Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 70 of 160
Found at i:14643154 original size:130 final size:130
Alignment explanation
Indices: 14642921--14643160 Score: 313
Period size: 130 Copynumber: 1.8 Consensus size: 130
14642911 ATTCACACTA
* * * * * *
14642921 AAAGGCTGGGACTCATACCAGGATTCTTTAAAAGTTTTAGACATCACACCAAAAGGATGATTCAT
1 AAAGGCTAGGACTCACACCAAGATTCTTCAAAAGTTTCAGACATCACACCAAAAGGATAATTCAT
* *
14642986 AATTAGAAGACTTTAGATTCACAACAGAGTAAATGATTCATAGTTTGAAAGACTTCATATTTATG
66 AATTAGAAGACTCTAGATTCACAACAGAGTAAACGATTCATAGTTTGAAAGACTTCATATTTATG
* * * * *
14643051 AAAGGCTAGGATTCACACCAAGATTCTTCAAAAGTTTCATACTTCACGCTAAAAGGATAATTCAC
1 AAAGGCTAGGACTCACACCAAGATTCTTCAAAAGTTTCAGACATCACACCAAAAGGATAATTCA-
* *
14643116 T-ATTAGAAGACTCTAGATTCACAATAGAGGT-AGCGATTCATAGTT
65 TAATTAGAAGACTCTAGATTCACAACAGA-GTAAACGATTCATAGTT
14643161 CAATGGTAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
130 90 0.97
131 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (130 bp):
AAAGGCTAGGACTCACACCAAGATTCTTCAAAAGTTTCAGACATCACACCAAAAGGATAATTCAT
AATTAGAAGACTCTAGATTCACAACAGAGTAAACGATTCATAGTTTGAAAGACTTCATATTTATG
Found at i:14643155 original size:41 final size:41
Alignment explanation
Indices: 14643110--14643272 Score: 139
Period size: 41 Copynumber: 3.8 Consensus size: 41
14643100 TAAAAGGATA
* *
14643110 ATTCACTATTAGAAGACTCTAGATTCACAATAGAGGTAGCG
1 ATTCACAATTAGAAGACTCTAGATTCACAATAGAGGTAACG
* * * *
14643151 ATTCATAGTTCAATGGTAGAAGATTCTAGATTCACAATAAAGGCAACA
1 ATTC--A---CAAT--TAGAAGACTCTAGATTCACAATAGAGGTAACG
* *
14643199 ATTCACAATTAGAAGACTCTAGATTCACAATGGA-GTAAATG
1 ATTCACAATTAGAAGACTCTAGATTCACAATAGAGGT-AACG
* * *
14643240 ATTCATAGTTTGAAAGACTCTAGATTCACAATA
1 ATTCACAATTAG-AAGACTCTAGATTCACAATA
14643273 AAGTAAATGA
Statistics
Matches: 97, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 37 0.38
42 19 0.20
43 5 0.05
46 4 0.04
48 31 0.32
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (41 bp):
ATTCACAATTAGAAGACTCTAGATTCACAATAGAGGTAACG
Found at i:14643227 original size:22 final size:22
Alignment explanation
Indices: 14643167--14643229 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
14643157 AGTTCAATGG
*
14643167 TAGAAGATTCTAGATTCACAA-
1 TAGAAGACTCTAGATTCACAAT
* *
14643188 TA-AAGGCAAC-A-ATTCACAAT
1 TAGAAGAC-TCTAGATTCACAAT
14643208 TAGAAGACTCTAGATTCACAAT
1 TAGAAGACTCTAGATTCACAAT
14643230 GGAGTAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
19 8 0.25
20 7 0.22
21 8 0.25
22 9 0.28
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (22 bp):
TAGAAGACTCTAGATTCACAAT
Found at i:14643270 original size:42 final size:42
Alignment explanation
Indices: 14643211--14643778 Score: 381
Period size: 41 Copynumber: 13.8 Consensus size: 42
14643201 TCACAATTAG
* *
14643211 AAGACTCTAGATTCACAATGGAGTAAATGATTCATAGTTTGA
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* *
14643253 AAGACTCTAGATTCACAATAAAGTAAATGATTCATAGTTTG-
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* * * * * *
14643294 ATGACTTTGGATTCACGACAAAG-GT-AGTGATTCATAGCTAG-
1 AAGACTTTAGATTCAC-A-ATAGAGTAAATGATTCATAGTTTGA
*
14643335 AAGACTTTAGATTCATAATAGAGT-AATGATTCATAGTTTGA
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* *
14643376 AAGACTTCAGATTCACAACAGAGTAAATGATTCATAGTTT-A
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* * * * *
14643417 AAGACTGT-GAATTTATAACAGAGTAAATGATTCATAGTTTTA
1 AAGACTTTAG-ATTCACAATAGAGTAAATGATTCATAGTTTGA
* * * *
14643459 AAGACTTTGGAATCAC---A-A-TAAATGATTCATAGTTGGG
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* * * *
14643496 AAGACTTTGGATT--CAATA-ATGTAACTGATTCACAG-TTGG
1 AAGACTTTAGATTCACAATAGA-GTAAATGATTCATAGTTTGA
** * * *
14643535 GCGACTTTGGATTCATAATAGAGTAAACGATTCATAGTTTGA
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* ** * *
14643577 AAGAACTTTAGATTCACATTAGAGTAAACAATTCACAATTTG-
1 AAG-ACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
* * * * *
14643619 AAGACTCTAAATTCACAGTATG-GTAAATGGTTTACA-AGTTGGA
1 AAGACTTTAGATTCACAATA-GAGTAAAT-GATT-CATAGTTTGA
* *
14643662 TAA-ACTCTAGATTCAC-ATAAGTGTAAATGATTCATAGTTTG-
1 -AAGACTTTAGATTCACAAT-AGAGTAAATGATTCATAGTTTGA
* * * * * *
14643703 AAGACTCTAGATTTATAGTAGAATAAATGATT-ATCAGTTTGG
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCAT-AGTTTGA
* * * * **
14643745 AGGATTTTAGATTCATAACAGAAAAAATGATTCA
1 AAGACTTTAGATTCACAATAGAGTAAATGATTCA
14643779 CAGCTTAGAT
Statistics
Matches: 421, Mismatches: 74, Indels: 61
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.00
37 28 0.07
38 3 0.01
39 18 0.04
40 33 0.08
41 160 0.38
42 119 0.28
43 57 0.14
44 2 0.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (42 bp):
AAGACTTTAGATTCACAATAGAGTAAATGATTCATAGTTTGA
Found at i:14644933 original size:15 final size:15
Alignment explanation
Indices: 14644913--14644950 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
14644903 TTCATATTTC
14644913 TTTCTTTTCT-TTTTT
1 TTTCTTTT-TATTTTT
14644928 TTTCTTTTTACTTTTT
1 TTTCTTTTTA-TTTTT
14644944 TTTCTTT
1 TTTCTTT
14644951 ATTGATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 8 0.38
16 12 0.57
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTCTTTTTATTTTT
Found at i:14645327 original size:13 final size:13
Alignment explanation
Indices: 14645286--14645336 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
14645276 ACCCAATCAT
*
14645286 TCTTTTTTTTTCA
1 TCTTTTTTTTTCC
*
14645299 T-TTTTTTCTCTCCC
1 TCTTTTTT-T-TTCC
14645313 TCTTTTTTTTTCC
1 TCTTTTTTTTTCC
14645326 TCTTTTTTTTT
1 TCTTTTTTTTT
14645337 GTTTTTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.19
13 16 0.50
14 4 0.12
15 6 0.19
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTTTTTCC
Found at i:14645341 original size:21 final size:21
Alignment explanation
Indices: 14645318--14645356 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14645308 CTCCCTCTTT
*
14645318 TTTTTTCC-TCTTTTTTTTTG
1 TTTTTTCCATCATTTTTTTTG
14645338 TTTTTTCCATCATTTTTTT
1 TTTTTTCCATCATTTTTTT
14645357 CCATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (21 bp):
TTTTTTCCATCATTTTTTTTG
Found at i:14645561 original size:21 final size:21
Alignment explanation
Indices: 14645537--14645583 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14645527 CTTTTTCCTA
*
14645537 TTTTTTCATCT-TTTTGCTTTT
1 TTTTTTC-TCTCTTTTCCTTTT
*
14645558 TTTTTTCTTTCTTTTCCTTTT
1 TTTTTTCTCTCTTTTCCTTTT
14645579 TTTTT
1 TTTTT
14645584 ATATGGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTTCTCTCTTTTCCTTTT
Found at i:14645883 original size:18 final size:18
Alignment explanation
Indices: 14645862--14645937 Score: 125
Period size: 18 Copynumber: 4.1 Consensus size: 18
14645852 CTTTTAAAAA
14645862 AAAAAAGGTTTTTTTTTT
1 AAAAAAGGTTTTTTTTTT
14645880 AAAAAAGGTTTTTTTTTT
1 AAAAAAGGTTTTTTTTTT
*
14645898 AAAAAAGGTTTTTTTTTAA
1 AAAAAAGGTTTTTTTTT-T
14645917 AAAAGAAGGTTTTTTTTTT
1 AAAA-AAGGTTTTTTTTTT
14645936 AA
1 AA
14645938 CTCTCTGGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
18 35 0.65
19 6 0.11
20 13 0.24
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (18 bp):
AAAAAAGGTTTTTTTTTT
Found at i:14655711 original size:12 final size:12
Alignment explanation
Indices: 14655696--14655752 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
14655686 ATAATTTTAG
14655696 TTATAAATAATA
1 TTATAAATAATA
*
14655708 TTAT-AATATATT
1 TTATAAATA-ATA
*
14655720 TTATAAAAAATA
1 TTATAAATAATA
14655732 TTAT-AAT-ATA
1 TTATAAATAATA
14655742 TTAATAAATAA
1 TT-ATAAATAA
14655753 GATATTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
10 5 0.14
11 8 0.22
12 19 0.53
13 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTATAAATAATA
Found at i:14655713 original size:24 final size:24
Alignment explanation
Indices: 14655696--14655743 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
14655686 ATAATTTTAG
*
14655696 TTATAAATAATATTATAATATATT
1 TTATAAAAAATATTATAATATATT
14655720 TTATAAAAAATATTATAATATATT
1 TTATAAAAAATATTATAATATATT
14655744 AATAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATAAAAAATATTATAATATATT
Found at i:14655781 original size:18 final size:17
Alignment explanation
Indices: 14655737--14655805 Score: 74
Period size: 18 Copynumber: 4.2 Consensus size: 17
14655727 AAATATTATA
*
14655737 ATATATTAATAAATAAG
1 ATATATTAATAAATAAT
*
14655754 ATATTCTTAATAAATAAT
1 ATA-TATTAATAAATAAT
14655772 ATACTATTAAT--AT-A-
1 ATA-TATTAATAAATAAT
14655786 ATATATTAATAAATAAT
1 ATATATTAATAAATAAT
14655803 ATA
1 ATA
14655806 AAGAATAAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 7 0.16
14 3 0.07
15 3 0.07
16 3 0.07
17 6 0.14
18 21 0.49
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
ATATATTAATAAATAAT
Found at i:14655928 original size:25 final size:25
Alignment explanation
Indices: 14655895--14655965 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 25
14655885 AATTATCTTT
*
14655895 TAATATTAATAATTTTAATAACAAA
1 TAATTTTAATAATTTTAATAACAAA
*
14655920 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATA-ATTTTAATAACAAA
14655946 TAATTTTGAAT-ATTTTAATA
1 TAATTTT-AATAATTTTAATA
14655966 GTTATATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.45
26 20 0.48
27 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAACAAA
Found at i:14655935 original size:26 final size:26
Alignment explanation
Indices: 14655895--14655965 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 26
14655885 AATTATCTTT
*
14655895 TAATATTAATA-ATTTTAATAACAAA
1 TAATTTTAATATATTTTAATAACAAA
*
14655920 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATATATTTTAATAACAAA
*
14655946 TAATTTTGA-ATATTTTAATA
1 TAATTTTAATATATTTTAATA
14655966 GTTATATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 21 0.50
26 21 0.50
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
TAATTTTAATATATTTTAATAACAAA
