Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 91 of 172
Found at i:30474557 original size:26 final size:26
Alignment explanation
Indices: 30474521--30474574 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
30474511 ACAAGTATGC
30474521 TAACTTGTGAGTTTAAAGGTGTTGCA
1 TAACTTGTGAGTTTAAAGGTGTTGCA
*
30474547 TAACTTGTGAGTTTGAAGGTGTTGCA
1 TAACTTGTGAGTTTAAAGGTGTTGCA
30474573 TA
1 TA
30474575 GGCTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (26 bp):
TAACTTGTGAGTTTAAAGGTGTTGCA
Found at i:30476092 original size:37 final size:37
Alignment explanation
Indices: 30476051--30476147 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
30476041 TATTATAAAG
* ** **
30476051 GTTAGCTGATTTAAGATTGCAACCTATTTTTTTTTAA
1 GTTAGCTGATTTAAGATCGCAACCTAAATTTCATTAA
* * *
30476088 GTTAGTTGATTTAAGATCGCAGCCTAAATTTCATTGA
1 GTTAGCTGATTTAAGATCGCAACCTAAATTTCATTAA
*
30476125 GTTAGCTAATTTAAGATCGCAAC
1 GTTAGCTGATTTAAGATCGCAAC
30476148 TCCTAAAATA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (37 bp):
GTTAGCTGATTTAAGATCGCAACCTAAATTTCATTAA
Found at i:30477717 original size:36 final size:36
Alignment explanation
Indices: 30477670--30477751 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
30477660 TAATAACTAT
*
30477670 ATTTGAACATGCATTAACTCAATTAAATTCAATCTC
1 ATTTGAACATGCATTAACACAATTAAATTCAATCTC
30477706 ATTTGAACATGCATTAACACAATTAAATTCAATCTC
1 ATTTGAACATGCATTAACACAATTAAATTCAATCTC
*
30477742 ATTCGAACAT
1 ATTTGAACAT
30477752 CAAGAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (36 bp):
ATTTGAACATGCATTAACACAATTAAATTCAATCTC
Found at i:30477813 original size:34 final size:34
Alignment explanation
Indices: 30477775--30477930 Score: 161
Period size: 34 Copynumber: 4.6 Consensus size: 34
30477765 TTGTAAACAT
* *
30477775 ATTTGGTCATCATTGTAACATGCATAAA-AGCCAC
1 ATTTGGACATCATTATAACATGCA-AAACAGCCAC
* **
30477809 ATTTGGACATCATTATAACATGCAAAACAACCGT
1 ATTTGGACATCATTATAACATGCAAAACAGCCAC
* * *
30477843 ATTTGGACAGCATTTTAATATGCAAAACAGCCAC
1 ATTTGGACATCATTATAACATGCAAAACAGCCAC
* * * * * *
30477877 ATTTTGATAGCATTATAATATGCAAAACAACCAG
1 ATTTGGACATCATTATAACATGCAAAACAGCCAC
*
30477911 ATTTGGACAACATTATAACA
1 ATTTGGACATCATTATAACA
30477931 AGTAAAAATT
Statistics
Matches: 101, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 3 0.03
34 98 0.97
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (34 bp):
ATTTGGACATCATTATAACATGCAAAACAGCCAC
Found at i:30477866 original size:68 final size:69
Alignment explanation
Indices: 30477774--30477930 Score: 194
Period size: 68 Copynumber: 2.3 Consensus size: 69
30477764 TTTGTAAACA
* * *
30477774 TATTTGGTCATCATTGTAACATGCATAAA-AGCCACATTTGGACATCATTATAACATGCAAAACA
1 TATTTGGACAACATTGTAACATGCA-AAACAGCCACATTTGGACAGCATTATAACATGCAAAACA
30477838 ACC-G
65 ACCAG
* * * * * *
30477842 TATTTGGACAGCATTTTAATATGCAAAACAGCCACATTTTGATAGCATTATAATATGCAAAACAA
1 TATTTGGACAACATTGTAACATGCAAAACAGCCACATTTGGACAGCATTATAACATGCAAAACAA
30477907 CCAG
66 CCAG
*
30477911 -ATTTGGACAACATTATAACA
1 TATTTGGACAACATTGTAACA
30477931 AGTAAAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 3 0.04
68 72 0.95
69 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (69 bp):
TATTTGGACAACATTGTAACATGCAAAACAGCCACATTTGGACAGCATTATAACATGCAAAACAA
CCAG
Found at i:30481462 original size:46 final size:46
Alignment explanation
Indices: 30481394--30481481 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
30481384 TATATATACA
* * *
30481394 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
30481440 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACA
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACA
30481482 CATATACACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.32
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:30481522 original size:47 final size:47
Alignment explanation
Indices: 30481458--30481700 Score: 317
Period size: 47 Copynumber: 5.1 Consensus size: 47
30481448 ACACGTTTCG
* * * * *
30481458 CATTAGCCATTCGGCCTTACCACACATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTCATCA
* *
30481505 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
30481552 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCC
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * *
30481599 CATTGGTCATTCGGCCTTGTCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
30481646 CATTGGCCATTCGGCCTTATCACACATATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAC----ATATGCATGTTCACATTCATCA
30481697 CATT
1 CATT
30481701 AAATCCTAAA
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 148 0.86
51 24 0.14
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:30486187 original size:12 final size:12
Alignment explanation
Indices: 30486172--30486196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30486162 TTCTTTGACA
30486172 TACCCGTTGAAT
1 TACCCGTTGAAT
30486184 TACCCGTTGAAT
1 TACCCGTTGAAT
30486196 T
1 T
30486197 TCACGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (12 bp):
TACCCGTTGAAT
Found at i:30486379 original size:42 final size:42
Alignment explanation
Indices: 30486298--30486466 Score: 214
Period size: 42 Copynumber: 4.0 Consensus size: 42
30486288 TGTAATCTAG
* ** *
30486298 TATCGATGCCAATAGCCCAGCTATGTTCTTACACGAAGTCTCA
1 TATCGATGCC-ATATCCCAAATATGGTCTTACACGAAGTCTCA
*
30486341 TATCGATGCCATATCCCAAATATGGTCTTACACAAAGTCTCA
1 TATCGATGCCATATCCCAAATATGGTCTTACACGAAGTCTCA
* * *
30486383 TATCGATGCCATATCCTAAATATAGTCTTATACGAAGTCTCA
1 TATCGATGCCATATCCCAAATATGGTCTTACACGAAGTCTCA
* * *
30486425 TATTGATACCATATCCCAGATATGGTCTTACACGTAA-TCTCA
1 TATCGATGCCATATCCCAAATATGGTCTTACACG-AAGTCTCA
30486467 GTAACCCTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 98 0.89
43 12 0.11
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (42 bp):
TATCGATGCCATATCCCAAATATGGTCTTACACGAAGTCTCA
Found at i:30486466 original size:84 final size:86
Alignment explanation
Indices: 30486264--30486469 Score: 242
Period size: 84 Copynumber: 2.4 Consensus size: 86
30486254 CGTACCAATG
* * * * **
30486264 CCATATCCTAGATATCGTATTACATGTAATCT-AGTATCGATGCCAATAGCCCAGCTATGTTCTT
1 CCATATCCCAGATATGGTCTTACACGTAATCTCAGTATCGATGCCAATAGCCCAAATATGTTCTT
*
30486328 ACACGAAGTCTCATATCGATG
66 ACACGAAGTCTCATATCGATA
* * * *
30486349 CCATATCCCAAATATGGTCTTACAC-AAAGTCTCA-TATCGATGCC-ATATCCTAAATATAG-TC
1 CCATATCCCAGATATGGTCTTACACGTAA-TCTCAGTATCGATGCCAATAGCCCAAATAT-GTTC
* *
30486410 TTATACGAAGTCTCATATTGATA
64 TTACACGAAGTCTCATATCGATA
30486433 CCATATCCCAGATATGGTCTTACACGTAATCTCAGTA
1 CCATATCCCAGATATGGTCTTACACGTAATCTCAGTA
30486470 ACCCTAATGT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
84 62 0.61
85 38 0.38
86 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (86 bp):
CCATATCCCAGATATGGTCTTACACGTAATCTCAGTATCGATGCCAATAGCCCAAATATGTTCTT
ACACGAAGTCTCATATCGATA
Found at i:30489989 original size:58 final size:58
Alignment explanation
Indices: 30489927--30490042 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
30489917 GAGTGTTATA
*
30489927 TGCTTGATTTATTA-AAGGATGCAATATATGTTTATACTCACCTTATTGATATGTGGTT
1 TGCTTGATTTATTATAA-GATGCAATATATGTTGATACTCACCTTATTGATATGTGGTT
*
30489985 TGCTTGATTTATTATAAGATGCAATATATGTTGATACTCACCTTGTTGATATGTGGTT
1 TGCTTGATTTATTATAAGATGCAATATATGTTGATACTCACCTTATTGATATGTGGTT
30490043 GCCATGTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 53 0.96
59 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (58 bp):
TGCTTGATTTATTATAAGATGCAATATATGTTGATACTCACCTTATTGATATGTGGTT
Found at i:30501318 original size:43 final size:43
Alignment explanation
Indices: 30501244--30501327 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
30501234 TACTAAAATG
* *
30501244 TGCATAGTACAAACTAGATGACAGAATATAATTTTCTAATATA
1 TGCATAGTACAAACTAGAGGACAGAAGATAATTTTCTAATATA
* *
30501287 TGCATAGTACAAACTAGAGGGA-AGACGATAATTTTTTAATA
1 TGCATAGTACAAACTAGA-GGACAGAAGATAATTTTCTAATA
30501328 CAAAATTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (43 bp):
TGCATAGTACAAACTAGAGGACAGAAGATAATTTTCTAATATA
Found at i:30503352 original size:18 final size:19
Alignment explanation
Indices: 30503329--30503364 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30503319 GAATTAATTA
30503329 ATTAAAAATT-AATAAAAT
1 ATTAAAAATTAAATAAAAT
*
30503347 ATTAAATATTAAATAAAA
1 ATTAAAAATTAAATAAAA
30503365 AAATTCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAATTAAATAAAAT
Found at i:30503692 original size:17 final size:16
Alignment explanation
Indices: 30503666--30503697 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30503656 AATATGTTAT
30503666 TAAAATAAATAATAAA
1 TAAAATAAATAATAAA
30503682 TAAAATAAAATAATAA
1 TAAAAT-AAATAATAA
30503698 GAAATAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAAATAAATAATAAA
Found at i:30503696 original size:20 final size:21
Alignment explanation
Indices: 30503666--30503708 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
30503656 AATATGTTAT
*
30503666 TAAAATAAATAATAAATAAAA
1 TAAAATAAATAAGAAATAAAA
*
30503687 TAAAAT-AATAAGAAATAGAA
1 TAAAATAAATAAGAAATAAAA
30503707 TA
1 TA
30503709 GTAAAAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAATAAATAAGAAATAAAA
Found at i:30503747 original size:25 final size:25
Alignment explanation
Indices: 30503713--30503764 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30503703 AGAATAGTAA
30503713 AAGAGAATTATGTATTTTATTGATC
1 AAGAGAATTATGTATTTTATTGATC
30503738 AAGAGAATTATGTATTTTATTGATC
1 AAGAGAATTATGTATTTTATTGATC
30503763 AA
1 AA
30503765 TAAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.42
Consensus pattern (25 bp):
AAGAGAATTATGTATTTTATTGATC
Found at i:30507920 original size:26 final size:24
Alignment explanation
Indices: 30507891--30507958 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
30507881 CTTATGAGTG
