACACACGAGGTG
Found at i:40183089 original size:23 final size:22
Alignment explanation
Indices: 40183008--40183091 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
40182998 CTTGACCAAT
* *
40183008 ATACGACACA-TAAGTTCCTGA
1 ATACGACACACGAAGTGCCTGA
*
40183029 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAAGTGCCTGA
*
40183049 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
**
40183071 TATACGACACATAAAGTGCCT
1 -ATACGACACACGAAGTGCCT
40183092 AATCGGCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.17
21 27 0.51
23 17 0.32
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (22 bp):
ATACGACACACGAAGTGCCTGA
Found at i:40184072 original size:27 final size:26
Alignment explanation
Indices: 40184042--40184095 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
40184032 TATTTCATAC
40184042 ATATATTAGTTA-ATAATATTAATAATA
1 ATATATTA-TTATATAATA-TAATAATA
40184069 ATATATTATTATTATAATATAATAATA
1 ATATATTATTA-TATAATATAATAATA
40184096 TTTAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 16 0.64
28 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATATATTATTATATAATATAATAATA
Found at i:40184238 original size:15 final size:15
Alignment explanation
Indices: 40184218--40184251 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
40184208 TAATTTATTT
40184218 TAATAATAATAATCA
1 TAATAATAATAATCA
*
40184233 TAATAATCATAATCA
1 TAATAATAATAATCA
40184248 TAAT
1 TAAT
40184252 TTAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATCA
Found at i:40184560 original size:3 final size:3
Alignment explanation
Indices: 40184547--40184623 Score: 59
Period size: 3 Copynumber: 25.7 Consensus size: 3
40184537 ATTTTATTTC
* * * * *
40184547 ATA AT- ATA ATA ATA TTA ATA ATA ATA TTT A-A ATA GAAA ATC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* *
40184591 ATA ATA ATA ATTA ATA AGA ATA ATT ATA ATA AT
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA AT
40184624 TGATTAATAA
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
2 3 0.05
3 48 0.86
4 5 0.09
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:40184575 original size:30 final size:27
Alignment explanation
Indices: 40184562--40184623 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
40184552 ATAATAATAT
40184562 TAATAATAATATTTAAATAGAAAATCA
1 TAATAATAATATTTAAATAGAAAATCA
* *
40184589 TAATAATAATAATT-AATAAGAATAATTA
1 TAATAATAATATTTAAAT-AGAA-AATCA
40184617 TAATAAT
1 TAATAAT
40184624 TGATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.10
27 17 0.55
28 11 0.35
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (27 bp):
TAATAATAATATTTAAATAGAAAATCA
Found at i:40189757 original size:79 final size:81
Alignment explanation
Indices: 40189648--40189830 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40189638 TACTCGTTCA
* *
40189648 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
40189711 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
40189728 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
40189791 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
40189807 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40189831 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:40189830 original size:40 final size:40
Alignment explanation
Indices: 40189627--40189830 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
40189617 CGGAATTTAA
** *
40189627 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40189667 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40189707 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40189746 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40189786 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40189826 CCGGA
1 CCGGA
40189831 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40197822 original size:79 final size:81
Alignment explanation
Indices: 40197713--40197895 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
40197703 TACTCGTTCA
* *
40197713 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
40197776 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
40197793 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
40197856 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
40197872 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40197896 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:40197895 original size:40 final size:40
Alignment explanation
Indices: 40197692--40197895 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
40197682 CGGAATTTAA
** *
40197692 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40197732 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40197772 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40197811 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40197851 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40197891 CCGGA
1 CCGGA
40197896 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40200846 original size:40 final size:40
Alignment explanation
Indices: 40200763--40200970 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 40
40200753 TCGGATTTAA
* * * * * * *
40200763 CCGGATATAGCGACTCGCTCGATTGTCTTTGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
40200803 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
40200843 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
40200883 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
40200923 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
40200963 CCGGATAT
1 CCGGATAT
40200971 CATTCCAATG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 136 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:40200901 original size:80 final size:80
Alignment explanation
Indices: 40200817--40200970 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
40200807 TTATAGTGAT
* * ** * *
40200817 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
40200882 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