Found at i:14655951 original size:16 final size:16
Alignment explanation
Indices: 14655892--14655957 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
14655882 TATAATTATC
*
14655892 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
*
14655907 TTTTAATAACAAATAA
1 TTTTAATAATAAATAA
14655923 -TTT--TAAT--AT-A
1 TTTTAATAATAAATAA
14655933 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
14655949 TTTTGAATA
1 TTTT-AATA
14655958 TTTTAATAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 7 0.17
15 12 0.30
16 11 0.28
17 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:14656102 original size:14 final size:14
Alignment explanation
Indices: 14656083--14656117 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
14656073 AAAATATAAA
14656083 CATTTTCCAAAAAT
1 CATTTTCCAAAAAT
*
14656097 CATTTTCCAAAAGT
1 CATTTTCCAAAAAT
14656111 CATTTTC
1 CATTTTC
14656118 TACAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (14 bp):
CATTTTCCAAAAAT
Found at i:14656279 original size:21 final size:21
Alignment explanation
Indices: 14656250--14656289 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14656240 GTTTTTGCAT
*
14656250 TGATCTTTAGAGTTGTGTTTCA
1 TGATCTTTAGAATT-TGTTTCA
14656272 TGAT-TTTAGAATTTGTTT
1 TGATCTTTAGAATTTGTTT
14656290 TGATCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (21 bp):
TGATCTTTAGAATTTGTTTCA
Found at i:14667126 original size:3 final size:3
Alignment explanation
Indices: 14667118--14667156 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
14667108 TTTCATTCTT
14667118 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14667157 TTTCATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:14669027 original size:15 final size:15
Alignment explanation
Indices: 14668984--14669028 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
14668974 GGCCAAAACC
*
14668984 TATTTTTTTTATATC
1 TATTTTTTTTATATT
*
14668999 TA-TTTTCTTATATT
1 TATTTTTTTTATATT
14669013 TATTTTTTTTATATT
1 TATTTTTTTTATATT
14669028 T
1 T
14669029 TATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTTTTATATT
Found at i:14676061 original size:91 final size:91
Alignment explanation
Indices: 14675925--14676125 Score: 294
Period size: 91 Copynumber: 2.2 Consensus size: 91
14675915 TTCTATACAG
* * * *
14675925 ACCTTAACTAATCCTTTTATAAAAATATTAACCTTAAATCCTAAACCCTAAAATATAAAAGAATT
1 ACCTTAAATAATCCTTTAATAAAAATATTAACCCTAAATACTAAACCCTAAAATATAAAAGAATT
*
14675990 ATTTAAGGTGTTTTCTGTATAGAAAC
66 ATTTAAGGTGTTTTCTGTATAAAAAC
* * * *
14676016 ACCTTAAATAATCCTTTAATAAAAATATTAACCCTAACTATTAAACCTTAAAATATAAAAGGATT
1 ACCTTAAATAATCCTTTAATAAAAATATTAACCCTAAATACTAAACCCTAAAATATAAAAGAATT
*
14676081 ATTTTAGGTGTTTTCTGTATAAAAAC
66 ATTTAAGGTGTTTTCTGTATAAAAAC
*
14676107 ACCTTAAACAATCCATTTA
1 ACCTTAAATAATCC-TTTA
14676126 TGAAAGTATA
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 94 0.96
92 4 0.04
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (91 bp):
ACCTTAAATAATCCTTTAATAAAAATATTAACCCTAAATACTAAACCCTAAAATATAAAAGAATT
ATTTAAGGTGTTTTCTGTATAAAAAC
Found at i:14676145 original size:63 final size:64
Alignment explanation
Indices: 14676065--14676224 Score: 180
Period size: 65 Copynumber: 2.5 Consensus size: 64
14676055 ATTAAACCTT
* * * * *
14676065 AAAATATAAAAGGATTATTTTAGGTGTTTTCTGTATAAAAACA-CCTTAAACAATCCATTTATG
1 AAAATATAAAAGGATTATTTAAGGTGTTTTCTATACAAAAACAGCCTTAAACAATACATTTATA
* * * * * **
14676128 AAAGTATAAAAGGATTATTTAAGATGTTTTATATACAAAAATATGCCTTAAATAATATTTTTATA
1 AAAATATAAAAGGATTATTTAAGGTGTTTTCTATACAAAAACA-GCCTTAAACAATACATTTATA
14676193 AAAATATAAATA-GATTATTTAAGGTGTTTTCT
1 AAAATATAAA-AGGATTATTTAAGGTGTTTTCT
14676225 TCATGCCAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
63 36 0.46
65 42 0.53
66 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (64 bp):
AAAATATAAAAGGATTATTTAAGGTGTTTTCTATACAAAAACAGCCTTAAACAATACATTTATA
Found at i:14680459 original size:15 final size:15
Alignment explanation
Indices: 14680424--14680461 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
14680414 CCTTGTCCTA
14680424 TTATTTTTATTATTT
1 TTATTTTTATTATTT
14680439 TATATTTTTA-TATTT
1 T-TATTTTTATTATTT
14680454 GTTATTTT
1 -TTATTTT
14680462 AATCGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTATTTTTATTATTT
Found at i:14680708 original size:19 final size:19
Alignment explanation
Indices: 14680640--14680709 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
14680630 GGGCTTAAGT
*
14680640 TTTCACCTAAAGTTTAGGG
1 TTTCACCTAAGGTTTAGGG
* * *
14680659 TTTAACCTAAGGTTTTGGAC
1 TTTCACCTAAGGTTTAGG-G
14680679 TTT-A--T--GGTTTAGGG
1 TTTCACCTAAGGTTTAGGG
14680693 TTTCACCTAAGGTTTAG
1 TTTCACCTAAGGTTTAG
14680710 AATTTCACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
14 3 0.08
15 8 0.21
17 2 0.05
19 23 0.59
20 3 0.08
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (19 bp):
TTTCACCTAAGGTTTAGGG
Found at i:14680816 original size:12 final size:13
Alignment explanation
Indices: 14680785--14680820 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14680775 TTAGAGTTTT
*
14680785 TTTTAAGATTTCA
1 TTTTAAGGTTTCA
14680798 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
14680811 -TTTAAGGTTT
1 TTTTAAGGTTT
14680821 TGATTTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (13 bp):
TTTTAAGGTTTCA
Found at i:14681035 original size:3 final size:3
Alignment explanation
Indices: 14681027--14681057 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
14681017 TTATTAAAAT
14681027 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
14681058 ATCTTCTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14682631 original size:16 final size:16
Alignment explanation
Indices: 14682598--14682646 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
14682588 AAGCCCTTTT
* *
14682598 TTTATTTTTTATTTTTA
1 TTTATCTTTT-TTATTA
14682615 TTTATCTTTTTTATTA
1 TTTATCTTTTTTATTA
* *
14682631 TTTATCATCTTTATTA
1 TTTATCTTTTTTATTA
14682647 CTATTTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 19 0.68
17 9 0.32
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATCTTTTTTATTA
Found at i:14682640 original size:19 final size:20
Alignment explanation
Indices: 14682602--14682652 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
14682592 CCTTTTTTTA
*
14682602 TTTTTTATT-TTTATTTATC
1 TTTTTTATTATTTATTCATC
14682621 TTTTTTATTATTTA-TCATC
1 TTTTTTATTATTTATTCATC
* *
14682640 TTTATTACTATTT
1 TTTTTTATTATTT
14682653 CATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTTATTATTTATTCATC
Found at i:14682690 original size:18 final size:16
Alignment explanation
Indices: 14682669--14682720 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
14682659 TAAATTTTAA
14682669 ATTTATTTTTTATACTTT
1 ATTTATTTTTTA-A-TTT
14682687 ATTTATTTTTTAATTT
1 ATTTATTTTTTAATTT
14682703 -TTTAATTTTTTAAATTT
1 ATTT-ATTTTTT-AATTT
14682720 A
1 A
14682721 CTTAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.10
16 10 0.32
17 6 0.19
18 12 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTATTTTTTAATTT
Found at i:14682710 original size:16 final size:17
Alignment explanation
Indices: 14682669--14682720 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
14682659 TAAATTTTAA
14682669 ATTTATTTTTTATACTTT
1 ATTTATTTTTTA-ACTTT
14682687 ATTTATTTTTTAA-TTT
1 ATTTATTTTTTAACTTT
*
14682703 -TTTAATTTTTTAAATTT
1 ATTT-ATTTTTTAACTTT
14682720 A
1 A
14682721 CTTAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 3 0.10
16 12 0.39
17 4 0.13
18 12 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTTTTAACTTT
Found at i:14682714 original size:8 final size:8
Alignment explanation
Indices: 14682673--14682715 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
14682663 TTTTAAATTT
14682673 ATTTTTTA
1 ATTTTTTA
14682681 TACTTTATTT-
1 -A-TTT-TTTA
14682691 ATTTTTTA
1 ATTTTTTA
14682699 ATTTTTTA
1 ATTTTTTA
14682707 ATTTTTTA
1 ATTTTTTA
14682715 A
1 A
14682716 ATTTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 3 0.10
8 20 0.65
9 2 0.06
10 3 0.10
11 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:14683062 original size:1 final size:1
Alignment explanation
Indices: 14683051--14683149 Score: 54
Period size: 1 Copynumber: 99.0 Consensus size: 1
14683041 CCTAATGAGA
* * * * * * * * * * *
14683051 TTTTTTGTTTTTTGTTTCTTTTTGTTTTGTTTTGTTTTTGTTTTTGTTTGTTTTTGTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
14683116 TTTATTTTTTTATTTTTCTTTTGTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14683150 AAGGCTCAAG
Statistics
Matches: 66, Mismatches: 32, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (1 bp):
T
Found at i:14683074 original size:10 final size:10
Alignment explanation
Indices: 14683054--14683109 Score: 67
Period size: 10 Copynumber: 5.3 Consensus size: 10
14683044 AATGAGATTT
14683054 TTTGTTTTTTG
1 TTTG-TTTTTG
*
14683065 TTTCTTTTTG
1 TTTGTTTTTG
*
14683075 TTTTGTTTTGTT
1 -TTTGTTTT-TG
14683087 TTTGTTTTTG
1 TTTGTTTTTG
14683097 TTTGTTTTTG
1 TTTGTTTTTG
14683107 TTT
1 TTT
14683110 TTGTTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
10 20 0.51
11 18 0.46
12 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (10 bp):
TTTGTTTTTG
Found at i:14683078 original size:6 final size:6
Alignment explanation
Indices: 14683052--14683149 Score: 82
Period size: 6 Copynumber: 16.7 Consensus size: 6
14683042 CTAATGAGAT
* *
14683052 TTTTTG TTTTT- TGTTTC TTTTTG -TTTTG -TTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
* *
14683097 --TTTG TTTTTG TTTTTG TTTTT- TATTTTT TTATTTT TCTTTTG TTTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TT-TTTG T-TTTTG -TTTTTG
14683146 TTTT
1 TTTT
14683150 AAGGCTCAAG
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
4 4 0.05
5 15 0.19
6 44 0.56
7 14 0.18
8 2 0.03