*
30507891 TCCCGTTATATGGCTCTTTGTGAGCT
1 TCCCGTTA-ATGGCTCTTTGT-AACT
* *
30507917 TCCCAATTAAAGGCTCTTTGTAACT
1 TCCC-GTTAATGGCTCTTTGTAACT
*
30507942 TCCTGATTAATGGCTCT
1 TCCCG-TTAATGGCTCT
30507959 CTAGAGTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 16 0.47
26 15 0.44
27 3 0.09
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTTTGTAACT
Found at i:30507950 original size:25 final size:26
Alignment explanation
Indices: 30507902--30507958 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
30507892 CCCGTTATAT
*
30507902 GGCTCTTTGTGAGCTTCCCAATTAAA
1 GGCTCTTTGTGAACTTCCCAATTAAA
** *
30507928 GGCTCTTTGT-AACTTCCTGATTAAT
1 GGCTCTTTGTGAACTTCCCAATTAAA
30507953 GGCTCT
1 GGCTCT
30507959 CTAGAGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCCAATTAAA
Found at i:30507993 original size:24 final size:25
Alignment explanation
Indices: 30507938--30507993 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
30507928 GGCTCTTTGT
30507938 AACTTCCTGATTAATGGCTCTCTAG
1 AACTTCCTGATTAATGGCTCTCTAG
** *
30507963 AGTTTCCTGA-TAATGGCT-TGCTTG
1 AACTTCCTGATTAATGGCTCT-CTAG
30507987 AACTTCC
1 AACTTCC
30507994 CAAAATATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.04
24 16 0.64
25 8 0.32
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (25 bp):
AACTTCCTGATTAATGGCTCTCTAG
Found at i:30508078 original size:25 final size:24
Alignment explanation
Indices: 30508044--30508097 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
30508034 GGAGCTACCT
30508044 ATTATTGGCTCACACGAGCCTTCCCG
1 ATTA-TGGCTCACACGAG-CTTCCCG
* *
30508070 ATTATGGCTCTCATGAGCTTCCCG
1 ATTATGGCTCACACGAGCTTCCCG
30508094 -TTAT
1 ATTAT
30508098 ATAGCCCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 11 0.42
26 4 0.15
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.33
Consensus pattern (24 bp):
ATTATGGCTCACACGAGCTTCCCG
Found at i:30512725 original size:13 final size:13
Alignment explanation
Indices: 30512699--30512733 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30512689 CCTAGGGACA
* *
30512699 AGGGCGTGTGTCC
1 AGGGCATGTATCC
30512712 AGGGCATGTATCC
1 AGGGCATGTATCC
30512725 AGGGCATGT
1 AGGGCATGT
30512734 GAAGTCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (13 bp):
AGGGCATGTATCC
Found at i:30513999 original size:16 final size:18
Alignment explanation
Indices: 30513978--30514010 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30513968 CATATAAGCT
30513978 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
30513994 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
30514011 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 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:30514608 original size:43 final size:44
Alignment explanation
Indices: 30514497--30514710 Score: 210
Period size: 43 Copynumber: 4.9 Consensus size: 44
30514487 TTATCAAATT
* * *
30514497 ACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-TC
1 ACCGGCATTACAGCCTGCTAGG-CTCAAAGCCCGAATAGT-ATCTC
* * * *
30514539 ACCGGCATTTCA-CCTGATAGGCTCGAAGCCCG-ATA-TCATTTC
1 ACCGGCATTACAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTC
*
30514581 ATCGGCATTACAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTC
1 ACCGGCATTACAGCCTGCTAGGCTC-AAAGCCCGAATAGTATCTC
* *
30514626 ACCGGCATTTC-GCCTGCTAGGCTAAAAGCCCGAATAGTATCTC
1 ACCGGCATTACAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTC
* * *
30514669 ACTGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 ACCGGCATTACAGCCTGCTAGGCTCAAA-GCCCGAATAGTAT
30514711 TGTGCGATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 15
0.81 0.10 0.08
Matches are distributed among these distances:
40 2 0.01
41 11 0.08
42 29 0.20
43 40 0.28
44 33 0.23
45 29 0.20
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (44 bp):
ACCGGCATTACAGCCTGCTAGGCTCAAAGCCCGAATAGTATCTC
Found at i:30514648 original size:87 final size:85
Alignment explanation
Indices: 30514499--30514711 Score: 229
Period size: 88 Copynumber: 2.5 Consensus size: 85
30514489 ATCAAATTAC
* * *
30514499 CGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCATTCACCGGCATTTCACCTGATAGGC
1 CGGCATTACAGCCTGCTAGG-CTCAAAGCCCGAATAGT-ATTCACCGGCATTTCACCTGATAGGC
** *
30514561 TCGAAGCCCG-ATA-TCATTTCA
64 TAAAAGCCCGAATAGT-ATCTCA
* *
30514582 TCGGCATTACAGCCTGCTAGGCTCGAAAGCCCGAATAGTATCTCACCGGCATTTCGCCTGCTAGG
1 -CGGCATTACAGCCTGCTAGGCTC-AAAGCCCGAATAGTAT-TCACCGGCATTTCACCTGATAGG
30514647 CTAAAAGCCCGAATAGTATCTCA
63 CTAAAAGCCCGAATAGTATCTCA
* *
30514670 CTGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATT
1 C-GGCATTACAGCCTGCTAGGCTCAAA-GCCCGAATAGTATT
30514712 GTGCGATATT
Statistics
Matches: 110, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
84 8 0.07
85 22 0.20
86 2 0.02
87 36 0.33
88 41 0.37
89 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (85 bp):
CGGCATTACAGCCTGCTAGGCTCAAAGCCCGAATAGTATTCACCGGCATTTCACCTGATAGGCTA
AAAGCCCGAATAGTATCTCA
Found at i:30515573 original size:47 final size:47
Alignment explanation
Indices: 30515517--30515658 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
30515507 AAAATTTTCT
* *
30515517 TTAACTAAGTAACTTATCCGAAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
*
30515564 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
30515611 TTAACTAAGTAACTTATCCGAAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
30515657 TT
1 TT
30515659 TAAATTCAAC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 14 0.15
47 77 0.85
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
Found at i:30527181 original size:25 final size:26
Alignment explanation
Indices: 30527109--30527191 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 26
30527099 GTCCCGTTAT
* * *
30527109 ATGGCTTTTCGTGAGCTTCCTAATTA
1 ATGGCTCTCCGTGAGCTTCCTGATTA
* **
30527135 AAGGCTCTTTGTGAGCTTCCTGATTA
1 ATGGCTCTCCGTGAGCTTCCTGATTA
30527161 ATGGCTCTCCG-GAGCTTCCTGA-TA
1 ATGGCTCTCCGTGAGCTTCCTGATTA
30527185 ATGGCTC
1 ATGGCTC
30527192 GCTTGAACTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.18
25 11 0.22
26 30 0.60
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
ATGGCTCTCCGTGAGCTTCCTGATTA
Found at i:30527305 original size:23 final size:24
Alignment explanation
Indices: 30527259--30527306 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30527249 TACCTGTAAT
*
30527259 TGGCTCTCACAAGCTTTCCGATTA
1 TGGCTCTCACAAGCTTTCCCATTA
**
30527283 TGGCTCTCATGAG-TTTCCCATTA
1 TGGCTCTCACAAGCTTTCCCATTA
30527306 T
1 T
30527307 ATAGCCCAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.38
Consensus pattern (24 bp):
TGGCTCTCACAAGCTTTCCCATTA
Found at i:30530624 original size:22 final size:22
Alignment explanation
Indices: 30530596--30530641 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
30530586 AGATTTTCTA
30530596 AGGAAAATGATACTTGGTTTAG
1 AGGAAAATGATACTTGGTTTAG
30530618 AGGAAAATGATACTTGGTTTAG
1 AGGAAAATGATACTTGGTTTAG
30530640 AG
1 AG
30530642 AAGGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.30
Consensus pattern (22 bp):
AGGAAAATGATACTTGGTTTAG
Found at i:30531545 original size:19 final size:19
Alignment explanation
Indices: 30531518--30531554 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30531508 CAGTGAAATT
* *
30531518 TTTTTTTAGATTTATTAAC
1 TTTTGTTAGATTGATTAAC
30531537 TTTTGTTAGATTGATTAA
1 TTTTGTTAGATTGATTAA
30531555 TTTGCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (19 bp):
TTTTGTTAGATTGATTAAC
Found at i:30537278 original size:18 final size:18
Alignment explanation
Indices: 30537255--30537291 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
30537245 GAAAATTTTA
30537255 ACATTTTGATAGTTAATT
1 ACATTTTGATAGTTAATT
30537273 ACATTTTGATAGTTAATT
1 ACATTTTGATAGTTAATT
30537291 A
1 A
30537292 AGTGAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (18 bp):
ACATTTTGATAGTTAATT
Found at i:30538509 original size:42 final size:42
Alignment explanation
Indices: 30538417--30538523 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
30538407 AGTCAACTCA
* * * *
30538417 TATGAGTTTCAGTTTAACCCTTTTGGGTTTCAATTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCC
*** * * *
30538459 TCCAAGCTTCAGATTAACCCTTATGGGTTTCTATTCAGTTCC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCC
30538501 TATGAGCTTTC-GTTTAACCCTTA
1 TATGAGC-TTCAGTTTAACCCTTA
30538524 CAGGTTTCCG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 47 0.94
43 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCC
Found at i:30543764 original size:55 final size:55
Alignment explanation
Indices: 30543704--30543815 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
30543694 AAAAAGTCGA
* *
30543704 GAGATGATTTTAGTTGAGCCACTCCAATGTCAGAACGATCAAATAAAATTAAGGC
1 GAGATGATTTTAGTCGAGCCACTCCAATGCCAGAACGATCAAATAAAATTAAGGC
*
30543759 GAGATGATTTTAGTCGAGCCATTCCAATGCCAGAACGATCAAATAAAATTAAGGC
1 GAGATGATTTTAGTCGAGCCACTCCAATGCCAGAACGATCAAATAAAATTAAGGC
30543814 GA
1 GA
30543816 CTCAACAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (55 bp):
GAGATGATTTTAGTCGAGCCACTCCAATGCCAGAACGATCAAATAAAATTAAGGC
Found at i:30550734 original size:61 final size:61
Alignment explanation
Indices: 30550664--30550908 Score: 481
Period size: 61 Copynumber: 4.0 Consensus size: 61
30550654 CTATTTTCCT
*
30550664 TAAATTTATTTTTCTCTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
1 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
30550725 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
1 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
30550786 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
1 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
30550847 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
1 TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