40200897 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
40200962 CCCGGATAT
66 CCCGGATAT
40200971 CATTCCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:40205203 original size:77 final size:80
Alignment explanation
Indices: 40205037--40205219 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 80
40205027 GCTACTCGTT
* * *
40205037 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
40205101 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
**
40205117 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTAA-TCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
40205178 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
40205195 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
40205220 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
76 3 0.03
77 37 0.41
78 25 0.28
79 14 0.16
80 11 0.12
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:40205213 original size:40 final size:40
Alignment explanation
Indices: 40205018--40205219 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
40205008 CAGAATTTAA
** *
40205018 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40205058 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40205098 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
40205136 CCGGA-ATTAGTAA-TCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
40205175 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40205215 CCGGA
1 CCGGA
40205220 CATCATTCGA
Statistics
Matches: 139, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
37 18 0.13
38 16 0.12
39 18 0.13
40 76 0.55
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40213324 original size:39 final size:40
Alignment explanation
Indices: 40213187--40213369 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
40213177 GCTACTCGTT
* *
40213187 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCA
* * *
40213227 TAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGAATATAGTAACTCGCA
*
40213267 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAA-TCGCA
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
40213305 CAAATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
40213346 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
40213370 CATCATTCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 20 0.16
39 40 0.32
40 56 0.45
41 8 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:40213354 original size:78 final size:80
Alignment explanation
Indices: 40213187--40213369 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 80
40213177 GCTACTCGTT
* * *
40213187 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
40213251 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
**
40213267 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAA-TCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
40213329 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
*
40213346 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
40213370 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 50 0.55
79 23 0.25
80 15 0.16
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:40218828 original size:28 final size:28
Alignment explanation
Indices: 40218781--40218877 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
40218771 ATTTAAACCC
* *
40218781 TAGGGGT-ATATT-GGTAATTTTTCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
40218808 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
40218836 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
40218864 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
40218878 TGATCTACGC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 9 0.14
28 55 0.86
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:40219528 original size:27 final size:27
Alignment explanation
Indices: 40219498--40219559 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
40219488 GGGCAAAATG
40219498 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
40219525 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
40219552 GTAATTTT
1 GTAATTTT
40219560 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:40219572 original size:27 final size:27
Alignment explanation
Indices: 40219512--40219694 Score: 143
Period size: 27 Copynumber: 6.8 Consensus size: 27
40219502 TTTTACCCCA
* **
40219512 CAAGGGTATTTCAGTAATTTTACCCTA-
1 CAAGGGTATTTTAGTAATTTTA-CAAAC
* *
40219539 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
40219566 CATGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* ** *
40219593 AAAGGGTATTCCAGGAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
40219620 CAGGGGTATTTTGGTAGTTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** *** * *
40219647 TGAGGGTATTGCGGTAATATCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
40219674 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
40219695 GTAAATCGAG
Statistics
Matches: 115, Mismatches: 40, Indels: 2
0.73 0.25 0.01
Matches are distributed among these distances:
26 2 0.02
27 113 0.98
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:40219653 original size:54 final size:54
Alignment explanation
Indices: 40219552--40219708 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
40219542 GGGTATTTTA
* * * *
40219552 GTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTCCAG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATAGAGGGTATTCC-G
* * * * *
40219607 G-AATTTTACAAACCAGGGGTATTTTGGTAGTTTTACAAATTGAGGGTATTGCG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATAGAGGGTATTCCG
* * * * *
40219660 GTAATATCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATAGAGGGTA
40219709 AAACAGTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.02
54 82 0.96
55 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATAGAGGGTATTCCG
Found at i:40219693 original size:81 final size:81
Alignment explanation
Indices: 40219512--40219694 Score: 190