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:14683078 original size:16 final size:16
Alignment explanation
Indices: 14683052--14683148 Score: 101
Period size: 16 Copynumber: 5.9 Consensus size: 16
14683042 CTAATGAGAT
*
14683052 TTTTTGTTTTTTGTTTC
1 TTTTTG-TTTTTGTTTG
14683069 TTTTTG-TTTTGTTTTG
1 TTTTTGTTTTTG-TTTG
14683085 TTTTTGTTTTTGTTTG
1 TTTTTGTTTTTGTTTG
14683101 TTTTTGTTTTTGTTT-
1 TTTTTGTTTTTGTTTG
* *
14683116 TTTATT-TTTTTATTTT
1 TTT-TTGTTTTTGTTTG
14683132 TCTTTTGTTTTTTGTTT
1 T-TTTTG-TTTTTGTTT
14683149 TAAGGCTCAA
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
15 16 0.23
16 33 0.47
17 13 0.19
18 8 0.11
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTGTTTTTGTTTG
Found at i:14683078 original size:22 final size:21
Alignment explanation
Indices: 14683053--14683149 Score: 89
Period size: 19 Copynumber: 4.8 Consensus size: 21
14683043 TAATGAGATT
14683053 TTTTGTTTTTTGTTTCTTTTTG
1 TTTTGTTTTTTGTTT-TTTTTG
14683075 TTTTGTTTTGTT-TTTGTTTTTG
1 TTTTGTTTT-TTGTTT-TTTTTG
*
14683097 -TTTG-TTTTTGTTTTTGTT-
1 TTTTGTTTTTTGTTTTTTTTG
* * *
14683115 TTTT-ATTTTT-TTATTTTTC
1 TTTTGTTTTTTGTTTTTTTTG
14683134 TTTTGTTTTTTGTTTT
1 TTTTGTTTTTTGTTTT
14683150 AAGGCTCAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.10
19 18 0.29
20 11 0.18
21 7 0.11
22 18 0.29
23 2 0.03
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (21 bp):
TTTTGTTTTTTGTTTTTTTTG
Found at i:14683380 original size:71 final size:72
Alignment explanation
Indices: 14683240--14683479 Score: 197
Period size: 71 Copynumber: 3.4 Consensus size: 72
14683230 GGTGATATAG
* * * *
14683240 TAAGTTGAAAAATAAAGAATGACTA-GAAAACACCACAAGTTAGAACATAAAGAACGATGGAAAC
1 TAAGTTGAAAAATAAAGAATGACTAGGAAAATATCGCAAGTCAGAACATAAAGAACGATGGAAAC
*
14683304 CACACCA
66 AACACCA
* * * * *
14683311 TAAGTTGAAAAATAAAGAATGACTAGGACAATATCGCAAGTCATAA-ATAGAGAATGATTGG-GA
1 TAAGTTGAAAAATAAAGAATGACTAGGAAAATATCGCAAGTCAGAACATAAAGAACGA-TGGAAA
*
14683374 CAACACCG
65 CAACACCA
* * * * * * * * * *
14683382 CAAGTTGTAAAATAAAGAAAGATTGGGATAATATCGCAAGTTAGAAAATAAAGAACAAT-CAAGA
1 TAAGTTGAAAAATAAAGAATGACTAGGAAAATATCGCAAGTCAGAACATAAAGAACGATGGAA-A
14683446 CAACACCA
65 CAACACCA
* *
14683454 CCAA--T-CAAAATAAAGAATGACTAGGA
1 -TAAGTTGAAAAATAAAGAATGACTAGGA
14683480 CAACACCGTA
Statistics
Matches: 134, Mismatches: 29, Indels: 13
0.76 0.16 0.07
Matches are distributed among these distances:
70 17 0.13
71 81 0.60
72 33 0.25
73 3 0.02
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (72 bp):
TAAGTTGAAAAATAAAGAATGACTAGGAAAATATCGCAAGTCAGAACATAAAGAACGATGGAAAC
AACACCA
Found at i:14683598 original size:36 final size:36
Alignment explanation
Indices: 14683241--14683652 Score: 146
Period size: 35 Copynumber: 11.6 Consensus size: 36
14683231 GTGATATAGT
* * * *
14683241 AAGTTGAAAAATAAAGAATGACTA-GAAAACACCAC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
* * * * * * *
14683276 AAGTTAGAACATAAAGAACGA--TGGAAACCACACCAT
1 AAGTTAAAAAATAAAGAATGACCAGG--ACAATACCAC
* * * *
14683312 AAGTTGAAAAATAAAGAATGACTAGGACAATATCGC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
* * * *** * *
14683348 AAG-TCATAAATAGAGAATGATTGGGACAACACCGC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
** * *** * * *
14683383 AAGTTGTAAAATAAAGAAAGATTGGGATAATATCGC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
* ** * * *
14683419 AAGTTAGAAAATAAAGAACAATCAAGACAACACCACC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCA-C
* * * **
14683456 AA--T-CAAAATAAAGAATGACTAGGACAACACCGT
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
** ** * **
14683489 AAG-TCCAAAATAAAGAACAACTAGGACAATACTGC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
* * *
14683524 AAGTCT--AAAATAAAGAA-CATCTAGGACAACACCAC
1 AAGT-TAAAAAATAAAGAATGA-CCAGGACAATACCAC
* * * * ***
14683559 AAGTTAGAAAATAAAAAATGATCGGGACAATATTGC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
*
14683595 AAG-TAAAAAATAAAGAATGACCAGGATAATACCAC
1 AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
14683630 AAGTTAAAAAATAAAGAATGACC
1 AAGTTAAAAAATAAAGAATGACC
14683653 TAGACAACAC
Statistics
Matches: 283, Mismatches: 78, Indels: 31
0.72 0.20 0.08
Matches are distributed among these distances:
33 2 0.01
34 26 0.09
35 128 0.45
36 120 0.42
37 5 0.02
38 2 0.01
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (36 bp):
AAGTTAAAAAATAAAGAATGACCAGGACAATACCAC
Found at i:14683605 original size:71 final size:71
Alignment explanation
Indices: 14683512--14683669 Score: 183
Period size: 71 Copynumber: 2.2 Consensus size: 71
14683502 AGAACAACTA
** * *
14683512 GGACAATACTGCAAGTCTAAAATAAAGAA-CATCTAGGACAACACCACAAGTTAGAAAATAAAAA
1 GGACAATACTGCAAGTAAAAAATAAAGAATCA-CCAGGACAACACCACAAGTTAAAAAATAAAAA
14683576 ATGATCG
65 ATGATCG
* * * * *
14683583 GGACAATATTGCAAGTAAAAAATAAAGAATGACCAGGATAATACCACAAGTTAAAAAATAAAGAA
1 GGACAATACTGCAAGTAAAAAATAAAGAATCACCAGGACAACACCACAAGTTAAAAAATAAAAAA
* *
14683648 TGACCT
66 TGATCG
* *
14683654 AGACAACACTGCAAGT
1 GGACAATACTGCAAGT
14683670 CAGACTAGGA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 71 0.99
72 1 0.01
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (71 bp):
GGACAATACTGCAAGTAAAAAATAAAGAATCACCAGGACAACACCACAAGTTAAAAAATAAAAAA
TGATCG
Found at i:14683669 original size:36 final size:37
Alignment explanation
Indices: 14683241--14683669 Score: 184
Period size: 36 Copynumber: 12.1 Consensus size: 37
14683231 GTGATATAGT
* * *
14683241 AAGTTGAAAAATAAAGAATGA-CTA-GAAAACACCAC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
* * * * **
14683276 AAGTTAGAACATAAAGAACGA--T-GGAAACCACACCAT
1 AAGTTAAAAAATAAAGAATGACCTAGG--ACAACACCGC
* * *
14683312 AAGTTGAAAAATAAAGAATGA-CTAGGACAATATCGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
* * * * *
14683348 AAG-TCATAAATAGAGAATGA-TTGGGACAACACCGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
** * * * * * *
14683383 AAGTTGTAAAATAAAGAAAGA-TTGGGATAATATCGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
* ** * * *
14683419 AAGTTAGAAAATAAAGAACAATC-AAGACAACACCACC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACC-GC
* *
14683456 AA--T-CAAAATAAAGAATGA-CTAGGACAACACCGT
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
** * * * *
14683489 AAG-TCCAAAATAAAGAA-CAACTAGGACAATACTGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
* * *
14683524 AAGTCT--AAAATAAAGAA-CATCTAGGACAACACCAC
1 AAGT-TAAAAAATAAAGAATGACCTAGGACAACACCGC
* * * * * **
14683559 AAGTTAGAAAATAAAAAATGATC-GGGACAATATTGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
* * *
14683595 AAG-TAAAAAATAAAGAATGACC-AGGATAATACCAC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
*
14683630 AAGTTAAAAAATAAAGAATGACCTA-GACAACACTGC
1 AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
14683666 AAGT
1 AAGT
14683670 CAGACTAGGA
Statistics
Matches: 300, Mismatches: 75, Indels: 37
0.73 0.18 0.09
Matches are distributed among these distances:
33 3 0.01
34 27 0.09
35 129 0.43
36 130 0.43
37 9 0.03
38 2 0.01
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.17
Consensus pattern (37 bp):
AAGTTAAAAAATAAAGAATGACCTAGGACAACACCGC
Found at i:14683815 original size:72 final size:70
Alignment explanation
Indices: 14683696--14683942 Score: 206
Period size: 72 Copynumber: 3.4 Consensus size: 70
14683686 TACAAGTTGA
* * ** * *
14683696 AAAATAAAGAATTACTAGGATAACTTCACAGGTTAGAAAATAAAGAACAATCAGGATAACATTGT
1 AAAATAAAGAATGACTAGGACAACACCACAAGTTA-AAAATAAAGAACAATCAGGACAACATTGT
14683761 AGGTTAG
65 A-GTTAG
* * * * **
14683768 AAAATAAAGAATGACTAGGATAACACCACAAGTTGAAAAATATAGAACCATCGGGACAACATCAT
1 AAAATAAAGAATGACTAGGACAACACCACAAGTT-AAAAATAAAGAACAATCAGGACAACATTGT
14683833 AGTTAAG
65 AGTT-AG
* * * * * * ** * *
14683840 AAATTAAAGAACGACTGGGACAACACTACATGTCAAAAAATAAAGAATGATCAAGACGACATTGC
1 AAAATAAAGAATGACTAGGACAACACCACAAGT-TAAAAATAAAGAACAATCAGGACAACATTG-
* * *
14683905 AAGTCAA
64 TAGTTAG
*
14683912 AAAATATAGAATGACTAGGACAACACCACAA
1 AAAATAAAGAATGACTAGGACAACACCACAA
14683943 ATCAAAAAAT
Statistics
Matches: 137, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
71 3 0.02
72 130 0.95
73 4 0.03
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (70 bp):
AAAATAAAGAATGACTAGGACAACACCACAAGTTAAAAATAAAGAACAATCAGGACAACATTGTA
GTTAG
Found at i:14683884 original size:36 final size:36
Alignment explanation
Indices: 14683672--14683962 Score: 144
Period size: 36 Copynumber: 8.1 Consensus size: 36
14683662 CTGCAAGTCA
**
14683672 GACTAGGACAACACTACAAGTTGAAAAATAAAGAAT
1 GACTAGGACAACACTACAAGTCAAAAAATAAAGAAT
* * * * * *
14683708 TACTAGGATAAC-TTCACAGGTTAGAAAATAAAGAA-
1 GACTAGGACAACACT-ACAAGTCAAAAAATAAAGAAT
* * * * ** * * *
14683743 CAATCAGGATAACATTGTAGGTTAGAAAATAAAGAAT
1 GACT-AGGACAACACTACAAGTCAAAAAATAAAGAAT
* * ** * *
14683780 GACTAGGATAACACCACAAGTTGAAAAATATAGAAC
1 GACTAGGACAACACTACAAGTCAAAAAATAAAGAAT
* * * * *
14683816 CA-TCGGGACAACA-T-CATAGTTAAGAAATTAAAGAAC
1 GACT-AGGACAACACTACA-AGTCAA-AAAATAAAGAAT
* *
14683852 GACTGGGACAACACTACATGTCAAAAAATAAAGAAT
1 GACTAGGACAACACTACAAGTCAAAAAATAAAGAAT
* * * * *
14683888 GA-TCAAGACGACATTGCAAGTCAAAAAATATAGAAT
1 GACT-AGGACAACACTACAAGTCAAAAAATAAAGAAT
* * *
14683924 GACTAGGACAACACCACAAATCAAAAAATAAAAAAT
1 GACTAGGACAACACTACAAGTCAAAAAATAAAGAAT
14683960 GAC
1 GAC
14683963 CCAAGCAACA
Statistics
Matches: 195, Mismatches: 48, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
34 2 0.01
35 10 0.05
36 170 0.87
37 11 0.06
38 2 0.01
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.18
Consensus pattern (36 bp):
GACTAGGACAACACTACAAGTCAAAAAATAAAGAAT
Found at i:14684155 original size:33 final size:34
Alignment explanation
Indices: 14684118--14684182 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
14684108 TAAAACTTCA
* * *
14684118 TTGGGTGCTAATTAAAGTAGG-TTTAAATTTTTT
1 TTGGGTGCCAAGTAAAGTAGGCTTCAAATTTTTT
*