30550908 T
1 T
30550909 TTTCGGGGGG
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 183 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (61 bp):
TAAATTTATTTTTCTTTGTGTTTTTCTAACCCACTTTTTTTCCAACATAAAGGCGATGCTC
Found at i:30550937 original size:122 final size:120
Alignment explanation
Indices: 30550689--30550937 Score: 320
Period size: 122 Copynumber: 2.0 Consensus size: 120
30550679 CTGTGTTTTT
30550689 CTAACCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTTCTAA
1 CTAACCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTTCTAA
***** ** ******
30550754 CCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTT
66 CCCACTTTTTTTCCAACATAAAGGCGATGCTCT--ATTTAGGGGGCAATGTACACCC
30550811 CTAACCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTTCTAA
1 CTAACCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTTCTAA
*
30550876 CCCACTTTTTTTCCAACATAAAGGCGATGCTCT-TTTCGGGGGGGCAATGTAACACCC
66 CCCACTTTTTTTCCAACATAAAGGCGATGCTCTATTT--AGGGGGCAATGT-ACACCC
30550933 CTAAC
1 CTAAC
30550938 TCGTGTATAT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
119 3 0.03
121 4 0.04
122 103 0.94
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (120 bp):
CTAACCCACTTTTTTTCCAACATAAAGGCGATGCTCTAAATTTATTTTTCTTTGTGTTTTTCTAA
CCCACTTTTTTTCCAACATAAAGGCGATGCTCTATTTAGGGGGCAATGTACACCC
Found at i:30551201 original size:22 final size:21
Alignment explanation
Indices: 30551158--30551211 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
30551148 TACAAGGCTC
* **
30551158 ACACGTCCGTGTGGTCCAAGG
1 ACACGCCCGTGTGACCCAAGG
*
30551179 AACACGCCCGTGTGACCCTAGG
1 -ACACGCCCGTGTGACCCAAGG
*
30551201 ACACGCTCGTG
1 ACACGCCCGTG
30551212 CTATAGGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCAAGG
Found at i:30552933 original size:7 final size:7
Alignment explanation
Indices: 30552921--30553864 Score: 1888
Period size: 7 Copynumber: 134.9 Consensus size: 7
30552911 AAGTAACATT
30552921 TTTATCA
1 TTTATCA
30552928 TTTATCA
1 TTTATCA
30552935 TTTATCA
1 TTTATCA
30552942 TTTATCA
1 TTTATCA
30552949 TTTATCA
1 TTTATCA
30552956 TTTATCA
1 TTTATCA
30552963 TTTATCA
1 TTTATCA
30552970 TTTATCA
1 TTTATCA
30552977 TTTATCA
1 TTTATCA
30552984 TTTATCA
1 TTTATCA
30552991 TTTATCA
1 TTTATCA
30552998 TTTATCA
1 TTTATCA
30553005 TTTATCA
1 TTTATCA
30553012 TTTATCA
1 TTTATCA
30553019 TTTATCA
1 TTTATCA
30553026 TTTATCA
1 TTTATCA
30553033 TTTATCA
1 TTTATCA
30553040 TTTATCA
1 TTTATCA
30553047 TTTATCA
1 TTTATCA
30553054 TTTATCA
1 TTTATCA
30553061 TTTATCA
1 TTTATCA
30553068 TTTATCA
1 TTTATCA
30553075 TTTATCA
1 TTTATCA
30553082 TTTATCA
1 TTTATCA
30553089 TTTATCA
1 TTTATCA
30553096 TTTATCA
1 TTTATCA
30553103 TTTATCA
1 TTTATCA
30553110 TTTATCA
1 TTTATCA
30553117 TTTATCA
1 TTTATCA
30553124 TTTATCA
1 TTTATCA
30553131 TTTATCA
1 TTTATCA
30553138 TTTATCA
1 TTTATCA
30553145 TTTATCA
1 TTTATCA
30553152 TTTATCA
1 TTTATCA
30553159 TTTATCA
1 TTTATCA
30553166 TTTATCA
1 TTTATCA
30553173 TTTATCA
1 TTTATCA
30553180 TTTATCA
1 TTTATCA
30553187 TTTATCA
1 TTTATCA
30553194 TTTATCA
1 TTTATCA
30553201 TTTATCA
1 TTTATCA
30553208 TTTATCA
1 TTTATCA
30553215 TTTATCA
1 TTTATCA
30553222 TTTATCA
1 TTTATCA
30553229 TTTATCA
1 TTTATCA
30553236 TTTATCA
1 TTTATCA
30553243 TTTATCA
1 TTTATCA
30553250 TTTATCA
1 TTTATCA
30553257 TTTATCA
1 TTTATCA
30553264 TTTATCA
1 TTTATCA
30553271 TTTATCA
1 TTTATCA
30553278 TTTATCA
1 TTTATCA
30553285 TTTATCA
1 TTTATCA
30553292 TTTATCA
1 TTTATCA
30553299 TTTATCA
1 TTTATCA
30553306 TTTATCA
1 TTTATCA
30553313 TTTATCA
1 TTTATCA
30553320 TTTATCA
1 TTTATCA
30553327 TTTATCA
1 TTTATCA
30553334 TTTATCA
1 TTTATCA
30553341 TTTATCA
1 TTTATCA
30553348 TTTATCA
1 TTTATCA
30553355 TTTATCA
1 TTTATCA
30553362 TTTATCA
1 TTTATCA
30553369 TTTATCA
1 TTTATCA
30553376 TTTATCA
1 TTTATCA
30553383 TTTATCA
1 TTTATCA
30553390 TTTATCA
1 TTTATCA
30553397 TTTATCA
1 TTTATCA
30553404 TTTATCA
1 TTTATCA
30553411 TTTATCA
1 TTTATCA
30553418 TTTATCA
1 TTTATCA
30553425 TTTATCA
1 TTTATCA
30553432 TTTATCA
1 TTTATCA
30553439 TTTATCA
1 TTTATCA
30553446 TTTATCA
1 TTTATCA
30553453 TTTATCA
1 TTTATCA
30553460 TTTATCA
1 TTTATCA
30553467 TTTATCA
1 TTTATCA
30553474 TTTATCA
1 TTTATCA
30553481 TTTATCA
1 TTTATCA
30553488 TTTATCA
1 TTTATCA
30553495 TTTATCA
1 TTTATCA
30553502 TTTATCA
1 TTTATCA
30553509 TTTATCA
1 TTTATCA
30553516 TTTATCA
1 TTTATCA
30553523 TTTATCA
1 TTTATCA
30553530 TTTATCA
1 TTTATCA
30553537 TTTATCA
1 TTTATCA
30553544 TTTATCA
1 TTTATCA
30553551 TTTATCA
1 TTTATCA
30553558 TTTATCA
1 TTTATCA
30553565 TTTATCA
1 TTTATCA
30553572 TTTATCA
1 TTTATCA
30553579 TTTATCA
1 TTTATCA
30553586 TTTATCA
1 TTTATCA
30553593 TTTATCA
1 TTTATCA
30553600 TTTATCA
1 TTTATCA
30553607 TTTATCA
1 TTTATCA
30553614 TTTATCA
1 TTTATCA
30553621 TTTATCA
1 TTTATCA
30553628 TTTATCA
1 TTTATCA
30553635 TTTATCA
1 TTTATCA
30553642 TTTATCA
1 TTTATCA
30553649 TTTATCA
1 TTTATCA
30553656 TTTATCA
1 TTTATCA
30553663 TTTATCA
1 TTTATCA
30553670 TTTATCA
1 TTTATCA
30553677 TTTATCA
1 TTTATCA
30553684 TTTATCA
1 TTTATCA
30553691 TTTATCA
1 TTTATCA
30553698 TTTATCA
1 TTTATCA
30553705 TTTATCA
1 TTTATCA
30553712 TTTATCA
1 TTTATCA
30553719 TTTATCA
1 TTTATCA
30553726 TTTATCA
1 TTTATCA
30553733 TTTATCA
1 TTTATCA
30553740 TTTATCA
1 TTTATCA
30553747 TTTATCA
1 TTTATCA
30553754 TTTATCA
1 TTTATCA
30553761 TTTATCA
1 TTTATCA
30553768 TTTATCA
1 TTTATCA
30553775 TTTATCA
1 TTTATCA
30553782 TTTATCA
1 TTTATCA
30553789 TTTATCA
1 TTTATCA
30553796 TTTATCA
1 TTTATCA
30553803 TTTATCA
1 TTTATCA
30553810 TTTATCA
1 TTTATCA
30553817 TTTATCA
1 TTTATCA
30553824 TTTATCA
1 TTTATCA
30553831 TTTATCA
1 TTTATCA
30553838 TTTATCA
1 TTTATCA
30553845 TTTATCA
1 TTTATCA
30553852 TTTATCA
1 TTTATCA
30553859 TTTATC
1 TTTATC
30553865 GGCATTATTA
Statistics
Matches: 937, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 937 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTATCA
Found at i:30557684 original size:42 final size:42
Alignment explanation
Indices: 30557630--30557774 Score: 136
Period size: 42 Copynumber: 3.4 Consensus size: 42
30557620 TGCCAACATC
*
30557630 CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGT
1 CCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGT
* * * * *
30557672 CCAGACAG-GGTCTTACACGAAAACATATAT-AATGCCAATGT
1 CCAGAC-GTGGTCTTACACGTAATCAAATATCGATGCCACTGT
* *
30557713 CCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTT
1 -CCAGACGTGGTCTTACACGT-AATC-AAATATCGATGCC-ACTG-T
30557758 CCAGACGTGGTCTTACA
1 CCAGACGTGGTCTTACA
30557775 TGATAACTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
41 9 0.11
42 41 0.51
43 6 0.07
44 23 0.28
45 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGT
Found at i:30561583 original size:31 final size:31
Alignment explanation
Indices: 30561548--30561613 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
30561538 GGGACACGCC
30561548 GTGTGGGTAGGCCGTGTGGTCACACAAGCCT
1 GTGTGGGTAGGCCGTGTGGTCACACAAGCCT
*
30561579 GTGTGGGTAGGCCGTGTGGTCACACACGCCT
1 GTGTGGGTAGGCCGTGTGGTCACACAAGCCT
30561610 GTGT
1 GTGT
30561614 CCCTAACCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.39, T:0.24
Consensus pattern (31 bp):
GTGTGGGTAGGCCGTGTGGTCACACAAGCCT
Found at i:30562828 original size:42 final size:42
Alignment explanation
Indices: 30562722--30562843 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
30562712 TACCATACCA
* * *
30562722 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * *
30562764 ATGCCAATAGCCCAGATGTGGTCTTACACG-AAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
* * *
30562807 ATGTCATATCCCAGACATGGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
30562844 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:30563181 original size:16 final size:16
Alignment explanation
Indices: 30563160--30563205 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
30563150 AATTCAACCC
30563160 AAAAATTACATTTTGG
1 AAAAATTACATTTTGG
30563176 AAAAATTACATTTTGG
1 AAAAATTACATTTTGG
*
30563192 GAAAATTACATTTT
1 AAAAATTACATTTT
30563206 ACCCCTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (16 bp):
AAAAATTACATTTTGG
Found at i:30585755 original size:42 final size:42
Alignment explanation
Indices: 30585643--30585762 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 42
30585633 TACCATACCA
* *
30585643 ATGCCATATCCTAGATATGGTCTTACATGTAATCTAGTGTCG
1 ATGCCATATCCTAGATATGGTCTTACAAGTAATCTAGTATCG
* * * *
30585685 ATGACAATAGCCCAGCTATGGTCTTACAAG-AAGTCTCA-TATCG
1 ATG-CCATATCCTAGATATGGTCTTACAAGTAA-TCT-AGTATCG
30585728 ATGCCATATCCTAGATATGGTCTTACAAGTAATCT
1 ATGCCATATCCTAGATATGGTCTTACAAGTAATCT
30585763 TAACAACCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 30 0.47
43 33 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACAAGTAATCTAGTATCG
Found at i:30588416 original size:21 final size:20
Alignment explanation
Indices: 30588387--30588428 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
30588377 CGAAATGCAA
30588387 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
30588408 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
30588428 T
1 T
30588429 AAACATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:30589299 original size:22 final size:22
Alignment explanation
Indices: 30589271--30589314 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30589261 GAAAGTAATC
30589271 AAAATTAATCAAGAATT-ATTAT
1 AAAATTAATCAA-AATTCATTAT
*
30589293 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
30589315 GTTAATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:30590512 original size:53 final size:53
Alignment explanation
Indices: 30590445--30590570 Score: 182
Period size: 53 Copynumber: 2.4 Consensus size: 53
30590435 TTGGCGGACA
* *
30590445 ACCCCATTTTTATTGTCCTAGCAGACTATCCATGTTTAAT-GTCCTGGCAAACT