Period size: 81 Copynumber: 2.3 Consensus size: 81
40219502 TTTTACCCCA
** * *
40219512 CAAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAACCATGGGTATTG
* * * *
40219577 TGGTAATTTTATAAAC
66 CGGTAATATCACAAAC
* * * * * **
40219593 AAAGGGTATTCCAGGAATTTTA-CAAACCAGGGGTATTTTGGTAGTTTTACAAATTGA-GGGTAT
1 CAAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTACAAA-CCATGGGTAT
40219656 TGCGGTAATATCACAAAC
64 TGCGGTAATATCACAAAC
*
40219674 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTCAGTAATTTT
40219695 GTAAATCGAG
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 2 0.02
81 78 0.96
82 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAACCATGGGTATTG
CGGTAATATCACAAAC
Found at i:40219706 original size:27 final size:27
Alignment explanation
Indices: 40219686--40219918 Score: 184
Period size: 27 Copynumber: 8.6 Consensus size: 27
40219676 AGGGTATTTT
* *
40219686 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
40219713 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
40219740 AATAATTCTGTAAA-CTGAGGGTCAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* ** *
40219767 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
40219794 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* **
40219821 GGTAATTCTGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
40219848 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
40219875 AGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
40219902 GGTAATTTTGTAAATCA
1 AGTAATTCTGTAAATCA
40219919 GGAGTACTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 167 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:40219732 original size:54 final size:54
Alignment explanation
Indices: 40219686--40219917 Score: 220
Period size: 54 Copynumber: 4.3 Consensus size: 54
40219676 AGGGTATTTT
40219686 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
* * * * ** *
40219740 AATAATTCTGTAAA-CTGAGGGTCAAAC-GATAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTTTGTAAATC-GAGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAAC
* * * * **
40219794 GGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTAAAAC
1 AGTAATTTTGTAAATCGA-GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
* ** * * *
40219848 GGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAAC
*
40219902 GGTAATTTTGTAAATC
1 AGTAATTTTGTAAATC
40219918 AGGAGTACTT
Statistics
Matches: 147, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
53 4 0.03
54 141 0.96
55 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:40219761 original size:81 final size:80
Alignment explanation
Indices: 40219684--40219937 Score: 233
Period size: 81 Copynumber: 3.1 Consensus size: 80
40219674 CAAGGGTATT
**
40219684 TTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAATAATTCT
1 TTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCT
40219749 GTAAACTGAGGGTCAAA
66 GTAAA-TGAGGGT-AAA
** * * ** * * *
40219766 CGA-TAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCT
1 TTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCT
*
40219830 GTAAATCGGGGGTAAA
66 GTAAAT-GAGGGTAAA
*** ** * * * *
40219846 ACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAATGGTAATTT
1 TTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAACGGTAATTC
* **
40219910 TGTAAATCAGGAGTACT
65 TGTAAATGAGG-GTAAA
40219927 TTAGTAATTTT
1 TTAGTAATTTT
40219938 ACAAGTCGAG
Statistics
Matches: 133, Mismatches: 35, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
80 6 0.05
81 126 0.95
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (80 bp):
TTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCT
GTAAATGAGGGTAAA
Found at i:40222572 original size:16 final size:16
Alignment explanation
Indices: 40222547--40222597 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
40222537 TAAAATTTCT
40222547 AAAATCTAATAAAAATA
1 AAAAT-TAATAAAAATA
***
40222564 AAAATTAATTTCAATA
1 AAAATTAATAAAAATA
*
40222580 AAAATTAA-AAACATA
1 AAAATTAATAAAAATA
40222595 AAA
1 AAA
40222598 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAATAAAAATA
Found at i:40238767 original size:2 final size:2
Alignment explanation
Indices: 40238760--40238799 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
40238750 ATGTAAGCCC
40238760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40238800 CATTGGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40243304 original size:46 final size:46
Alignment explanation
Indices: 40243243--40243414 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
40243233 TATGCATGCT
* *
40243243 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATATGAGAGCC
* * *
40243289 AGTGTAAGACGTGTCTGGGACATCCATCAGCCTCTTGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTC--GATA-TGAGAGCC
* * * * * * *
40243337 AGTGTAAGACTTGTCTGGGACATGCATCGGCGTTGAGAGGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATATGAGAGCC
*
40243383 AGTGTAAGACATGTCTGGGACATACATCAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCC
40243415 GTGCAATCGA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 65 0.62
48 36 0.35
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATATGAGAGCC
Found at i:40243391 original size:94 final size:94
Alignment explanation
Indices: 40243243--40243414 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
40243233 TATGCATGCT
* * *
40243243 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGAGAGCCAGTGTAAGACGTGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGAGGAGAGCCAGTGTAAGACATGTCTGGG
*
40243308 ACATCCATCAGCCTCTTGATATTTAAGCC
66 ACATACATCAGCCTCTTGATATTTAAGCC
* * **** *
40243337 AGTGTAAGACTTGTCTGGGACATGCATCGGCGTTGAGAGGAGAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGAGGAGAGCCAGTGTAAGACATGTCTGGG
40243402 ACATACATCAGCC
66 ACATACATCAGCC
40243415 GTGCAATCGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAAGAGGAGAGCCAGTGTAAGACATGTCTGGG
ACATACATCAGCCTCTTGATATTTAAGCC
Done.