14684151 TTGGGTGCCAAGTAAATTAGGCTTCAAATTTT
1 TTGGGTGCCAAGTAAAGTAGGCTTCAAATTTT
14684183 GTTAGGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (34 bp):
TTGGGTGCCAAGTAAAGTAGGCTTCAAATTTTTT
Found at i:14684212 original size:32 final size:32
Alignment explanation
Indices: 14684163--14684241 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
14684153 GGGTGCCAAG
* * ** *
14684163 TAAATTAGGCTTCAAATTTTGTTAGGGCTAGA
1 TAAACTAGGCTTAAAATTTCATTAGGGCCAGA
* *
14684195 TAAACTGGGCTTAAAATTTCATTGGGGCCAGA
1 TAAACTAGGCTTAAAATTTCATTAGGGCCAGA
14684227 TAAACTAGGCTTAAA
1 TAAACTAGGCTTAAA
14684242 TCTTTTCATG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (32 bp):
TAAACTAGGCTTAAAATTTCATTAGGGCCAGA
Found at i:14684266 original size:35 final size:33
Alignment explanation
Indices: 14684187--14684277 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
14684177 AATTTTGTTA
* * *
14684187 GGGCTAGATAAACTGGGCTTAAA-ATTTCATTG
1 GGGCCAGATAAACTAGGCTTAAATATTTCATGG
*
14684219 GGGCCAGATAAACTAGGCTTAAATCTTTTCATGG
1 GGGCCAGATAAACTAGGCTTAAAT-ATTTCATGG
* * *
14684253 GGTGCCAGCTAAACTAAGTTTAAAT
1 GG-GCCAGATAAACTAGGCTTAAAT
14684278 TCTACATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 21 0.43
34 9 0.18
35 19 0.39
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (33 bp):
GGGCCAGATAAACTAGGCTTAAATATTTCATGG
Found at i:14684317 original size:69 final size:67
Alignment explanation
Indices: 14684228--14684425 Score: 190
Period size: 69 Copynumber: 2.9 Consensus size: 67
14684218 GGGGCCAGAT
14684228 AAACTAGGCTTAAATCTTTTCATGGGGTGCCAGCTAAACTAAGTTTAAATTCTACATTAAGTGG-
1 AAACT-GGCTTAAATCTTTTCATGGGGTGCCAGCTAAACTAAGTTTAAATT-T-CATTAAGTGGA
*
14684292 CAGAC
63 CAAAC
* * * * *
14684297 AATCTGAGCTTAAATTTTTTCATGAGGTGCCAACTATAA-TGAGTTTAAAATTTCATT-AG-GGA
1 AAACTG-GCTTAAATCTTTTCATGGGGTGCCAGCTA-AACTAAGTTT-AAATTTCATTAAGTGGA
*
14684359 CAAAT
63 CAAAC
* * *
14684364 AAACTGGACTTAAATCTTTTCAT-GGGTGCTAGCTAAACTAGGCTTAAAATTTGCATTAAGTG
1 AAACTGG-CTTAAATCTTTTCATGGGGTGCCAGCTAAACTAAG-TTTAAATTT-CATTAAGTG
14684426 CCAGCTAAGT
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
65 2 0.02
66 20 0.19
67 30 0.29
68 7 0.07
69 38 0.37
70 7 0.07
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (67 bp):
AAACTGGCTTAAATCTTTTCATGGGGTGCCAGCTAAACTAAGTTTAAATTTCATTAAGTGGACAA
AC
Found at i:14685366 original size:14 final size:14
Alignment explanation
Indices: 14685349--14685402 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
14685339 ACCCATTCAT
*
14685349 TTCTTTTCTTTTCC
1 TTCTTTTCTTTTTC
*
14685363 TTCTTTTCCTTTGTTT
1 TTCTTTT-CTTT-TTC
*
14685379 TTCTTTTTTTTTTC
1 TTCTTTTCTTTTTC
14685393 TTC-TTTCTTT
1 TTCTTTTCTTT
14685403 CATGTTCTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.18
14 12 0.36
15 7 0.21
16 8 0.24
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:14685961 original size:10 final size:10
Alignment explanation
Indices: 14685912--14685962 Score: 57
Period size: 10 Copynumber: 4.8 Consensus size: 10
14685902 TTCTTTTGTC
14685912 TTTTTTTTCT
1 TTTTTTTTCT
*
14685922 CTTTTTTTCT
1 TTTTTTTTCT
*
14685932 TAACTTTTTTACT
1 T---TTTTTTTCT
14685945 TTTTTTTTCT
1 TTTTTTTTCT
14685955 TTTTTTTT
1 TTTTTTTT
14685963 GACTAACCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 25 0.74
13 9 0.26
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:14689757 original size:21 final size:21
Alignment explanation
Indices: 14689732--14689771 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14689722 AGTAAATGAG
14689732 TAGATAATTGCATTCACATTA
1 TAGATAATTGCATTCACATTA
* **
14689753 TAGATTATTGTGTTCACAT
1 TAGATAATTGCATTCACAT
14689772 GTAAATCTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
TAGATAATTGCATTCACATTA
Found at i:14696423 original size:21 final size:21
Alignment explanation
Indices: 14696397--14696454 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
14696387 AAATGGGCAA
14696397 ATTATTGTGTTCACATTACAC
1 ATTATTGTGTTCACATTACAC
14696418 ATTATTGTGTTCACATTACAC
1 ATTATTGTGTTCACATTACAC
14696439 ATTATTGTGTTCACAT
1 ATTATTGTGTTCACAT
14696455 ACAAATCCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
ATTATTGTGTTCACATTACAC
Found at i:14699056 original size:3 final size:3
Alignment explanation
Indices: 14699048--14699083 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14699038 AGGTATAATC
14699048 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14699084 TTGCTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14702898 original size:25 final size:25
Alignment explanation
Indices: 14702865--14702981 Score: 87
Period size: 25 Copynumber: 4.6 Consensus size: 25
14702855 CTCAACTAGG
* *
14702865 GTTTCATTTAAGGTTTTATTTTAGA
1 GTTTCATTTAGGGTTTCATTTTAGA
* * *
14702890 GTTTTATTTTAGGGTTTCATTTTGGG
1 GTTTCA-TTTAGGGTTTCATTTTAGA
** *
14702916 GTTTCATTTACAGTTT--TGTTTAAA
1 GTTTCATTTAGGGTTTCAT-TTTAGA
*
14702940 GTTTCATTTTAGGGTTTCATTTT-GG
1 GTTTCA-TTTAGGGTTTCATTTTAGA
*
14702965 GTTTTGATTTAGGGTTT
1 G-TTTCATTTAGGGTTT
14702982 AGGATTTTAC
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 9 0.13
25 32 0.46
26 27 0.39
27 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.21, T:0.56
Consensus pattern (25 bp):
GTTTCATTTAGGGTTTCATTTTAGA
Found at i:14702931 original size:38 final size:37
Alignment explanation
Indices: 14702861--14702981 Score: 118
Period size: 37 Copynumber: 3.2 Consensus size: 37
14702851 AGGACTCAAC
* * * *
14702861 TAGGGTTTCA-TTTAAGGTTTTATTTTAGAGTTTTATTT
1 TAGGGTTTCATTTTAGGGTTTCA-TTTACAGTTTT-GTT
*
14702899 TAGGGTTTCATTTTGGGGTTTCATTTACAGTTTTGTT
1 TAGGGTTTCATTTTAGGGTTTCATTTACAGTTTTGTT
** ***
14702936 TAAAGTTTCATTTTAGGGTTTCATTTTGGGTTTTGATT
1 TAGGGTTTCATTTTAGGGTTTCATTTACAGTTTTG-TT
14702974 TAGGGTTT
1 TAGGGTTT
14702982 AGGATTTTAC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
37 31 0.46
38 28 0.41
39 9 0.13
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.55
Consensus pattern (37 bp):
TAGGGTTTCATTTTAGGGTTTCATTTACAGTTTTGTT
Found at i:14702956 original size:50 final size:51
Alignment explanation
Indices: 14702863--14702981 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 51
14702853 GACTCAACTA
* * *
14702863 GGGTTTCATTTAAGGTTTTATTTTAGAGTTTTATTTTAGGGTTTCATTTTG
1 GGGTTTCATTTAAGGTTTTAGTTTAAAGTTTCATTTTAGGGTTTCATTTTG
14702914 GGGTTTCATTTACA-GTTTT-GTTTAAAGTTTCATTTTAGGGTTTCATTTTG
1 GGGTTTCATTTA-AGGTTTTAGTTTAAAGTTTCATTTTAGGGTTTCATTTTG
* * *
14702964 GGTTTTGATTTAGGGTTT
1 GGGTTTCATTTAAGGTTT
14702982 AGGATTTTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 42 0.70
51 17 0.28
52 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.23, T:0.55
Consensus pattern (51 bp):
GGGTTTCATTTAAGGTTTTAGTTTAAAGTTTCATTTTAGGGTTTCATTTTG
Found at i:14702968 original size:12 final size:13
Alignment explanation
Indices: 14702861--14702981 Score: 92
Period size: 13 Copynumber: 9.6 Consensus size: 13
14702851 AGGACTCAAC
14702861 TAGGGTTTCA-TT
1 TAGGGTTTCATTT
* *
14702873 TAAGGTTTTATTT
1 TAGGGTTTCATTT
* *
14702886 TAGAGTTTTATTT
1 TAGGGTTTCATTT
14702899 TAGGGTTTCATTT
1 TAGGGTTTCATTT
*
14702912 TGGGGTTTCA-TT
1 TAGGGTTTCATTT
**
14702924 TACAGTTT--TGTT
1 TAGGGTTTCAT-TT
**
14702936 TAAAGTTTCATTT
1 TAGGGTTTCATTT
14702949 TAGGGTTTCATTT
1 TAGGGTTTCATTT
*
14702962 T-GGGTTTTGA-TT
1 TAGGG-TTTCATTT
14702974 TAGGGTTT
1 TAGGGTTT
14702982 AGGATTTTAC
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
12 33 0.38
13 54 0.61
14 1 0.01
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.55
Consensus pattern (13 bp):
TAGGGTTTCATTT
Found at i:14704588 original size:18 final size:19
Alignment explanation
Indices: 14704565--14704615 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
14704555 AAGCCCATTT
* *
14704565 TTATTTGTC-TTTTTTTTA
1 TTATTTATCATTTTTATTA
14704583 TTATTTATCATTTTTATTA
1 TTATTTATCATTTTTATTA
*
14704602 CTA-TT-TCATTTTTA
1 TTATTTATCATTTTTA
14704616 AATTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 9 0.31
18 10 0.34
19 10 0.34
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (19 bp):
TTATTTATCATTTTTATTA
Found at i:14704606 original size:19 final size:17
Alignment explanation
Indices: 14704577--14704615 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14704567 ATTTGTCTTT
14704577 TTTTTATTA-T-TTATCA
1 TTTTTATTACTATT-TCA
14704593 TTTTTATTACTATTTCA
1 TTTTTATTACTATTTCA
14704610 TTTTTA
1 TTTTTA
14704616 AATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATTACTATTTCA
Found at i:14704690 original size:5 final size:5
Alignment explanation
Indices: 14704680--14704715 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
14704670 TTTTAAATTT
14704680 TTTAA TTTAA TTTAA TTT-- TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
14704716 GACATATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
5 26 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
TTTAA
Found at i:14704698 original size:18 final size:18
Alignment explanation
Indices: 14704675--14704715 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
14704665 TTAAATTTTA
14704675 AATTTTTTAATTTAATTT
1 AATTTTTTAATTTAATTT
14704693 AATTTTTTAATTTAATTT
1 AATTTTTTAATTTAATTT
14704711 AATTT
1 AATTT
14704716 GACATATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTTTTTAATTTAATTT
Found at i:14704701 original size:13 final size:13
Alignment explanation
Indices: 14704685--14704710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14704675 AATTTTTTAA
14704685 TTTAATTTAATTT
1 TTTAATTTAATTT
14704698 TTTAATTTAATTT
1 TTTAATTTAATTT
14704711 AATTTGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAATTTAATTT
Found at i:14704712 original size:52 final size:51
Alignment explanation
Indices: 14704611--14704712 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 51
14704601 ACTATTTCAT
* **