1 ACCCTATTTTTATTGTCCTAGCAGACTATCCATGTTT-ATCATCCTGGCAAACT
* *
30590498 ACCCTATTTTTATTGTCCTAGCAGACTATTCATGTTTATCATCCTGGCAGACT
1 ACCCTATTTTTATTGTCCTAGCAGACTATCCATGTTTATCATCCTGGCAAACT
* *
30590551 ACCCTGTGTTTATTGTCCTA
1 ACCCTATTTTTATTGTCCTA
30590571 ATAGACTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 2 0.03
53 64 0.97
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (53 bp):
ACCCTATTTTTATTGTCCTAGCAGACTATCCATGTTTATCATCCTGGCAAACT
Found at i:30590515 original size:27 final size:26
Alignment explanation
Indices: 30590447--30590570 Score: 122
Period size: 26 Copynumber: 4.7 Consensus size: 26
30590437 GGCGGACAAC
*
30590447 CCCATTTTTATTGTCCTAGCAGACTA
1 CCCATGTTTATTGTCCTAGCAGACTA
* * * *
30590473 TCCATGTTTAATGTCCTGGCAAACTA
1 CCCATGTTTATTGTCCTAGCAGACTA
*
30590499 CCCTATTTTTATTGTCCTAGCAGACTA
1 CCC-ATGTTTATTGTCCTAGCAGACTA
** ** *
30590526 TTCATGTTTATCATCCTGGCAGACTA
1 CCCATGTTTATTGTCCTAGCAGACTA
*
30590552 CCCTGTGTTTATTGTCCTA
1 CCC-ATGTTTATTGTCCTA
30590571 ATAGACTCCA
Statistics
Matches: 74, Mismatches: 22, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
26 43 0.58
27 31 0.42
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (26 bp):
CCCATGTTTATTGTCCTAGCAGACTA
Found at i:30595626 original size:26 final size:27
Alignment explanation
Indices: 30595597--30595648 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
30595587 GTGATTTTTA
*
30595597 TAGATTCACAGTGG-TTTTTTTTTTGG
1 TAGATTCACAGTGGATTTTTTATTTGG
*
30595623 TAGATTCATAGTGGATTTTTTATTTG
1 TAGATTCACAGTGGATTTTTTATTTG
30595649 AGATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.19, C:0.06, G:0.21, T:0.54
Consensus pattern (27 bp):
TAGATTCACAGTGGATTTTTTATTTGG
Found at i:30596645 original size:28 final size:28
Alignment explanation
Indices: 30596605--30596661 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
30596595 TCAAGTTTTT
30596605 CCTACCTAACCTTAGCTACTTGATACTA
1 CCTACCTAACCTTAGCTACTTGATACTA
30596633 CCTACCTAACCTTAGCTACTTGATACTA
1 CCTACCTAACCTTAGCTACTTGATACTA
30596661 C
1 C
30596662 ATCTTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.32
Consensus pattern (28 bp):
CCTACCTAACCTTAGCTACTTGATACTA
Found at i:30601411 original size:28 final size:28
Alignment explanation
Indices: 30601371--30601440 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
30601361 ATAGTAAGTC
*
30601371 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
30601399 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
30601427 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30601441 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:30606698 original size:30 final size:30
Alignment explanation
Indices: 30606662--30606743 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
30606652 TGAGAAAATG
*
30606662 ACATTTACATGTCCATACGGTATGTTTACA
1 ACATTTACATGTCCATACGGTAAGTTTACA
**
30606692 ACATTTACATGTCCATACGGTAAGTTTATG
1 ACATTTACATGTCCATACGGTAAGTTTACA
30606722 ACATTTACATGTCCATACGGTA
1 ACATTTACATGTCCATACGGTA
30606744 CGTTGACTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (30 bp):
ACATTTACATGTCCATACGGTAAGTTTACA
Found at i:30617880 original size:24 final size:22
Alignment explanation
Indices: 30617853--30617910 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
30617843 TTTCAATTTG
*
30617853 TTTTTCATTTTATTTTATTTTTA
1 TTTTTCATTTT-TTTTATCTTTA
30617876 TTTTTGCATTTCTTTTTATCTTTA
1 TTTTT-CATTT-TTTTTATCTTTA
*
30617900 TTTATCATTTT
1 TTTTTCATTTT
30617911 CTTAAAAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 1 0.03
23 10 0.32
24 19 0.61
25 1 0.03
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTCATTTTTTTTATCTTTA
Found at i:30631768 original size:23 final size:23
Alignment explanation
Indices: 30631714--30631817 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 23
30631704 GAGCAATATT
* *
30631714 CGGTAAGCTCCTCTTGAACTGATGAA
1 CGGTAAGCT-CTATTGAGCTGA--AA
*
30631740 CAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
30631763 CGGTAAGCTCT-TTCGAGCTG-AA
1 CGGTAAGCTCTATT-GAGCTGAAA
* * *
30631785 CAGTATGCTC-ATACGAGCTGAAA
1 CGGTAAGCTCTAT-TGAGCTGAAA
*
30631808 TGGTAAGCTC
1 CGGTAAGCTC
30631818 CAATGAGATA
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
22 19 0.30
23 27 0.42
25 10 0.16
26 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCTATTGAGCTGAAA
Found at i:30631801 original size:22 final size:21
Alignment explanation
Indices: 30631736--30631806 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
30631726 CTTGAACTGA
*
30631736 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTA-CGAGC
* *
30631758 TGAAACGGTAAGCTCTTTCGAGC
1 TG-AACAGTAAGCTC-TACGAGC
*
30631781 TGAACAGTATGCTCATACGAGC
1 TGAACAGTAAGCTC-TACGAGC
30631803 TGAA
1 TGAA
30631807 ATGGTAAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 22 0.55
23 17 0.43
24 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAACAGTAAGCTCTACGAGC
Found at i:30635816 original size:43 final size:43
Alignment explanation
Indices: 30635755--30635903 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 43
30635745 CAATGTCAAC
*
30635755 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACATGTAATTCAATATCGATGCCTAT
** * * *
30635798 GTCCCAGACAGGGTCTTACA-CAAAATC-ATATACGATACCAAT
1 GTCCCAGACAGGGTCTTACATGTAATTCAATAT-CGATGCCTAT
* * *
30635840 GTCCCAGACATGGTCTTACATGTAAATCTCAA-ATCGAAGCCTGT
1 GTCCCAGACAGGGTCTTACATGT-AAT-TCAATATCGATGCCTAT
* *
30635884 GTCCCAGATACGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
30635904 CGATATTTCA
Statistics
Matches: 84, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.05
42 30 0.36
43 18 0.21
44 27 0.32
45 4 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAATTCAATATCGATGCCTAT
Found at i:30644303 original size:99 final size:100
Alignment explanation
Indices: 30644122--30644361 Score: 313
Period size: 99 Copynumber: 2.4 Consensus size: 100
30644112 TCTATTGTGA
* * *
30644122 GGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
30644187 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** * *
30644222 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
*
30644285 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
30644321 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
30644362 AAATAGCTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 35 0.29
99 45 0.38
100 1 0.01
101 39 0.32
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:30644361 original size:49 final size:49
Alignment explanation
Indices: 30644129--30644353 Score: 297
Period size: 49 Copynumber: 4.5 Consensus size: 49
30644119 TGAGGTCGCA
* * * * * *
30644129 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
30644180 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
30644230 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
30644279 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
30644328 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
30644354 TGCGTACCAA
Statistics
Matches: 155, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 79 0.51
50 44 0.28
51 32 0.21
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:30647928 original size:46 final size:46
Alignment explanation
Indices: 30647869--30648042 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
30647859 ACCTCTAGTA
* * *
30647869 GCCGATGCATGTCCCAAACATGTCTTACACTAGC-TTACGTCTCGAG
1 GCCGAAGCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAAG
* * * *
30647915 GCTGAAGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGAAGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAG
* *
30647961 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GC-CTC-TCATAATATG
1 GCCGAAG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGTC-TCA-A-G
* *
30648009 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGAAGCATGTCCCAAACATGTCTTACACTAGC
30648043 TAACAGAAGT
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.02
46 57 0.53
47 31 0.29
48 17 0.16
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGAAGCATGTCCCAAACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:30659529 original size:17 final size:17
Alignment explanation
Indices: 30659507--30659542 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
30659497 AAATACTCGG
30659507 ATATCTTTATTAAGACC
1 ATATCTTTATTAAGACC
30659524 ATATCTTTATTAAGACC
1 ATATCTTTATTAAGACC
30659541 AT
1 AT
30659543 CCTAGAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATCTTTATTAAGACC
Found at i:30668172 original size:28 final size:28
Alignment explanation
Indices: 30668131--30668195 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
30668121 CGTGTCCCTG
**
30668131 ACCCGTGTCCTTCACACGACTTAGACAC
1 ACCCGTGTCCTTCACACGACCAAGACAC
*
30668159 GCCCGTGTCCTTCACACGACCAAGACAC
1 ACCCGTGTCCTTCACACGACCAAGACAC
30668187 ACCCGTGTC
1 ACCCGTGTC
30668196 GTTGCCCGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.18
Consensus pattern (28 bp):
ACCCGTGTCCTTCACACGACCAAGACAC
Found at i:30673597 original size:15 final size:15
Alignment explanation
Indices: 30673579--30673622 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
30673569 GAAGCCCAGA
30673579 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
30673594 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
30673609 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
30673623 TTTACAGCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30680083 original size:40 final size:40
Alignment explanation
Indices: 30680035--30680184 Score: 264
Period size: 40 Copynumber: 3.8 Consensus size: 40
30680025 GCAAACACAT
* *