14704611 TTTTAAATTTTAAATTTATTATTTATTATTTATTTTTATTTGTTTTTTAAAA
1 TTTTAAATTTTAAATTTATTATTTA-TATTTATTTTTAATTGTAATTTAAAA
*
14704663 TTTTAAATTTTAAATTTTTTAATTTA-ATTTAATTTTTTAATT-TAATTTAA
1 TTTTAAATTTTAAATTTATT-ATTTATATTT-A-TTTTTAATTGTAATTTAA
14704713 TTTGACATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
51 4 0.09
52 26 0.60
53 13 0.30
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (51 bp):
TTTTAAATTTTAAATTTATTATTTATATTTATTTTTAATTGTAATTTAAAA
Found at i:14704750 original size:21 final size:21
Alignment explanation
Indices: 14704726--14704766 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14704716 GACATATTGA
* *
14704726 TATATTTATTATGATTATTAT
1 TATAATTATTATGATCATTAT
14704747 TATAATTATTATGATCATTA
1 TATAATTATTATGATCATTA
14704767 ATACGCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TATAATTATTATGATCATTAT
Found at i:14708420 original size:25 final size:25
Alignment explanation
Indices: 14708383--14708434 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
14708373 CTGAAAACCA
*
14708383 TAAAGATCGAGCACATCATAATCCC
1 TAAAGATCAAGCACATCATAATCCC
14708408 TAAAGATCAAGCACATCATAATCCC
1 TAAAGATCAAGCACATCATAATCCC
14708433 TA
1 TA
14708435 CGAGCTCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (25 bp):
TAAAGATCAAGCACATCATAATCCC
Found at i:14711228 original size:33 final size:31
Alignment explanation
Indices: 14711153--14711242 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 31
14711143 GATTTTTATG
14711153 TTTTTACTTATTTTCATTAATCATTTTTATCATTA
1 TTTTTA-TTA-TTT-ATTAATC-TTTTTATCATTA
* *
14711188 TTATTATTATTTATTAATCTTTTACTATCTTTA
1 TTTTTATTATTTATTAATCTTTT--TATCATTA
*
14711221 TTTTTATTATTTAATAAT-TTTT
1 TTTTTATTATTTATTAATCTTTT
14711243 CAACATCTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
31 4 0.08
32 11 0.22
33 26 0.53
34 3 0.06
35 5 0.10
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTATTATTTATTAATCTTTTTATCATTA
Found at i:14711266 original size:3 final size:3
Alignment explanation
Indices: 14711258--14711284 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14711248 TCTAGGTGAA
14711258 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
14711285 TTAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14713230 original size:14 final size:14
Alignment explanation
Indices: 14713211--14713249 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14713201 TTAAATTGTG
*
14713211 AGAAAAAATAAATA
1 AGAAAAAAGAAATA
*
14713225 AGAAAAGAGAAATA
1 AGAAAAAAGAAATA
*
14713239 ATAAAAAAGAA
1 AGAAAAAAGAA
14713250 TTTTGTCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
AGAAAAAAGAAATA
Found at i:14713236 original size:21 final size:21
Alignment explanation
Indices: 14713210--14713249 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14713200 TTTAAATTGT
*
14713210 GAGAAAAAATAAATAAGAAAA
1 GAGAAAAAATAAAAAAGAAAA
*
14713231 GAGAAATAATAAAAAAGAA
1 GAGAAAAAATAAAAAAGAA
14713250 TTTTGTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
GAGAAAAAATAAAAAAGAAAA
Found at i:14713435 original size:19 final size:18
Alignment explanation
Indices: 14713407--14713442 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14713397 TCAGATGGTT
*
14713407 ATGACTTTATGTATAATC
1 ATGACTTTATGAATAATC
14713425 ATGACCTTTATGAATAAT
1 ATGA-CTTTATGAATAAT
14713443 AATCTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
ATGACTTTATGAATAATC
Found at i:14714193 original size:20 final size:21
Alignment explanation
Indices: 14714168--14714207 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14714158 ACTCTATATA
14714168 TTTTTT-CCTTAGT-TTTTTTT
1 TTTTTTGCCTT-GTATTTTTTT
14714188 TTTTTTGCCTTGTATTTTTT
1 TTTTTTGCCTTGTATTTTTT
14714208 AAGCTACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTTGCCTTGTATTTTTTT
Found at i:14714198 original size:21 final size:19
Alignment explanation
Indices: 14714168--14714207 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
14714158 ACTCTATATA
*
14714168 TTTTTTCCTTAGTTTTTTTT
1 TTTTTTCCTT-GTATTTTTT
14714188 TTTTTTGCCTTGTATTTTTT
1 TTTTTT-CCTTGTATTTTTT
14714208 AAGCTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTTTCCTTGTATTTTTT
Found at i:14714795 original size:10 final size:9
Alignment explanation
Indices: 14714754--14714797 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
14714744 TTTTATATTT
14714754 TATTTTTTA
1 TATTTTTTA
*
14714763 TATGTGTTTA
1 TAT-TTTTTA
*
14714773 TATGTTTTA
1 TATTTTTTA
14714782 TATTTTTTA
1 TATTTTTTA
14714791 TTATTTT
1 -TATTTT
14714798 ATCTATCACG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (9 bp):
TATTTTTTA
Found at i:14715156 original size:6 final size:6
Alignment explanation
Indices: 14715142--14715207 Score: 105
Period size: 6 Copynumber: 10.8 Consensus size: 6
14715132 CGACAAGAAT
*
14715142 TTTTTG TTTTCG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
*
14715190 TTTTTAT TTTTTG TTTTT
1 TTTTT-G TTTTTG TTTTT
14715208 ACTTTTTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
6 50 0.91
7 5 0.09
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:14715217 original size:18 final size:17
Alignment explanation
Indices: 14715141--14715253 Score: 88
Period size: 18 Copynumber: 6.2 Consensus size: 17
14715131 ACGACAAGAA
14715141 TTTTTTG-TTTTCGTTTT
1 TTTTTTGTTTTTC-TTTT
*
14715158 TGTTTTTGTTTTTGTTTT
1 T-TTTTTGTTTTTCTTTT
*
14715176 TGTTTTTGTTTTTGTTTTT
1 T-TTTTTGTTTTT-CTTTT
14715195 ATTTTTTGTTTTTACTTTT
1 -TTTTTTGTTTTT-CTTTT
*
14715214 TTTTGTT-TGTTTGCTTTT
1 TTTT-TTGT-TTTTCTTTT
14715232 TTATGTTT-TTTTTCTTTT
1 TT-T-TTTGTTTTTCTTTT
14715250 TTTT
1 TTTT
14715254 ATGATGACTA
Statistics
Matches: 82, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.01
17 2 0.02
18 45 0.55
19 32 0.39
20 2 0.02
ACGTcount: A:0.03, C:0.04, G:0.12, T:0.82
Consensus pattern (17 bp):
TTTTTTGTTTTTCTTTT
Found at i:14715242 original size:9 final size:8
Alignment explanation
Indices: 14715154--14715243 Score: 60
Period size: 8 Copynumber: 10.6 Consensus size: 8
14715144 TTTGTTTTCG
14715154 TTTTTGTT
1 TTTTTGTT
*
14715162 TTTGTTTTT
1 TTT-TTGTT
14715171 GTTTTTGTT
1 -TTTTTGTT
14715180 TTTGTT-TT
1 TTT-TTGTT
14715188 TGTTTT-TAT
1 T-TTTTGT-T
14715197 TTTTTGTT
1 TTTTTGTT
*
14715205 TTTACT-TT
1 TTT-TTGTT
14715213 TTTTTGTT
1 TTTTTGTT
*
14715221 TGTTTGCTT
1 TTTTTG-TT
14715230 TTTTATGTT
1 TTTT-TGTT
14715239 TTTTT
1 TTTTT
14715244 TCTTTTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
7 1 0.02
8 33 0.50
9 27 0.41
10 5 0.08
ACGTcount: A:0.03, C:0.02, G:0.12, T:0.82
Consensus pattern (8 bp):
TTTTTGTT
Found at i:14715243 original size:10 final size:9
Alignment explanation
Indices: 14715143--14715253 Score: 57
Period size: 9 Copynumber: 11.9 Consensus size: 9
14715133 GACAAGAATT
14715143 TTTTGTTTTC
1 TTTT-TTTTC
14715153 GTTTTTGTTT-
1 -TTTTT-TTTC
* *
14715163 TTGTTTTTG
1 TTTTTTTTC
14715172 TTTTTGTTT-
1 TTTTT-TTTC
* *
14715181 TTGTTTTTG
1 TTTTTTTTC
14715190 TTTTTATTT-
1 TTTTT-TTTC
14715199 TTTGTTTTTAC
1 TTT-TTTTT-C
*
14715210 TTTTTTTTG
1 TTTTTTTTC
* *
14715219 TTTGTTTGC
1 TTTTTTTTC
* *
14715228 TTTTTTATG
1 TTTTTTTTC
14715237 TTTTTTTTC
1 TTTTTTTTC
14715246 TTTTTTTT
1 TTTTTTTT
14715254 ATGATGACTA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
8 6 0.08
9 48 0.62
10 14 0.18
11 10 0.13
ACGTcount: A:0.03, C:0.04, G:0.12, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:14715252 original size:12 final size:12
Alignment explanation
Indices: 14715141--14715253 Score: 93
Period size: 12 Copynumber: 9.0 Consensus size: 12
14715131 ACGACAAGAA
*
14715141 TTTTTTGTTTTC
1 TTTTTTGTTTTT
*
14715153 GTTTTTGTTTTT
1 TTTTTTGTTTTT
*
14715165 GTTTTTGTTTTT
1 TTTTTTGTTTTT
*
14715177 GTTTTTGTTTTT
1 TTTTTTGTTTTT
* *
14715189 GTTTTTATTTTT
1 TTTTTTGTTTTT
*
14715201 TGTTTTTACTTTTT
1 T-TTTTT-GTTTTT
14715215 TTTGTTTGTTTGCTT
1 TTT-TTTGTTT--TT
*
14715230 TTTTATGTTTTT
1 TTTTTTGTTTTT
14715242 TTTCTTT-TTTTT
1 TTT-TTTGTTTTT
14715254 ATGATGACTA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
12 55 0.63
13 12 0.14
14 15 0.17
15 5 0.06
ACGTcount: A:0.03, C:0.04, G:0.12, T:0.82
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:14715563 original size:33 final size:32
Alignment explanation
Indices: 14715511--14716032 Score: 125
Period size: 34 Copynumber: 15.8 Consensus size: 32
14715501 TCTTTTTATG
* *
14715511 AGTGTCAAATAAACTAGGCTTCAA-TTTCATT
1 AGTGCCAAATAAACTAGGCTTAAATTTTCATT
*
14715542 AGGTGCCAAATAATTCTAGGCTTAAATTTTCATT
1 A-GTGCCAAATAA-ACTAGGCTTAAATTTTCATT
***
14715576 AGTGCCAGCCAAACT-GTGCTTAAATCTTTCATT
1 AGTGCCAAATAAACTAG-GCTTAAAT-TTTCATT
* * * *
14715609 GGATGCTAACTAAACTGGGCTTTAAA-TTTCATT
1 AG-TGCCAAATAAACTAGGC-TTAAATTTTCATT
* ** * *
14715642 AGGTGCTAGCTAAACTGGGCTT-AATCTTTCATG
1 A-GTGCCAAATAAACTAGGCTTAAAT-TTTCATT
* * * * * *
14715675 AATGCCAGATAAATTGGGCTTATA-TCTCATT
1 AGTGCCAAATAAACTAGGCTTAAATTTTCATT
* ** *** *
14715706 GGGTGCCAGTTAAACTACATTTAAATCATTT-TTT
1 -AGTGCCAAATAAACTAGGCTTAAAT--TTTCATT
* * ** *
14715740 GGGTGCTAGCTAAACT-GAGCTTAAATCTTTTCATG
1 -AGTGCCAAATAAACTAG-GCTTAAA--TTTTCATT
* ** * * *
14715775 AATGCCAGCTAAACTGGGTTTAAATATTTTATT
1 AGTGCCAAATAAACTAGGCTTAAAT-TTTCATT
**** * **
14715808 AG-GTCTTGGCTAAATTAGGCTTAAAACTTCATT
1 AGTG-C-CAAATAAACTAGGCTTAAATTTTCATT
* * *
14715841 GGATGCCAACTAAACTAGGCTTAAATCTTTTATT
1 AG-TGCCAAATAAACTAGGCTTAAAT-TTTCATT
** * * **
14715875 AG-GTCCGAGCTAAACTGGGTTTAAAACTTCATT
1 AGTG-CC-AAATAAACTAGGCTTAAATTTTCATT
* *
14715908 GAGTGCCAACTAAACT-GGCTTAAATCTTTTCATG
1 -AGTGCCAAATAAACTAGGCTTAAA--TTTTCATT
* *
14715942 AGTGCCAGATAAA-TCGAGCTTAAATTTT-ATT
1 AGTGCCAAATAAACTAG-GCTTAAATTTTCATT
* *
14715973 AGGTGCTAGATAAACTAGGCTTAAATATTTCATT
1 A-GTGCCAAATAAACTAGGCTTAAAT-TTTCATT
*
14716007 AGGTGCCAGATAAACT-GAGCTTAAAT
1 A-GTGCCAAATAAACTAG-GCTTAAAT
14716033 CATCATTGGG
Statistics
Matches: 371, Mismatches: 80, Indels: 77
0.70 0.15 0.15
Matches are distributed among these distances:
31 12 0.03
32 87 0.23
33 118 0.32
34 141 0.38
35 12 0.03
36 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (32 bp):
AGTGCCAAATAAACTAGGCTTAAATTTTCATT
Found at i:14715720 original size:64 final size:67
Alignment explanation
Indices: 14715571--14716089 Score: 170
Period size: 67 Copynumber: 7.8 Consensus size: 67
14715561 GCTTAAATTT
* * * *
14715571 TCATTA-GTGCCAGCCAAACTGTGCTTAAATCTTTCATTGGATGCTAACTAAACTGGGCTTTAAA
1 TCATTAGGTGCCAGCTAAACTGGGCTTAAATCTTTCATTGAATGCCAACTAAACTGGGCTTTAAA
*
14715635 TT
66 TC
* * *
14715637 TCATTAGGTGCTAGCTAAACTGGGCTT-AATCTTTCA-TGAATGCCAGA-TAAATTGGGC-TTAT
1 TCATTAGGTGCCAGCTAAACTGGGCTTAAATCTTTCATTGAATGCCA-ACTAAACTGGGCTTTAA
14715698 ATC
65 ATC
* * **** * ** * * *
14715701 TCATTGGGTGCCAGTTAAACTACATTTAAATCATTT-TTTGGGTGCTAGCTAAACTGAGC-TTAA
1 TCATTAGGTGCCAGCTAAACTGGGCTTAAATC-TTTCATTGAATGCCAACTAAACTGGGCTTTAA
14715764 ATC
65 ATC
* * * * * * *** * *
14715767 T-TTTCATGAATGCCAGCTAAACTGGGTTTAAATATTTTATT--AGGTCTTGGCTAAATTAGGC-
1 TCATT-A-G-GTGCCAGCTAAACTGGGCTTAAATCTTTCATTGAATG-C-CAACTAAACTGGGCT
*
14715828 TTAAAAC
61 TTAAATC
* * * * *
14715835 TTCATT-GGATGCCAACTAAACTAGGCTTAAATCTTTTATT--AGGTCCGAGCTAAACTGGG-TT
1 -TCATTAGG-TGCCAGCTAAACTGGGCTTAAATCTTTCATTGAATG-CC-AACTAAACTGGGCTT
*
14715896 TAAAAC
62 TAAATC
* * *
14715902 TTCATT-GAGTGCCAACTAAACT-GGCTTAAATCTTTTCA-TGAGTGCCAGA-TAAA-TCGAGC-
1 -TCATTAG-GTGCCAGCTAAACTGGGCTTAAATC-TTTCATTGAATGCCA-ACTAAACT-GGGCT
*
14715961 TTAAATT
61 TTAAATC
* * * * * * *
14715968 TTATTAGGTGCTAGATAAACTAGGCTTAAATATTTCATT-AGGTGCCAGA-TAAACTGAGC-TTA
1 TCATTAGGTGCCAGCTAAACTGGGCTTAAATCTTTCATTGA-ATGCCA-ACTAAACTGGGCTTTA
14716030 AATC
64 AATC
* * * * * * * *
14716034 ATCATTGGGTACCAGTTACATTGGGTTTAAATTTTTCATT-AAGTGCCAGCTAAACT
1 -TCATTAGGTGCCAGCTAAACTGGGCTTAAATCTTTCATTGAA-TGCCAACTAAACT
14716090 AGGAATAAAT
Statistics
Matches: 347, Mismatches: 74, Indels: 63
0.72 0.15 0.13
Matches are distributed among these distances:
64 25 0.07
65 44 0.13
66 97 0.28
67 139 0.40
68 39 0.11
69 1 0.00
70 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (67 bp):
TCATTAGGTGCCAGCTAAACTGGGCTTAAATCTTTCATTGAATGCCAACTAAACTGGGCTTTAAA
TC
Found at i:14715764 original size:34 final size:33
Alignment explanation
Indices: 14715577--14716033 Score: 157
Period size: 34 Copynumber: 13.8 Consensus size: 33
14715567 ATTTTCATTA
* * *
14715577 GTGCCAGCCAAACTGTGCTTAAATCTTTCATTGG
1 GTGCCAGCTAAACTGAGCTTAAATCTTT-TTTGG
* * * * ** *
14715611 ATGCTAACTAAACTGGGCTTTAAAT-TTCATTAG
1 GTGCCAGCTAAACTGAGC-TTAAATCTTTTTTGG
* * ** *
14715644 GTGCTAGCTAAACTGGGCTT-AATCTTTCATGA
1 GTGCCAGCTAAACTGAGCTTAAATCTTTTTTGG
* * * * * **
14715676 ATGCCAGATAAATTGGGCTTATATC-TCATTGG
1 GTGCCAGCTAAACTGAGCTTAAATCTTTTTTGG
*
14715708 GTGCCAGTTAAACT-A-CATTTAAATCATTTTTTGG
1 GTGCCAGCTAAACTGAGC--TTAAATC-TTTTTTGG
* * *
14715742 GTGCTAGCTAAACTGAGCTTAAATCTTTTCATGA
1 GTGCCAGCTAAACTGAGCTTAAATCTTTT-TTGG
* * * * *
14715776 ATGCCAGCTAAACTGGGTTTAAATATTTTATTAG
1 GTGCCAGCTAAACTGAGCTTAAATCTTTT-TTGG
** * * **
14715810 GT-CTTGGCTAAA-TTAGGCTTAAAACTTCATTGG
1 GTGC-CAGCTAAACTGA-GCTTAAATCTTTTTTGG
* * *
14715843 ATGCCAACTAAACT-AGGCTTAAATCTTTTATTAG
1 GTGCCAGCTAAACTGA-GCTTAAATCTTTT-TTGG
* * * ** *
14715877 GT-CCGAGCTAAACTGGGTTTAAAACTTCATTGA
1 GTGCC-AGCTAAACTGAGCTTAAATCTTTTTTGG
* * *
14715910 GTGCCAACTAAACTG-GCTTAAATCTTTTCATGA
1 GTGCCAGCTAAACTGAGCTTAAATCTTTT-TTGG
* * *
14715943 GTGCCAGATAAA-TCGAGCTTAAAT-TTTATTAG
1 GTGCCAGCTAAACT-GAGCTTAAATCTTTTTTGG
* * * * *
14715975 GTGCTAGATAAACT-AGGCTTAAATATTTCATTAG
1 GTGCCAGCTAAACTGA-GCTTAAATCTTT-TTTGG
*
14716009 GTGCCAGATAAACTGAGCTTAAATC
1 GTGCCAGCTAAACTGAGCTTAAATC
14716034 ATCATTGGGT
Statistics
Matches: 311, Mismatches: 86, Indels: 52
0.69 0.19 0.12
Matches are distributed among these distances:
30 1 0.00
31 4 0.01
32 71 0.23
33 86 0.28
34 140 0.45
35 8 0.03
36 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (33 bp):
GTGCCAGCTAAACTGAGCTTAAATCTTTTTTGG
Found at i:14715865 original size:67 final size:65
Alignment explanation
Indices: 14715776--14715937 Score: 209
Period size: 67 Copynumber: 2.4 Consensus size: 65
14715766 CTTTTCATGA
* * * * *
14715776 ATGCCAGCTAAACTGGGTTTAAATATTTTATTAGGTCTTG-GCTAAATTAGGCTTAAAACTTCAT
1 ATGCCAACTAAACT-GGCTTAAATCTTTTATTAGGTC-CGAGCTAAACTAGGCTTAAAACTTCAT
14715840 TGG
64 T-G
* *
14715843 ATGCCAACTAAACTAGGCTTAAATCTTTTATTAGGTCCGAGCTAAACTGGGTTTAAAACTTCATT
1 ATGCCAACTAAACT-GGCTTAAATCTTTTATTAGGTCCGAGCTAAACTAGGCTTAAAACTTCATT
14715908 G
65 G
14715909 AGTGCCAACTAAACTGGCTTAAATCTTTT
1 A-TGCCAACTAAACTGGCTTAAATCTTTT
14715938 CATGAGTGCC
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
66 17 0.20
67 68 0.80
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (65 bp):
ATGCCAACTAAACTGGCTTAAATCTTTTATTAGGTCCGAGCTAAACTAGGCTTAAAACTTCATTG
Found at i:14716289 original size:22 final size:22
Alignment explanation
Indices: 14716264--14716385 Score: 88
Period size: 22 Copynumber: 5.6 Consensus size: 22
14716254 ACGTTCTTAG
*
14716264 TTAATCTGGGCTTATATGCCAA
1 TTAATCTAGGCTTATATGCCAA
* *
14716286 TTAATCTAGGCTTATTTACCAA
1 TTAATCTAGGCTTATATGCCAA
* *
14716308 TTAATCTAGACTTATGTGCCAA
1 TTAATCTAGGCTTATATGCCAA
* * *
14716330 CTAAAT-T-GGCTTATGTGCCAG
1 -TTAATCTAGGCTTATATGCCAA
* * * *
14716351 CTAAACT-GGCTTATGTGCCAG
1 TTAATCTAGGCTTATATGCCAA
* *
14716372 CTAATTTAGGCTTA
1 TTAATCTAGGCTTA
14716386 AAACTTAATT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.02
21 32 0.39
22 45 0.54
23 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (22 bp):
TTAATCTAGGCTTATATGCCAA
Found at i:14716344 original size:21 final size:21
Alignment explanation
Indices: 14716318--14716385 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
14716308 TTAATCTAGA
*
14716318 CTTATGTGCCAACTAAATTGG
1 CTTATGTGCCAGCTAAATTGG
*
14716339 CTTATGTGCCAGCTAAACTGG
1 CTTATGTGCCAGCTAAATTGG
*
14716360 CTTATGTGCCAGCTAATTTAGG
1 CTTATGTGCCAGCTAAATT-GG
14716382 CTTA
1 CTTA
14716386 AAACTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 36 0.86
22 6 0.14
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (21 bp):
CTTATGTGCCAGCTAAATTGG
Found at i:14716407 original size:33 final size:31
Alignment explanation
Indices: 14716365--14716483 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 31
14716355 ACTGGCTTAT
**
14716365 GTGCCAGCTAATTTAGGCTTAAAACTTAATTGG
1 GTGCCAGCTAAACTAGGCTTAAAACTT-ATT-G
* * *
14716398 GTGCTAGCTAAACTATGCTTAAAA-TT-TAG
1 GTGCCAGCTAAACTAGGCTTAAAACTTATTG
* * *
14716427 GTGCTAGCTAAACTAAGCTTAAATCTTCATTG
1 GTGCCAGCTAAACTAGGCTTAAAACTT-ATTG
* **
14716459 GTGCCAGATAATTTAGGCTTAAAAC
1 GTGCCAGCTAAACTAGGCTTAAAAC
14716484 CTGGGTGCGA
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
29 23 0.33
30 3 0.04
32 23 0.33
33 20 0.29
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (31 bp):
GTGCCAGCTAAACTAGGCTTAAAACTTATTG
Found at i:14717053 original size:8 final size:8
Alignment explanation
Indices: 14717030--14717064 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
14717020 TAGAGGCACA
14717030 TTCATTTT
1 TTCATTTT
14717038 TTCTATTTT
1 TTC-ATTTT
14717047 TTCATTTT
1 TTCATTTT
*
14717055 TTCCTTTT
1 TTCATTTT
14717063 TT
1 TT
14717065 ATGCACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
TTCATTTT
Found at i:14717454 original size:33 final size:32
Alignment explanation
Indices: 14717391--14717474 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
14717381 TTTCCACCGA
*
14717391 TTCATTTCATTTTTTCTTTCTTTCCCTTCCT-T
1 TTCATTT-TTTTTTTCTTTCTTTCCCTTCCTCT
**
14717423 TTC-TTTGTTGTTCTTTCTTTCTTTCTTTTCCTCT
1 TTCATTT-TT-TT-TTTCTTTCTTTCCCTTCCTCT
14717457 TTCATTTTTTTTTTCTTT
1 TTCATTTTTTTTTTCTTT
14717475 TTCTTCACTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 4 0.09
32 12 0.27
33 19 0.43
34 6 0.14
35 3 0.07
ACGTcount: A:0.04, C:0.23, G:0.02, T:0.71
Consensus pattern (32 bp):
TTCATTTTTTTTTTCTTTCTTTCCCTTCCTCT
Found at i:14717473 original size:28 final size:26
Alignment explanation
Indices: 14717440--14717507 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 26
14717430 TTGTTCTTTC
14717440 TTTCTTTCTTTTC-CTCTTTCATTTTTTT
1 TTTCTTT-TTTTCACT-TTTC-TTTTTTT
14717468 TTTCTTTTTCTTCACTTTTCTTTTTTT
1 TTTCTTTTT-TTCACTTTTCTTTTTTT
14717495 TATTCTCTTTTTT
1 T-TTCT-TTTTTT
14717508 TCTCTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
27 10 0.28
28 20 0.56
29 6 0.17
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.76
Consensus pattern (26 bp):
TTTCTTTTTTTCACTTTTCTTTTTTT
Found at i:14717486 original size:19 final size:19
Alignment explanation
Indices: 14717464--14717510 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
14717454 TCTTTCATTT
*
14717464 TTTTTTTCTTTTTCTTCAC
1 TTTTTTTCTTTTTATTCAC
*
14717483 TTTTCTTT-TTTTTATTCTC
1 TTTT-TTTCTTTTTATTCAC
14717502 TTTTTTTCT
1 TTTTTTTCT
14717511 CTAAATAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTTTTTATTCAC
Found at i:14717500 original size:22 final size:21
Alignment explanation
Indices: 14717457--14717508 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
14717447 CTTTTCCTCT
*
14717457 TTCATTTTTTTTTTCTTTTTC
1 TTCATTTTTTTTTTCTTATTC
14717478 TTCACTTTTCTTTTTT-TTATTC
1 TTCA-TTTT-TTTTTTCTTATTC
14717500 -TC-TTTTTTT
1 TTCATTTTTTT
14717509 CTCTAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.11
19 4 0.14
21 6 0.21
22 9 0.32
23 6 0.21
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCATTTTTTTTTTCTTATTC
Found at i:14717503 original size:24 final size:22
Alignment explanation
Indices: 14717436--14717503 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 22
14717426 TTTGTTGTTC
14717436 TTTCTTTCTTTCTTTTCCTCTTTCAT
1 TTTCTTT-TTT-TTTT-CTC-TTCAT
14717462 TTT-TTTTTTCTTTT-TCTTCACT
1 TTTCTTTTTT-TTTTCTCTTCA-T
14717484 TTTCTTTTTTTTATTCTCTT
1 TTTCTTTTTTTT-TTCTCTT