30680035 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30680075 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30680115 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30680155 TTGCCTTCGGGTCTTAGCCCGGATATATCA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCA
30680185 CAATGCTCAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30694912 original size:49 final size:49
Alignment explanation
Indices: 30694823--30694942 Score: 208
Period size: 49 Copynumber: 2.5 Consensus size: 49
30694813 AGTACTCAGG
30694823 CCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGC
1 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGC
*
30694870 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
1 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGC
*
30694919 CCATTAGGCCTTGTCACATATATA
1 CCATTAGGCCTTATCACATATATA
30694943 ATTCGGCCTT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
47 17 0.25
49 52 0.75
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGC
Found at i:30700712 original size:67 final size:64
Alignment explanation
Indices: 30700605--30700768 Score: 204
Period size: 67 Copynumber: 2.5 Consensus size: 64
30700595 AACACTTAGT
* * * * * *
30700605 ACCACCCATGTGACCTAGCCAC-TTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTATACATC-CC--
30700669 GA
63 GA
* *
30700671 ACCACACATGCGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGT
1 ACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
* *
30700735 ATCACACATGTGACCTAGCTATATTTATCCCGTA
1 ACCACACATGTGACCTAGCTACATTTATCCCGTA
30700769 TCTTTCGATT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 32 0.37
66 21 0.24
67 33 0.38
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.31
Consensus pattern (64 bp):
ACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTATACATCCCGA
Found at i:30701716 original size:219 final size:219
Alignment explanation
Indices: 30701337--30701771 Score: 861
Period size: 219 Copynumber: 2.0 Consensus size: 219
30701327 ATATTCTACA
30701337 ATCAAACATCAAAATACATGCATACCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAA
1 ATCAAACATCAAAATACATGCATACCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAA
30701402 ATAATGGTACAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATGTAAAGAACATTAAAAACGG
66 ATAATGGTACAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATGTAAAGAACATTAAAAACGG
30701467 GGCTTGAATGCACTTACTATTGAGCTTGAAAGCTTGGAAAAACCCTAGCTATGGTGAACATACAA
131 GGCTTGAATGCACTTACTATTGAGCTTGAAAGCTTGGAAAAACCCTAGCTATGGTGAACATACAA
*
30701532 GTTTCGGCCAAGGAAGAAGATAGC
196 GTTTCAGCCAAGGAAGAAGATAGC
30701556 ATCAAACATCAAAATACATGCATACCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAA
1 ATCAAACATCAAAATACATGCATACCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAA
30701621 ATAATGGTACAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATGTAAAGAACATTAAAAACGG
66 ATAATGGTACAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATGTAAAGAACATTAAAAACGG
30701686 GGCTTGAATGCACTTACTATTGAGCTTGAAAGCTTGGAAAAACCCTAGCTATGGTGAACATACAA
131 GGCTTGAATGCACTTACTATTGAGCTTGAAAGCTTGGAAAAACCCTAGCTATGGTGAACATACAA
30701751 GTTTCAGCCAAGGAAGAAGAT
196 GTTTCAGCCAAGGAAGAAGAT
30701772 GGATGGTTAA
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 215 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (219 bp):
ATCAAACATCAAAATACATGCATACCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAA
ATAATGGTACAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATGTAAAGAACATTAAAAACGG
GGCTTGAATGCACTTACTATTGAGCTTGAAAGCTTGGAAAAACCCTAGCTATGGTGAACATACAA
GTTTCAGCCAAGGAAGAAGATAGC
Found at i:30706270 original size:23 final size:23
Alignment explanation
Indices: 30706236--30706340 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
30706226 TGAGCTGATG
30706236 AACAGTAAGCTCTATTGAGCTAA
1 AACAGTAAGCTCTATTGAGCTAA
* * *
30706259 AACGGTAAGCTCTTTTGAGCT-G
1 AACAGTAAGCTCTATTGAGCTAA
*
30706281 AACAGTAAGCTC-ATATGAGCTGA
1 AACAGTAAGCTCTAT-TGAGCTAA
* * *
30706304 AACGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCT-AA
30706328 AACAGTAAGCTCT
1 AACAGTAAGCTCT
30706341 TACGAGCTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.01
22 17 0.25
23 36 0.54
24 13 0.19
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTAA
Found at i:30706287 original size:45 final size:46
Alignment explanation
Indices: 30706234--30706348 Score: 146
Period size: 45 Copynumber: 2.5 Consensus size: 46
30706224 CCTGAGCTGA
***
30706234 TGAACAGTAAGCTCTAT-TGAGCTAAAACGGTAAGCTCTTTTGAGC
1 TGAACAGTAAGCTCTATATGAGCTAAAACGGTAAGCTCCAATGAGC
*
30706279 TGAACAGTAAGCTC-ATATGAGCTGAAACGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTATATGAGCTAAAACGGTAAGCTCCAATGAGC
*
30706324 TGAAAACAGTAAGCTCT-TACGAGCT
1 TG--AACAGTAAGCTCTATATGAGCT
30706349 GATATATTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 2 0.03
45 40 0.66
47 19 0.31
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (46 bp):
TGAACAGTAAGCTCTATATGAGCTAAAACGGTAAGCTCCAATGAGC
Found at i:30707012 original size:21 final size:21
Alignment explanation
Indices: 30706970--30707012 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30706960 GAACTTGTAT
* *
30706970 ATCTACCATTAAACTTTCAAA
1 ATCTACCATTAAACATTAAAA
*
30706991 ATCTTCCATTAAACATTAAAA
1 ATCTACCATTAAACATTAAAA
30707012 A
1 A
30707013 ACTCAAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCTACCATTAAACATTAAAA
Found at i:30720680 original size:21 final size:21
Alignment explanation
Indices: 30720654--30720705 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
30720644 ATTTGAGTAC
*
30720654 TTTTTTATTTCA-TTTTTTTA
1 TTTTTTATTTCAGTTTTTATA
*
30720674 TTATTTTAATTTTAGTTTTTATA
1 TT-TTTT-ATTTCAGTTTTTATA
30720697 TTTTTTATT
1 TTTTTTATT
30720706 GAATAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.07
21 7 0.26
22 9 0.33
23 9 0.33
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTTATTTCAGTTTTTATA
Found at i:30729333 original size:22 final size:22
Alignment explanation
Indices: 30729308--30729352 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
30729298 TTGCGATTTC
*
30729308 TGTTAGTACACATTCTTGGTCA
1 TGTTAGTACACACTCTTGGTCA
30729330 TGTTAGTACACACTCTTGGTCA
1 TGTTAGTACACACTCTTGGTCA
30729352 T
1 T
30729353 ATTTGCTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (22 bp):
TGTTAGTACACACTCTTGGTCA
Found at i:30729524 original size:18 final size:18
Alignment explanation
Indices: 30729498--30729532 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30729488 ACTCCCAATC
30729498 AATCCGATCTCTCGGCAA
1 AATCCGATCTCTCGGCAA
* *
30729516 AATCTGATCTCTTGGCA
1 AATCCGATCTCTCGGCA
30729533 TTTCAAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (18 bp):
AATCCGATCTCTCGGCAA
Found at i:30733245 original size:45 final size:45
Alignment explanation
Indices: 30733177--30733288 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
30733167 TGAACATACT
* *
30733177 TCATTTGAATTCAT-CATTTCCTTTCCATGAATATAGGATATAGC
1 TCATTTGAATACATACATTTCCTTTCCATGAATACAGGATATAGC
* *
30733221 TCATTTGAATACTTACATTTCCTTTCCATGAATACAGGATATAGT
1 TCATTTGAATACATACATTTCCTTTCCATGAATACAGGATATAGC
*
30733266 TCATTGGAATACATACATTTCCT
1 TCATTTGAATACATACATTTCCT
30733289 CTTCTTTTCC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 12 0.20
45 49 0.80
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (45 bp):
TCATTTGAATACATACATTTCCTTTCCATGAATACAGGATATAGC
Found at i:30735544 original size:26 final size:26
Alignment explanation
Indices: 30735515--30735622 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
30735505 TGATACAAAT
*
30735515 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30735541 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30735567 TGTTAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30735593 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30735619 TGAT
1 TGAT
30735623 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30739760 original size:40 final size:40
Alignment explanation
Indices: 30739705--30739787 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
30739695 TTTGGCTACG
* *
30739705 GGCCATGATATAGGTA-TTCATAGAGGAGTTACCTTGGTTT
1 GGCCATGATATAGGTACTTCA-AAAGGAGTTACCTTGATTT
* *
30739745 GGCCATGGTATAGGTACTTCAAAATGAGTTACCTTGATTT
1 GGCCATGATATAGGTACTTCAAAAGGAGTTACCTTGATTT
30739785 GGC
1 GGC
30739788 TTCGGGCCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (40 bp):
GGCCATGATATAGGTACTTCAAAAGGAGTTACCTTGATTT
Found at i:30741047 original size:43 final size:43
Alignment explanation
Indices: 30740951--30741048 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
30740941 ATGGCTTAAG
* *
30740951 ACACAGGCGTGTCTAGTGGCTGTGTGAGGCAGATGGTCTATTC
1 ACACAGGCGTGTCTAGTGGCCGTGTGAGGCACATGGTCTATTC
* * * * *
30740994 ATACGGGCGTGTCTGGTGGCCGTGTGAGGTACATGGTCTGTTC
1 ACACAGGCGTGTCTAGTGGCCGTGTGAGGCACATGGTCTATTC
*
30741037 ACACATGCGTGT
1 ACACAGGCGTGT
30741049 GACCCTTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.16, C:0.19, G:0.36, T:0.29
Consensus pattern (43 bp):
ACACAGGCGTGTCTAGTGGCCGTGTGAGGCACATGGTCTATTC
Found at i:30747119 original size:28 final size:27
Alignment explanation
Indices: 30747043--30747121 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 27
30747033 ATAACAGTAT
30747043 CGTGGCAAAGCCACCAGTATCA-AAATA
1 CGTGGCAAAGCCACCAGTA-CAGAAATA
* * *
30747070 TGTGGCTAAGCCACCAGAACAGCAAATA
1 CGTGGCAAAGCCACCAGTACAG-AAATA
*
30747098 CGTGGCAAAGCCACTAGTACAGAA
1 CGTGGCAAAGCCACCAGTACAGAA
30747122 CTTCCTCCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 18 0.42
28 23 0.53
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (27 bp):
CGTGGCAAAGCCACCAGTACAGAAATA
Found at i:30751994 original size:49 final size:49
Alignment explanation
Indices: 30751938--30752068 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
30751928 TATTGTGTGT
* *
30751938 CAGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGA
* * ** * * * *
30751987 CAGTGTAAGACCTGTCTGGGACAAGAAATTGGCCTTGATATATGAAAGA
1 CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGA
*
30752036 CAGTGTAAGACCTACCTGGGACATGGCATCGAC
1 CAGTGTAAGACCTATCTGGGACATGGCATCGAC
30752069 TTTAATGTGC
Statistics
Matches: 64, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGA
Found at i:30755983 original size:48 final size:48
Alignment explanation
Indices: 30755899--30756075 Score: 221
Period size: 48 Copynumber: 3.7 Consensus size: 48
30755889 ATATTGATGA
* * *
30755899 CATGTCCTAGACATGGTCTTACA-GGAAATCATATATCGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGG-GATCACATATCGATGCCAATGC
* * * * * * *
30755947 GATATCCCAGATATGGTTTTACATTGGATCACATATCAATGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
* *
30755995 CATGTCCTAGACATGGTCTAACATGGGATCACATATCGATGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
*
30756043 CATGTCCCATACATGGTCTTACATGGGATCACA
1 CATGTCCCAGACATGGTCTTACATGGGATCACA
30756076 CATAATTATG
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
48 105 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGC
Found at i:30756034 original size:96 final size:96
Alignment explanation
Indices: 30755899--30756075 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
30755889 ATATTGATGA
* * * *
30755899 CATGTCCTAGACATGGTCTTACAGGAAATCATATATCGATGCCAATGCGATATCCCAGATATGGT
1 CATGTCCTAGACATGGTCTAACAGGAAATCACATATCGATGCCAATGCCATATCCCAGACATGGT
* *
30755964 TTTACATTGGATCACATATCAATGCCAACGC
66 CTTACATGGGATCACATATCAATGCCAACGC
* * *
30755995 CATGTCCTAGACATGGTCTAACATGG-GATCACATATCGATGCCAATGCCATGTCCCATACATGG
1 CATGTCCTAGACATGGTCTAACA-GGAAATCACATATCGATGCCAATGCCATATCCCAGACATGG
30756059 TCTTACATGGGATCACA
65 TCTTACATGGGATCACA
30756076 CATAATTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 69 0.97
97 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (96 bp):
CATGTCCTAGACATGGTCTAACAGGAAATCACATATCGATGCCAATGCCATATCCCAGACATGGT
CTTACATGGGATCACATATCAATGCCAACGC
Found at i:30765297 original size:130 final size:130
Alignment explanation
Indices: 30765064--30765322 Score: 491
Period size: 130 Copynumber: 2.0 Consensus size: 130
30765054 ACACATGTAT
30765064 GATGACATACAAATGCTATGTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATG
1 GATGACATACAAATGCTATGTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATG
*
30765129 TTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATCAAGGTTGACAAAAGCTTGGAAAATAGA
66 CTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATCAAGGTTGACAAAAGCTTGGAAAATAGA
*
30765194 GATGACATACAAATGCTATGTTTGTGGTTTAATTGAGGATTTTTAATCATTAAATGAATACCATG
1 GATGACATACAAATGCTATGTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATG
*
30765259 CTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATCAAGGTTGACCAAAGCTTGGAAAATAG
66 CTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATCAAGGTTGACAAAAGCTTGGAAAATAG
30765323 CCTAGGTATA
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 126 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (130 bp):
GATGACATACAAATGCTATGTTTGTGGTTTAATTGAGGATGTTTAATCATTAAATGAATACCATG
CTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATCAAGGTTGACAAAAGCTTGGAAAATAGA
Found at i:30768250 original size:56 final size:56
Alignment explanation
Indices: 30768183--30768294 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
30768173 ATAAGAACTA
*
30768183 TGCTAATCTATTGTAGGACATCGAAAGGGATCTCAGTAGCAGTCGTCGCGAAACAG
1 TGCTAATCTATTGTAGGACATCGAAAGAGATCTCAGTAGCAGTCGTCGCGAAACAG
30768239 TGCTAATCTATTGTAGGACATCGAAAGAGATCTCAGTAGCAGTCGTCGCGAAACAG
1 TGCTAATCTATTGTAGGACATCGAAAGAGATCTCAGTAGCAGTCGTCGCGAAACAG
30768295 GTGTGTACCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (56 bp):
TGCTAATCTATTGTAGGACATCGAAAGAGATCTCAGTAGCAGTCGTCGCGAAACAG
Found at i:30776130 original size:47 final size:47
Alignment explanation
Indices: 30776060--30776151 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
30776050 TAGTGATTAT
* * *
30776060 GGTTTGTAAATATGAACTATGCTAATCTATTGTAGGATATCGGAAGA
1 GGTTTGTAAATAAGAACTATGCTAATCAATTGTAGGACATCGGAAGA
*
30776107 GGTTTGTAAATAAGAACTGTGCTAATCAATTGTAGGACATCGGAA
1 GGTTTGTAAATAAGAACTATGCTAATCAATTGTAGGACATCGGAA
30776152 AAGATCTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (47 bp):
GGTTTGTAAATAAGAACTATGCTAATCAATTGTAGGACATCGGAAGA
Found at i:30782126 original size:43 final size:42
Alignment explanation
Indices: 30782074--30782194 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
30782064 ATGTTATCAC
* * *
30782074 ATATCGATGCCATTGTCCTAGACATGGTCTTATACGAAAT-CA
1 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGAAATCCA
*
30782116 TATAATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCGCA
1 -AT-ATGATGCCAATGTCCCAGACATGGTCTTACACGAAATC-CA
*
30782161 ATATGATGACAATGTCCCAGACATGGTCTTACAC
1 ATATGATGCCAATGTCCCAGACATGGTCTTACAC
30782195 ACAATCACGT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
43 64 0.91
44 4 0.06
45 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (42 bp):
ATATGATGCCAATGTCCCAGACATGGTCTTACACGAAATCCA
Found at i:30786183 original size:50 final size:50
Alignment explanation
Indices: 30786129--30786230 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
30786119 TAACACCATG
* * *
30786129 TAAATACTTACCTATACAACCGAATATACAAGGTCCAATATATCATCTCA
1 TAAATACTTACATATACAACCGAATACACAAGGTCCAATATATCATCACA
*** * *
30786179 TAAATACTTACATATATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TAAATACTTACATATACAACCGAATACACAAGGTCCAATATATCATCACA
30786229 TA
1 TA
30786231 TGGCCTAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (50 bp):
TAAATACTTACATATACAACCGAATACACAAGGTCCAATATATCATCACA
Found at i:30790342 original size:44 final size:44
Alignment explanation
Indices: 30790282--30790404 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 44
30790272 ATATGTGTTG
* * *
30790282 ATGCATGTCCCGGACATGTCTTACACTAGCACAAATCTTA-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACAAATC-GAGGCCA
** *
30790326 ATGCATGTCCCAGACATGTCTTACACTGGCTATCCTTATCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-A--CAAATCGAGGCCA
30790373 ATGCATG-CCCAGACATGTCTTACACTGGCACA
1 ATGCATGTCCCAGACATGTCTTACACTGGCACA
30790405 CAAGAAATTC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.41
45 2 0.03
46 23 0.34
47 14 0.21
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACAAATCGAGGCCA
Found at i:30793387 original size:68 final size:64
Alignment explanation
Indices: 30793277--30793529 Score: 219
Period size: 68 Copynumber: 3.9 Consensus size: 64
30793267 ATATAGATGG
** * * * * *
30793277 TATGTAGCTAGGTCACATGTTTGGTGCTGA-GTGCACATCATGT-GTAAAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GAG
30793340 ATTA
62 A-TA
* *
30793344 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGATACGAGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
30793409 TATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
30793474 TA
63 TA
* * *
30793476 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
30793530 CAAAATTTTG
Statistics
Matches: 154, Mismatches: 24, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 25 0.16
65 3 0.02
66 25 0.16
67 33 0.21
68 47 0.31
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:30800088 original size:55 final size:55
Alignment explanation
Indices: 30799968--30800077 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
30799958 GCCCATCTGA
* * *
30799968 AACACTGACTTTAAAGCAAGGCCATGACACACGCCCGTGTGGTCTGCCCGTGTAC
1 AACACTGACTTTAAAGCAAGGCCATGACACACACCCGTGTGGCCTACCCGTGTAC
* **
30800023 AACACTGACTTTATAA-CACGGCCATGACACACACCTTTGTGGCCTACCCGTGTAC
1 AACACTGACTTTA-AAGCAAGGCCATGACACACACCCGTGTGGCCTACCCGTGTAC
30800078 TCAACTGACT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
55 46 0.96
56 2 0.04
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (55 bp):
AACACTGACTTTAAAGCAAGGCCATGACACACACCCGTGTGGCCTACCCGTGTAC
Found at i:30801180 original size:47 final size:47
Alignment explanation
Indices: 30800978--30801295 Score: 249
Period size: 47 Copynumber: 6.7 Consensus size: 47
30800968 TGGATAAATT
* * *
30800978 GCCGATGCCATGTCCCAGACAAGGTCTCACACAGGCTATCATCATCGAG
1 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTGGCTATCATCATCGAG
* * * * *
30801027 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATATATAC-AT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CAT-CGAG
* * * *
30801077 GCTGATGCATGTCCCGGACATGTCTTACACTAGC-A-CGA-C-TCTTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATC-ATCATC-GAG
** *
30801121 GTTGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAG
* * *
30801168 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-ACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAG
* * * * * *
30801214 GCCGATTCCATCTCCCAGACATTGTCTTACACTGGCTCTAATAAT-GTG
1 GCCGA-TGCATGTCCCAGACA-TGTCTTACACTGGCTATCATCATCGAG
*
30801262 GCCGATGCAAGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
30801296 ACACGAGAAA
Statistics
Matches: 217, Mismatches: 36, Indels: 35
0.75 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 3 0.01
46 27 0.12
47 63 0.29
48 34 0.16
49 48 0.22
50 9 0.04
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAG
Found at i:30801269 original size:141 final size:140
Alignment explanation
Indices: 30800978--30801295 Score: 345
Period size: 141 Copynumber: 2.2 Consensus size: 140
30800968 TGGATAAATT
* * *
30800978 GCCGATGCCATGTCCCAGACAAGGTCTCACACAGGCTATCATCATCGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGAC-ACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCC
* * * * * *
30801043 AGACATGGTCTTATACTAGCTCTCATATATACATGCTGATGCATGTCCCGGACATGTCTTACACT
64 AGACATGGTCTTACACTAGCACTCATATATACA-GCCGATCCATCTCCCAGACATGTCTTACACT