14717504 TTTTTCTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
21 4 0.11
22 8 0.21
23 8 0.21
24 12 0.32
25 3 0.08
26 3 0.08
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTCTTTTTTTTTTCTCTTCAT
Found at i:14717504 original size:62 final size:61
Alignment explanation
Indices: 14717395--14717510 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
14717385 CACCGATTCA
*
14717395 TTTCATTTTTTCTTTCTTTCCCTTCCTTTTCTTTGTTGTTCTTTCTTTCTTTCTTTTCCTC
1 TTTCATTTTTTCTTTCTTTCCCTTCCTTTTCTTTGTTGTTATTTCTTTCTTTCTTTTCCTC
* ** * *
14717456 TTTCATTTTTTTTTTCTTTTTCTTCACTTTTCTTT-TTTTTATTCTCTTTTTTTCT
1 TTTCATTTTTTCTTTCTTTCCCTTC-CTTTTCTTTGTTGTTATT-TCTTTCTTTCT
14717511 CTAAATAGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 28 0.60
62 19 0.40
ACGTcount: A:0.03, C:0.22, G:0.02, T:0.73
Consensus pattern (61 bp):
TTTCATTTTTTCTTTCTTTCCCTTCCTTTTCTTTGTTGTTATTTCTTTCTTTCTTTTCCTC
Found at i:14718014 original size:26 final size:27
Alignment explanation
Indices: 14717983--14718038 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
14717973 ATCATAACCA
14717983 TTTTTCTTCC-TCTT-TTTTGCCTTTCT
1 TTTTTCTTCCAT-TTCTTTTGCCTTTCT
*
14718009 TTTTTCTTCCATTTCTTTTTCCTTTCT
1 TTTTTCTTCCATTTCTTTTGCCTTTCT
14718036 TTT
1 TTT
14718039 CTTCCTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTTCTTCCATTTCTTTTGCCTTTCT
Found at i:14718216 original size:25 final size:25
Alignment explanation
Indices: 14718170--14718218 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14718160 AAGTTATTGC
*
14718170 GAGAAAAGAATCATGTAAAATGAAT
1 GAGAAAAGAATCAAGTAAAATGAAT
** *
14718195 GAGAAAAGGGTCAAGTAGAATGAA
1 GAGAAAAGAATCAAGTAAAATGAA
14718219 CCCATTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGAAAAGAATCAAGTAAAATGAAT
Found at i:14718974 original size:11 final size:10
Alignment explanation
Indices: 14718958--14719004 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
14718948 AAGACTCAAA
14718958 ACTTTTTTTCC
1 ACTTTTTTT-C
14718969 AC-TTTTTTC
1 ACTTTTTTTC
*
14718978 TCTTTTTTTC
1 ACTTTTTTTC
*
14718988 TCTTTTTTTC
1 ACTTTTTTTC
*
14718998 TCTTTTT
1 ACTTTTT
14719005 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (10 bp):
ACTTTTTTTC
Found at i:14718983 original size:8 final size:9
Alignment explanation
Indices: 14718970--14719012 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
14718960 TTTTTTTCCA
14718970 CTTTTTTCT
1 CTTTTTTCT
14718979 CTTTTTTTCT
1 C-TTTTTTCT
14718989 CTTTTTT-T
1 CTTTTTTCT
14718997 CTCTTTTTCT
1 CT-TTTTTCT
14719007 -TTTTTT
1 CTTTTTT
14719013 TTTAAGTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.26
9 13 0.42
10 10 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
CTTTTTTCT
Found at i:14718984 original size:20 final size:20
Alignment explanation
Indices: 14718959--14719004 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
14718949 AGACTCAAAA
14718959 CTTTTTTTC-CACTTTTTTCT
1 CTTTTTTTCTC-CTTTTTTCT
*
14718979 CTTTTTTTCTCTTTTTTTCT
1 CTTTTTTTCTCCTTTTTTCT
14718999 CTTTTT
1 CTTTTT
14719005 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTTTTTCTCCTTTTTTCT
Found at i:14719014 original size:10 final size:10
Alignment explanation
Indices: 14718971--14719004 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
14718961 TTTTTTCCAC
14718971 TTTTTTCTCT
1 TTTTTTCTCT
14718981 TTTTTTCTCT
1 TTTTTTCTCT
14718991 TTTTTTCTCT
1 TTTTTTCTCT
14719001 TTTT
1 TTTT
14719005 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:14719014 original size:18 final size:18
Alignment explanation
Indices: 14718971--14719014 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14718961 TTTTTTCCAC
* *
14718971 TTTTTTCTCTTTTTTTCT
1 TTTTTTTTCTCTTTTTCT
*
14718989 CTTTTTTTCTCTTTTTCT
1 TTTTTTTTCTCTTTTTCT
14719007 TTTTTTTT
1 TTTTTTTT
14719015 TAAGTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTCTCTTTTTCT
Found at i:14722948 original size:26 final size:24
Alignment explanation
Indices: 14722905--14722959 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
14722895 TTAATTTTTT
* **
14722905 TTAAAAAAATTCAAATAAAAGGAA
1 TTAAAAAAATTAAAATAAAACCAA
14722929 TTAAAATAAATATAAAATAAAACCAA
1 TTAAAA-AAAT-TAAAATAAAACCAA
14722955 TTAAA
1 TTAAA
14722960 TCCAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 6 0.23
25 4 0.15
26 16 0.62
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.24
Consensus pattern (24 bp):
TTAAAAAAATTAAAATAAAACCAA
Found at i:14724145 original size:20 final size:20
Alignment explanation
Indices: 14724122--14724164 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14724112 AGGGTTTCAA
14724122 GGTCTCGTTTAGGGCTTTAG
1 GGTCTCGTTTAGGGCTTTAG
* *
14724142 GGTCTTGTTTAGGGTTTTAG
1 GGTCTCGTTTAGGGCTTTAG
14724162 GGT
1 GGT
14724165 TTAGAGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.37, T:0.44
Consensus pattern (20 bp):
GGTCTCGTTTAGGGCTTTAG
Found at i:14724206 original size:12 final size:12
Alignment explanation
Indices: 14724184--14724232 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
14724174 TTTACTTAAG
*
14724184 ATTTAAAGTTTC
1 ATTTAAGGTTTC
*
14724196 ATTTAGGGTTTC
1 ATTTAAGGTTTC
*
14724208 CTTTAAGG-TTC
1 ATTTAAGGTTTC
14724219 ATTTTAAGGTTTC
1 A-TTTAAGGTTTC
14724232 A
1 A
14724233 AAACTTTACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 3 0.10
12 23 0.77
13 4 0.13
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTTAAGGTTTC
Found at i:14724523 original size:3 final size:3
Alignment explanation
Indices: 14724515--14724568 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
14724505 TCTAGGCAAA
*
14724515 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14724563 ATT ATT
1 ATT ATT
14724569 TTAAAATTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14724665 original size:12 final size:13
Alignment explanation
Indices: 14724641--14724669 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14724631 TTATACATAT
14724641 TTTTATTATTTAC
1 TTTTATTATTTAC
14724654 TTTTATTA-TTAC
1 TTTTATTATTTAC
14724666 TTTT
1 TTTT
14724670 TTTAAAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAC
Found at i:14726069 original size:16 final size:15
Alignment explanation
Indices: 14726033--14726071 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
14726023 TTCTCCCAAC
*
14726033 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTCT
14726048 TGTTTTTCTTTTTTGCT
1 T-TTTTTCTTTTTT-CT
14726065 TTTTTTC
1 TTTTTTC
14726072 CTTAGTCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTTTTTCT
Found at i:14726909 original size:11 final size:11
Alignment explanation
Indices: 14726886--14726916 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
14726876 AAACAAGCTC
14726886 TATTTTATTATA
1 TATTTT-TTATA
14726898 TATTTTTTATA
1 TATTTTTTATA
14726909 TATTTTTT
1 TATTTTTT
14726917 TAAAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTTTATA
Found at i:14726928 original size:17 final size:16
Alignment explanation
Indices: 14726906--14726937 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
14726896 TATATTTTTT
14726906 ATATATTTTTTTAAAAC
1 ATATA-TTTTTTAAAAC
14726923 ATATATTTTTTAAAA
1 ATATATTTTTTAAAA
14726938 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATATTTTTTAAAAC
Found at i:14726938 original size:17 final size:17
Alignment explanation
Indices: 14726906--14726938 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14726896 TATATTTTTT
*
14726906 ATATATTTTTTTAAAAC
1 ATATATTTTTTAAAAAC
14726923 ATATATTTTTTAAAAA
1 ATATATTTTTTAAAAA
14726939 AATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATTTTTTAAAAAC
Found at i:14726997 original size:10 final size:11
Alignment explanation
Indices: 14726948--14727000 Score: 63
Period size: 11 Copynumber: 4.6 Consensus size: 11
14726938 AAATTAAAAA
*
14726948 TTTTTATATTT
1 TTTTTATATAT
14726959 TATCTTTATATAT
1 T-T-TTTATATAT
14726972 GTTTTTATATAT
1 -TTTTTATATAT
14726984 TTTTTATAT-T
1 TTTTTATATAT
14726994 TTTTTAT
1 TTTTTAT
14727001 TTGTCATGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 8 0.21
11 10 0.26
12 10 0.26
13 9 0.24
14 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTTATATAT
Found at i:14728001 original size:15 final size:14
Alignment explanation
Indices: 14727954--14728002 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
14727944 CGAATAATCA
*
14727954 AAACCAAACTAGAAT
1 AAACCAAA-TATAAT
*
14727969 AAACCTAAATATCAT
1 AAACC-AAATATAAT
14727984 AAACCAAATATAATT
1 AAACCAAATATAA-T
14727999 AAAC
1 AAAC
14728003 AAGTAAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.24
15 19 0.66
16 3 0.10
ACGTcount: A:0.59, C:0.18, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCAAATATAAT
Found at i:14730625 original size:143 final size:143
Alignment explanation
Indices: 14730473--14730774 Score: 322
Period size: 144 Copynumber: 2.1 Consensus size: 143
14730463 GTAAGGGCAT
* * * **
14730473 TTTTTGTAATTTGACTTCCTAAGGTCAAAATTTTGTA-AAAAGC-ACCAGGTCATGATTTAATGC
1 TTTTCGTAATTTGACTTCCTAAGGTC--AATTTTGTACAAAAACTACCAGATCATGATTTAATAA
* * * *
14730536 TA-TTAGATGATTTTTGGTGAATTAAAAACCTTGATCGTATCTCAAAAGGTGTGAAATTATTAAA
64 TATTTA-ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAA
*
14730600 ATACCTTTTAAAGGTA
128 ATACCCTTTAAAGGTA
* * * * ** * * *
14730616 TTTTCGTAATTTGACCTTCTTGAGGTCAGTTTTTTACAAAAACTTTCAGATCGTGCTTTCATAAT
1 TTTTCGTAATTTGA-CTTCCTAAGGTCAATTTTGTACAAAAACTACCAGATCATGATTTAATAAT
** * **
14730681 ATTTAATGATTTTTGGTGCTTTGAAAACCTTGATCGCACCTTGAAAGGTATGAAATTATAAAAAT
65 ATTTAATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAAT
14730746 ACCCTTTAAAGGTA
130 ACCCTTTAAAGGTA
*
14730760 TTTTCATAATTTGAC
1 TTTTCGTAATTTGAC
14730775 ATTCTCGAGG
Statistics
Matches: 130, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
142 7 0.05
143 19 0.15
144 101 0.78
145 3 0.02