* *
30801108 AGCACGACTCTTA
128 AGCACGAATATTA
**
30801121 GTTGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATG-CATGTCCCAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* * * * *
30801185 ACAT-GTCTTACATTGGCACTCATCTCTAC-GCCGATTCCATCTCCCAGACATTGTCTTACACTG
66 ACATGGTCTTACACTAGCACTCATATATACAGCCGA-TCCATCTCCCAGACA-TGTCTTACACTA
* * *
30801248 GCTCTAATAATGTG
129 GCACGAAT-AT-TA
* *
30801262 GCCGATGCAAGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC
30801296 ACACGAGAAA
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
137 4 0.03
138 12 0.08
139 35 0.24
140 15 0.10
141 63 0.43
142 12 0.08
143 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (140 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCACTCATATATACAGCCGATCCATCTCCCAGACATGTCTTACACTAGC
ACGAATATTA
Found at i:30828533 original size:79 final size:81
Alignment explanation
Indices: 30828397--30828581 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
30828387 TTGAATGATG
* *
30828397 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
30828461 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
30828476 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
30828538 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
30828556 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30828582 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:30828595 original size:40 final size:40
Alignment explanation
Indices: 30828398--30828581 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
30828388 TGAATGATGT
* * * *
30828398 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
30828438 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
30828478 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
30828516 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
30828557 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
30828582 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:30828603 original size:79 final size:79
Alignment explanation
Indices: 30828398--30828614 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
30828388 TGAATGATGT
** * * * ** *
30828398 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCAAT
*
30828461 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
30828478 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
*
30828543 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
30828557 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
30828615 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCAATTGT
GCGAGATACTAATA
Found at i:30832233 original size:42 final size:42
Alignment explanation
Indices: 30832174--30832257 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
30832164 CGTACAGGGC
*
30832174 TTTTGGACGTCGTAACTCGGTCGAAACAAATTTGTACGCATA
1 TTTTGGACGTCGTAACTCGGTCGAAACAAATTTGTAAGCATA
*
30832216 TTTTGGATGTCGTAACTCGGTCGAAACAAATTTGTAAGCATA
1 TTTTGGACGTCGTAACTCGGTCGAAACAAATTTGTAAGCATA
30832258 GCTTCCAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTTGGACGTCGTAACTCGGTCGAAACAAATTTGTAAGCATA
Found at i:30834091 original size:29 final size:28
Alignment explanation
Indices: 30834056--30834134 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
30834046 GGGTATTTTA
30834056 ACGATTTGGCTTTAGGCCATGCATATCGG
1 ACGATTTGGCTTT-GGCCATGCATATCGG
* *
30834085 ATGATTTGGCTTTGAGCCATGCATATTGG
1 ACGATTTGGCTTTG-GCCATGCATATCGG
*
30834114 ACGATTTGGCTTCGGGCCATG
1 ACGATTTGGCTT-TGGCCATG
30834135 ATAATAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 42 0.95
30 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (28 bp):
ACGATTTGGCTTTGGCCATGCATATCGG
Found at i:30842005 original size:16 final size:16
Alignment explanation
Indices: 30841984--30842018 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
30841974 ATGAATTAAG
30841984 TTATTCACCTATGAGC
1 TTATTCACCTATGAGC
30842000 TTATTCACCTATGAGC
1 TTATTCACCTATGAGC
30842016 TTA
1 TTA
30842019 CTAAGCTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (16 bp):
TTATTCACCTATGAGC
Found at i:30842027 original size:16 final size:16
Alignment explanation
Indices: 30841990--30842037 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
30841980 TAAGTTATTC
* *
30841990 ACCTATGAGCTTATTC
1 ACCTATGAGCTTACTA
30842006 ACCTATGAGCTTACTA
1 ACCTATGAGCTTACTA
*
30842022 AGCTATGAAGCTTACT
1 ACCTATG-AGCTTACT
30842038 TTGTGTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (16 bp):
ACCTATGAGCTTACTA
Found at i:30843106 original size:28 final size:28
Alignment explanation
Indices: 30843086--30843141 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30843076 GATTTATGAG
30843086 AATGAATGTTTTATGTTTGATAAATGTA
1 AATGAATGTTTTATGTTTGATAAATGTA
30843114 AATGAATGTTTTATGTTTGATAAATGTA
1 AATGAATGTTTTATGTTTGATAAATGTA
30843142 TGCTATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (28 bp):
AATGAATGTTTTATGTTTGATAAATGTA
Found at i:30844202 original size:20 final size:20
Alignment explanation
Indices: 30844177--30844214 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30844167 AAAGTGAGAA
*
30844177 TTTATTTTCTAAGTATAAAT
1 TTTATTTTCTAAGAATAAAT
*
30844197 TTTATTTTTTAAGAATAA
1 TTTATTTTCTAAGAATAA
30844215 CAAATTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTATTTTCTAAGAATAAAT
Found at i:30848092 original size:30 final size:33
Alignment explanation
Indices: 30848056--30848133 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 33
30848046 CATTCATTCA
30848056 TAATTTATTT-TTA-ATGCTTTA-TTTTTTATG
1 TAATTTATTTGTTATATGCTTTATTTTTTTATG
* *
30848086 TAATTTATTTGTTATGTGTGTTTTATTTTTTTATG
1 TAATTTATTTGTTA--TATGCTTTATTTTTTTATG
30848121 TAATTTATTTGTT
1 TAATTTATTTGTT
30848134 GTGTGTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
30 10 0.24
31 3 0.07
34 6 0.15
35 22 0.54
ACGTcount: A:0.21, C:0.01, G:0.10, T:0.68
Consensus pattern (33 bp):
TAATTTATTTGTTATATGCTTTATTTTTTTATG
Found at i:30848137 original size:33 final size:34
Alignment explanation
Indices: 30848073--30848143 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 34
30848063 TTTTTAATGC
30848073 TTTATTTTTTATGTAATTTATTTGTTATGTGTGT
1 TTTATTTTTTATGTAATTTATTTGTTATGTGTGT
30848107 TTTATTTTTTTATGTAATTTATTTG-T-TGTGTGT
1 TTTA-TTTTTTATGTAATTTATTTGTTATGTGTGT
30848140 TTTA
1 TTTA
30848144 GGTTGGTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 11 0.31
34 5 0.14
35 20 0.56
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (34 bp):
TTTATTTTTTATGTAATTTATTTGTTATGTGTGT
Found at i:30850090 original size:43 final size:42
Alignment explanation
Indices: 30850034--30850146 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
30850024 AGCTCATACA
* * * ** *
30850034 ATGCCATATCCCAGATATGGTCTTACATGTTATC-ACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACAAGAAATCGA-ATAACG
* * *
30850076 ATGCCACTGTCCCAGGCAGGGTCTTACAAGAAATCGATTAACG
1 ATGCCA-TGTCCCAGACATGGTCTTACAAGAAATCGAATAACG
30850119 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCC-ATGTCCCAGACATGGTCTTACA
30850147 CATAATCTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
42 6 0.11
43 49 0.86
44 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACAAGAAATCGAATAACG
Found at i:30850671 original size:119 final size:120
Alignment explanation
Indices: 30850451--30850692 Score: 459
Period size: 119 Copynumber: 2.0 Consensus size: 120
30850441 CTAAATCTGA
30850451 TTTCTTTCATTCTTGATCTATATGAATTCAAAATTAACTCTTTTATTCCTCAATTCATTCAATTT
1 TTTCTTTCATTCTTGATCTATATGAATTCAAAATTAACTCTTTTATTCCTCAATTCATTCAATTT
30850516 CATCCAAAACACACAATTTGGGACATTTTACACATTAACCCCTATAATTTCACAT
66 CATCCAAAACACACAATTTGGGACATTTTACACATTAACCCCTATAATTTCACAT
*
30850571 TTTC-TTCGTTCTTGATCTATATGAATTCAAAATTAACTCTTTTATTCCTCAATTCATTCAATTT
1 TTTCTTTCATTCTTGATCTATATGAATTCAAAATTAACTCTTTTATTCCTCAATTCATTCAATTT
*
30850635 CATGCAAAACACACAATTTGGGACATTTTACACATTAACCCCTATAATTTCACAT
66 CATCCAAAACACACAATTTGGGACATTTTACACATTAACCCCTATAATTTCACAT
30850690 TTT
1 TTT
30850693 TTCAATTTAG
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 116 0.97
120 4 0.03
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (120 bp):
TTTCTTTCATTCTTGATCTATATGAATTCAAAATTAACTCTTTTATTCCTCAATTCATTCAATTT
CATCCAAAACACACAATTTGGGACATTTTACACATTAACCCCTATAATTTCACAT
Found at i:30853859 original size:47 final size:48
Alignment explanation
Indices: 30853805--30853920 Score: 144
Period size: 47 Copynumber: 2.4 Consensus size: 48
30853795 CACAATCGAT
* *
30853805 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTACG
* * * * * *
30853852 AAGTACCTACACCATAGTCCATAGCCAAATCAAGGTAACTCCTCTATG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTACG
*
30853900 AAATACCTATACCATGGCCCG
1 AAGTACCTATACCATGGCCCG
30853921 CAGTCAAGTT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 38 0.69
48 17 0.31
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCTACG
Found at i:30855771 original size:14 final size:14
Alignment explanation
Indices: 30855752--30855786 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30855742 GACATTTTTT
*
30855752 TTCTAATGATACTA
1 TTCTAACGATACTA
30855766 TTCTAACGATACTA
1 TTCTAACGATACTA
*
30855780 TTTTAAC
1 TTCTAAC
30855787 ATTTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:30857053 original size:47 final size:47
Alignment explanation
Indices: 30856990--30857080 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 47
30856980 CAACAATACA
* *
30856990 ACATTAAAACACT-AAAATTGGAACAAAATTTGTAATATAAATTAAAT
1 ACATTAAAACACTAAAAATTCGAA-AAAACTTGTAATATAAATTAAAT
* *
30857037 ACATTACAACATTAAAAATTCGAAAAAACTTGTAATATAAATTA
1 ACATTAAAACACTAAAAATTCGAAAAAACTTGTAATATAAATTA
30857081 GGCACATTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 30 0.77
48 9 0.23
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (47 bp):
ACATTAAAACACTAAAAATTCGAAAAAACTTGTAATATAAATTAAAT
Found at i:30859863 original size:40 final size:40
Alignment explanation
Indices: 30859808--30859955 Score: 233
Period size: 40 Copynumber: 3.7 Consensus size: 40
30859798 ACTTGATATC
30859808 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
30859848 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* * * * *
30859888 TCGCACACTAAGTGTCATATATAGCCGAAGTTATGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
* *
30859928 TCGCACACTAAGTGCCACAAATAGCCGA
1 TCGCACACTAAGTGCCATACATAGCCGA
30859956 TTTATCGTCA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAA
Found at i:30861322 original size:30 final size:30
Alignment explanation
Indices: 30861287--30861354 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
30861277 ACACCAAGGG
30861287 ACACACGGCTACGTAACCTAACCGTGTGTC
1 ACACACGGCTACGTAACCTAACCGTGTGTC
30861317 ACACACGGCTACGTAACCTAACCGTGTGTC
1 ACACACGGCTACGTAACCTAACCGTGTGTC
30861347 ACACACGG
1 ACACACGG
30861355 ATGAGACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.18
Consensus pattern (30 bp):
ACACACGGCTACGTAACCTAACCGTGTGTC
Found at i:30865636 original size:27 final size:27
Alignment explanation
Indices: 30865606--30865783 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30865596 ATATTGAGTC
* * * *
30865606 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30865633 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30865660 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30865688 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30865715 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30865742 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30865769 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30865784 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30865745 original size:82 final size:81
Alignment explanation
Indices: 30865627--30865782 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30865617 TGCTATATAA
* *
30865627 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30865692 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30865709 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30865773 CACTTAGTGC
65 CACTTAGTGC
30865783 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30873699 original size:27 final size:27
Alignment explanation
Indices: 30873669--30873846 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30873659 ATATTGAGTC
* * * *
30873669 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30873696 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30873723 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30873751 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30873778 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30873805 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30873832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30873847 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30873808 original size:82 final size:81
Alignment explanation
Indices: 30873690--30873845 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30873680 TGCTATATAA
* *
30873690 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30873755 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30873772 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30873836 CACTTAGTGC
65 CACTTAGTGC
30873846 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30877896 original size:42 final size:42
Alignment explanation
Indices: 30877845--30877924 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
30877835 CAGATGCCAA
** * *
30877845 GTTCTAGGCCGTGTTTCACACAAGACTGAGACACACGCACGT
1 GTTCTAGGCCACGTATCACACAAGACTAAGACACACGCACGT
* *
30877887 GTTCTAGGCCACGTATCACACACGGCTAAGACACACGC
1 GTTCTAGGCCACGTATCACACAAGACTAAGACACACGC
30877925 TCATGTCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.19
Consensus pattern (42 bp):
GTTCTAGGCCACGTATCACACAAGACTAAGACACACGCACGT
Found at i:30882270 original size:12 final size:12
Alignment explanation
Indices: 30882255--30882281 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30882245 AAATATATAA
30882255 AAATTCAAATTT
1 AAATTCAAATTT
30882267 AAATTCAAATTT
1 AAATTCAAATTT
30882279 AAA
1 AAA
30882282 GGTAACTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATTCAAATTT
Found at i:30888033 original size:22 final size:22
Alignment explanation
Indices: 30887992--30888034 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30887982 ATCATTATTC
*
30887992 TAAAATTTAAGAAAATATAAAT
1 TAAAATTTAAGAAAAGATAAAT
30888014 TAAAATTTAA-AAATAGATAAA
1 TAAAATTTAAGAAA-AGATAAA
30888035 AGTTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
TAAAATTTAAGAAAAGATAAAT
Found at i:30888052 original size:18 final size:18
Alignment explanation
Indices: 30888003--30888055 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
30887993 AAAATTTAAG
*
30888003 AAAATATAAATTAAAATTT
1 AAAA-ATAAATTAAAATTC
*
30888022 AAAAATAGA-TAAAAGTTC
1 AAAAATAAATTAAAA-TTC
30888040 AAAAA-AAATTAAAATT
1 AAAAATAAATTAAAATT
30888056 TATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 9 0.31
18 16 0.55
19 4 0.14
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATAAATTAAAATTC
Found at i:30888062 original size:18 final size:17
Alignment explanation
Indices: 30888010--30888063 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
30888000 AAGAAAATAT
30888010 AAATTAAAATTTAAAAA
1 AAATTAAAATTTAAAAA
* *
30888027 TAGA-TAAAAGTTCAAAAA
1 -AAATTAAAA-TTTAAAAA
30888045 AAATTAAAATTTATAAAA
1 AAATTAAAATTTA-AAAA
30888063 A
1 A
30888064 TATAGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 10 0.34
18 19 0.66
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (17 bp):
AAATTAAAATTTAAAAA
Found at i:30888814 original size:20 final size:20
Alignment explanation
Indices: 30888783--30888838 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
30888773 AATATATATA
**
30888783 TTTATA-ATTTTTTTAGTAT
1 TTTATATATTTTTTTAAAAT
30888802 TTTATATATTTTTTTAAAAT
1 TTTATATATTTTTTTAAAAT
*
30888822 TTTATGTATTTTTTTAA
1 TTTATATATTTTTTTAA
30888839 TTTATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTATATATTTTTTTAAAAT
Found at i:30888854 original size:20 final size:18
Alignment explanation
Indices: 30888789--30888856 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 18
30888779 TATATTTATA
*
30888789 ATTTTTTTAGTATTTTATAT
1 ATTTTTTTA--ATTTTATTT
*
30888809 ATTTTTTTAAAATTTTATGT
1 ATTTTTTT--AATTTTATTT
30888829 ATTTTTTTAATTTATATTT
1 ATTTTTTTAATTT-TATTT
30888848 ATATTTTTT
1 AT-TTTTTT
30888857 TTGTAACAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.12
19 6 0.14
20 30 0.71
22 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAATTTTATTT
Found at i:30889477 original size:132 final size:132
Alignment explanation
Indices: 30889199--30889831 Score: 1025
Period size: 132 Copynumber: 4.8 Consensus size: 132
30889189 GACATTTTCC
* * *
30889199 TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * *
30889264 GACGACATTTTTGTGACGACA-TTTCCTAAGTGTTGGGATAGAGTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
30889328 TA
131 TA
* *
30889330 TAAGGGTTAGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTCTGTGTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * * *
30889395 GAAGACACTTTTGCGGTGACACTTCCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
30889460 TA
131 TA
*
30889462 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTTGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * *
30889527 GACGATACTTTTGGGGCGACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
30889592 TA
131 TA
* *
30889594 TAAGGGTTGTGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* * *
30889659 GACGACACTTTTGTGGCGACGCTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
30889724 TA
131 TA
* * *
30889726 TAAGCGTTGGGATATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
* *
30889791 GACGACAGTTTTGAGGCGACACTTTCCTAAGTGTTGGGATA
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATA
30889832 CACTTGTCAG
Statistics
Matches: 464, Mismatches: 37, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
131 76 0.16
132 388 0.84
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAA
GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTG
TA
Found at i:30890195 original size:15 final size:16
Alignment explanation
Indices: 30890164--30890196 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30890154 AGGTTTGGGG
*
30890164 TTTATGATTTTTGGAT
1 TTTATGATTTATGGAT
30890180 TTTATGA-TTATGGAT
1 TTTATGATTTATGGAT
30890195 TT
1 TT
30890197 GGGGTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGATTTATGGAT
Found at i:30890904 original size:47 final size:47
Alignment explanation
Indices: 30890834--30890955 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
30890824 GAATGTATGG
30890834 ATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATAATGC
1 ATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATAATGC
*
30890881 ATACTTTACCCGGATAAAATATGTATTAGCAGATTCACTAATAATGC
1 ATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATAATGC
* *
30890928 ATACTTTACCCGGGTAAAGTATGCATTA
1 ATACTTTACCCGGATAAAGTATGTATTA
30890956 TTTATTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (47 bp):
ATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATAATGC
Found at i:30893752 original size:7 final size:6
Alignment explanation
Indices: 30893713--30893751 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
30893703 TACAATCTTT
*
30893713 ATTTTA ATTTTA ATTTTA ATTTTGT ATTTTAA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTT-A ATTTT-A ATTTTA A
30893752 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
ATTTTA
Done.