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (143 bp):
TTTTCGTAATTTGACTTCCTAAGGTCAATTTTGTACAAAAACTACCAGATCATGATTTAATAATA
TTTAATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATA
CCCTTTAAAGGTA
Found at i:14730708 original size:144 final size:144
Alignment explanation
Indices: 14730542--14730811 Score: 391
Period size: 144 Copynumber: 1.9 Consensus size: 144
14730532 ATGCTATTAG
* * * * *
14730542 ATGATTTTTGGTGAATTAAAAACCTTGATCGTATCTCAAAAGGTGTGAAATTATTAAAATACCTT
1 ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
* * *
14730607 TTAAAGGTATTTTCGTAATTTGACCTTCTTGAGGTCAG-TTTTTTACA-AAAACTTTCAGATCGT
66 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGT-AGATTTTTTA-AGAAAACTTTCAGATCGT
14730670 GCTTTCATAATATTTA
129 GCTTTCATAATATTTA
** * **
14730686 ATGATTTTTGGTGCTTTGAAAACCTTGATCGCACCTTGAAAGGTATGAAATTATAAAAATACCCT
1 ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
14730751 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTAGATTTTTTAAGAAAACTTTCAGATC
66 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTAGATTTTTTAAGAAAACTTTCAGATC
14730812 ATAATTTTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 3 0.03
144 108 0.97
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (144 bp):
ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTAGATTTTTTAAGAAAACTTTCAGATCGTGC
TTTCATAATATTTA
Found at i:14730828 original size:144 final size:145
Alignment explanation
Indices: 14730542--14730849 Score: 385
Period size: 144 Copynumber: 2.2 Consensus size: 145
14730532 ATGCTATTAG
* * * * *
14730542 ATGATTTTTGGTGAATTAAAAACCTTGATCGTATCTCAAAAGGTGTGAAATTATTAAAATACCTT
1 ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
* * * * **
14730607 TTAAAGGTATTTTCGTAATTTGACCTTCTTGAGGTCAGTTTTTTACAAAAACTTTCAGATCGTGC
66 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTCAGTTTTTTACAAAAACTTTCAGATCATAA
14730672 TTTCATAATA-TTTA
131 TTTCATAATATTTTA
** * **
14730686 ATGATTTTTGGTGCTTTGAAAACCTTGATCGCACCTTGAAAGGTATGAAATTATAAAAATACCCT
1 ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
14730751 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGT-AGATTTTTTA-AGAAAACTTTCAGATCAT
66 TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTCAG-TTTTTTACA-AAAACTTTCAGATCAT
* *
14730814 AATTTTATATTATTTTA
129 AATTTCATAATATTTTA
*
14730831 AT--TTTTTGGT-AATTTAAAA
1 ATGATTTTTGGTGAATTAAAAA
14730850 TCACAATAAC
Statistics
Matches: 140, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
142 6 0.04
143 11 0.08
144 117 0.84
145 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (145 bp):
ATGATTTTTGGTGAATTAAAAACCTTGATCGCACCTCAAAAGGTATGAAATTATAAAAATACCCT
TTAAAGGTATTTTCATAATTTGACATTCTCGAGGTCAGTTTTTTACAAAAACTTTCAGATCATAA
TTTCATAATATTTTA
Found at i:14732239 original size:7 final size:7
Alignment explanation
Indices: 14732227--14732337 Score: 81
Period size: 7 Copynumber: 16.7 Consensus size: 7
14732217 TTCTCCATGC
14732227 AAACCCT
1 AAACCCT
14732234 AAACCCT
1 AAACCCT
14732241 AAA-CCT
1 AAACCCT
14732247 -AACCCT
1 AAACCCT
*
14732253 AAACCAT
1 AAACCCT
14732260 AAA-CCT
1 AAACCCT
14732266 -AACCCT
1 AAACCCT
* *
14732272 AGACCAT
1 AAACCCT
*
14732279 AAACTCT
1 AAACCCT
*
14732286 AAACCTT
1 AAACCCT
*
14732293 AAACCTT
1 AAACCCT
14732300 AAACCCT
1 AAACCCT
*
14732307 AGA-CC-
1 AAACCCT
* *
14732312 AAATCTT
1 AAACCCT
*
14732319 AAACTCT
1 AAACCCT
*
14732326 AAACCTT
1 AAACCCT
14732333 AAACC
1 AAACC
14732338 AAACCTTAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
5 6 0.08
6 14 0.17
7 60 0.75
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:14732252 original size:19 final size:19
Alignment explanation
Indices: 14732228--14732304 Score: 100
Period size: 19 Copynumber: 3.9 Consensus size: 19
14732218 TCTCCATGCA
*
14732228 AACCCTAAACCCTAAACCT
1 AACCCTAAACCATAAACCT
14732247 AACCCTAAACCATAAACCT
1 AACCCTAAACCATAAACCT
*
14732266 AACCCTAGACCATAAACTCT
1 AACCCTAAACCATAAAC-CT
* *
14732286 AAACCTTAAACCTTAAACC
1 -AACCCTAAACCATAAACC
14732305 CTAGACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
19 34 0.67
20 3 0.06
21 14 0.27
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.18
Consensus pattern (19 bp):
AACCCTAAACCATAAACCT
Found at i:14732319 original size:26 final size:27
Alignment explanation
Indices: 14732247--14732348 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 27
14732237 CCCTAAACCT
14732247 AACCCTAAACCATAAACC-T-AACC-CTA
1 AACCCTAAACC--AAACCTTAAACCTCTA
* *
14732273 GACCATAAACTCTAAACCTTAAACCT-TA
1 AACCCTAAAC-C-AAACCTTAAACCTCTA
* *
14732301 AACCCTAGACCAAATCTTAAA-CTCTA
1 AACCCTAAACCAAACCTTAAACCTCTA
*
14732327 AACCTTAAACCAAACCTTAAAC
1 AACCCTAAACCAAACCTTAAAC
14732349 TGTAATCTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
25 2 0.03
26 43 0.70
27 3 0.05
28 13 0.21
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.21
Consensus pattern (27 bp):
AACCCTAAACCAAACCTTAAACCTCTA
Found at i:14734438 original size:16 final size:16
Alignment explanation
Indices: 14734417--14734449 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14734407 TGTATGAAGT
14734417 AATAAAGATAGGATTC
1 AATAAAGATAGGATTC
14734433 AATAAAGATAGGATTC
1 AATAAAGATAGGATTC
14734449 A
1 A
14734450 TCACCTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AATAAAGATAGGATTC
Found at i:14744758 original size:144 final size:144
Alignment explanation
Indices: 14744478--14744976 Score: 519
Period size: 145 Copynumber: 3.5 Consensus size: 144
14744468 TCATTTTTTA
* * * * *
14744478 GATTTTAAA-ACATCAAAAATTATGAAATATTATAAAATTAAGATCTGTAAAA-TTTTATTAAAA
1 GATTTTAAATACATCAAAAATCATAAAATATTATGAAATTAAGATCTG-AAAAGTTTCATGAAAA
** * * * *
14744541 TCTGAGCTTGA-AAATGTCAAATTACAAAAATACTCTTATAAGGATATTT-TAGTAATCTTACAC
65 TCTGAGCTTGAGAAA-GT-AAATTATGAAAATACCCTTATAAGGGTATTTCGA-TAATTTTACAC
** *
14744604 TT-TCCAGGGTACCACTAT
127 TTCT-TGGGGTACTACTAT
* *
14744622 GATTTCAAATACATCAAAAATCATAAAATATTATGATATTAAGATCTGAAAAGTTTCATGAAAAT
1 GATTTTAAATACATCAAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
* * *
14744687 CTGATCTCGAGAAAGTAAATTATGAAAATACCCTTATCAGGGTATTTCGATAATTTTACACTTCT
66 CTGAGCTTGAGAAAGTAAATTATGAAAATACCCTTATAAGGGTATTTCGATAATTTTACACTTCT
* *
14744752 TGGGGTACTTCTCT
131 TGGGGTACTACTAT
* * *
14744766 AATTTTAAATGCATCAAAAATCATAAAATATTATGAAATTAAGATCTAAAAAGTTTCATGAAAAT
1 GATTTTAAATACATCAAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
* * * * * *
14744831 -TCAAGCTTGAGAAGGGTAAATTATGAAAATATCTTTATAAGAGTATTTTCG-TAATTTCACACT
66 CT-GAGCTTGAGAA-AGTAAATTATGAAAATACCCTTATAAGGGTA-TTTCGATAATTTTACACT
* *
14744894 TCTTGGGGTATTGCTAT
128 TCTTGGGGTACTACTAT
** * * * *
14744911 GATTTTAAATGTACCAAAAATTA-AGAAATATTATGAAATTAAAATCTGAAAAGTTTCATTAAAA
1 GATTTTAAATACATCAAAAATCATA-AAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAA
14744975 TC
65 TC
14744977 CAAACTTGGG
Statistics
Matches: 300, Mismatches: 45, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
143 1 0.00
144 128 0.43
145 163 0.54
146 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (144 bp):
GATTTTAAATACATCAAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAAT
CTGAGCTTGAGAAAGTAAATTATGAAAATACCCTTATAAGGGTATTTCGATAATTTTACACTTCT
TGGGGTACTACTAT
Found at i:14745779 original size:19 final size:17
Alignment explanation
Indices: 14745768--14745813 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
14745758 TTTCTTTCTC
14745768 TCTTTTTTTTTTATTTT
1 TCTTTTTTTTTTATTTT
14745785 TCTTTATTTTTTT-TGTTT
1 TCTTT-TTTTTTTAT-TTT
*
14745803 TATTTTTTTTT
1 TCTTTTTTTTT
14745814 ATTGTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.07, C:0.04, G:0.02, T:0.87
Consensus pattern (17 bp):
TCTTTTTTTTTTATTTT
Found at i:14745784 original size:24 final size:22
Alignment explanation
Indices: 14745751--14745808 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
14745741 TAAAATCTTG
* *
14745751 TTTTTCTTTTCTTTCTCTCTTTTT
1 TTTTTATTTTCTTTAT-T-TTTTT
14745775 TTTTTATTTTTCTTTATTTTTTT
1 TTTTTA-TTTTCTTTATTTTTTT
14745798 TGTTTTATTTT
1 T-TTTTATTTT
14745809 TTTTTATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 10 0.33
24 11 0.37
25 9 0.30
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (22 bp):
TTTTTATTTTCTTTATTTTTTT
Found at i:14745803 original size:5 final size:5
Alignment explanation
Indices: 14745791--14745838 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
14745781 TTTTTCTTTA
* * * *
14745791 TTTT- TTTTG TTTTA TTTTT TTTTA TTGTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
14745839 TGTTGCTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:14745809 original size:24 final size:25
Alignment explanation
Indices: 14745748--14745833 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
14745738 CTTTAAAATC
*
14745748 TTGTTTT-TCTTTTCTTTCTCTCTTTT
1 TTGTTTTAT-TTTTCTTTAT-TCTTTT
14745774 TT-TTTTATTTTTCTTTATT-TTTT
1 TTGTTTTATTTTTCTTTATTCTTTT
* * *
14745797 TTGTTTTATTTTTTTTTATTGTGTT
1 TTGTTTTATTTTTCTTTATTCTTTT
*
14745822 TTGTTTTGTTTT
1 TTGTTTTATTTT
14745834 GTTTTTGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
23 6 0.11
24 17 0.32
25 27 0.51
26 3 0.06
ACGTcount: A:0.05, C:0.07, G:0.07, T:0.81
Consensus pattern (25 bp):
TTGTTTTATTTTTCTTTATTCTTTT
Found at i:14745848 original size:25 final size:25
Alignment explanation
Indices: 14745771--14745855 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
14745761 CTTTCTCTCT
* * * *
14745771 TTTTTTTTTATTTTTCTTTATT-TT
1 TTTTGTTTTGTTTTTTTTTATTGTC
* *
14745795 TTTTGTTTTATTTTTTTTTATTGTG
1 TTTTGTTTTGTTTTTTTTTATTGTC
*
14745820 TTTTGTTTTGTTTTGTTTTTGTTG-C
1 TTTTGTTTTGTTTT-TTTTTATTGTC
*
14745845 TTTTTTTTTGT
1 TTTTGTTTTGT
14745856 AATTTAACAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 20 0.38
25 24 0.46
26 8 0.15
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (25 bp):
TTTTGTTTTGTTTTTTTTTATTGTC
Done.