Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 220 of 279
Found at i:72064374 original size:23 final size:24
Alignment explanation
Indices: 72064334--72064380 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
72064324 TGATAAACAC
*
72064334 TTTCTGTTATATTATATAA-AATA
1 TTTCTATTATATTATATAATAATA
72064357 TTTCTATTATATGT-TATAATAATA
1 TTTCTATTATAT-TATATAATAATA
72064381 AAAAAACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTCTATTATATTATATAATAATA
Found at i:72069635 original size:1 final size:1
Alignment explanation
Indices: 72069629--72069660 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
72069619 CTTAAGAGAT
72069629 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
72069661 CATGATTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:72072045 original size:7 final size:7
Alignment explanation
Indices: 72072033--72072065 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
72072023 ATCTAGAATT
72072033 TTGAACC
1 TTGAACC
72072040 TTGAACC
1 TTGAACC
72072047 TTGAA-C
1 TTGAACC
72072053 TCTGAACC
1 T-TGAACC
72072061 TTGAA
1 TTGAA
72072066 TTTTGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 2 0.08
7 20 0.83
8 2 0.08
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (7 bp):
TTGAACC
Found at i:72072072 original size:14 final size:14
Alignment explanation
Indices: 72072033--72072072 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
72072023 ATCTAGAATT
*
72072033 TTGAACCTTGAACC
1 TTGAACTTTGAACC
*
72072047 TTGAACTCTGAACC
1 TTGAACTTTGAACC
*
72072061 TTGAATTTTGAA
1 TTGAACTTTGAA
72072073 TTCGAGCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (14 bp):
TTGAACTTTGAACC
Found at i:72076389 original size:28 final size:28
Alignment explanation
Indices: 72076349--72076419 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
72076339 TATGAGATTG
*
72076349 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
72076377 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
72076405 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
72076420 ACTTACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:72077190 original size:11 final size:11
Alignment explanation
Indices: 72077174--72077198 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
72077164 GGGTCCCTTT
72077174 ATATACAATAA
1 ATATACAATAA
72077185 ATATACAATAA
1 ATATACAATAA
72077196 ATA
1 ATA
72077199 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:72077905 original size:15 final size:15
Alignment explanation
Indices: 72077877--72077913 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
72077867 TTTATCTTAG
72077877 TTATATTCTATTTTAT
1 TTAT-TTCTATTTTAT
*
72077893 TTATTTCTTTTTTAT
1 TTATTTCTATTTTAT
72077908 TTATTT
1 TTATTT
72077914 ATCCATCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTCTATTTTAT
Found at i:72081023 original size:21 final size:21
Alignment explanation
Indices: 72080999--72081042 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
72080989 ACGACCTAAT
*
72080999 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
72081020 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
72081041 TA
1 TA
72081043 CTAAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
TAAATAAAAGGATACAATAAA
Found at i:72081435 original size:16 final size:16
Alignment explanation
Indices: 72081414--72081447 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
72081404 ACTTTAGAGC
72081414 ATATATTAACTCATAT
1 ATATATTAACTCATAT
72081430 ATATATTAACTCATAT
1 ATATATTAACTCATAT
72081446 AT
1 AT
72081448 CTTTTTCAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATTAACTCATAT
Found at i:72090893 original size:13 final size:13
Alignment explanation
Indices: 72090875--72090902 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
72090865 AATATAGGGG
72090875 AAAATGTACCATT
1 AAAATGTACCATT
72090888 AAAATGTACCATT
1 AAAATGTACCATT
72090901 AA
1 AA
72090903 CGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:72097845 original size:31 final size:32
Alignment explanation
Indices: 72097809--72097869 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
72097799 AGTTTTTGGT
72097809 TTTTTCATGTTG-CAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
72097840 TTTTTCATGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
72097870 AAAATAGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:72100720 original size:45 final size:45
Alignment explanation
Indices: 72100625--72100738 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
72100615 CCAGCATTTC
* * * *
72100625 GCCTGCTAGGCTCG-AGGCCCG-ATATCATTTCATCGGCATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATATCATCTCACCGACATTATA
72100668 GCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCTCACCGACATTATA
1 GCCTGCTAGGCTCGAAAGCCCGAATA-TCATCTCACCGACATTATA
72100713 GCCTGCTAGGCTC-AAAGGCCCGAATA
1 GCCTGCTAGGCTCGAAA-GCCCGAATA
72100739 ATATTTCCCC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
43 14 0.22
44 9 0.14
45 39 0.62
46 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAAGCCCGAATATCATCTCACCGACATTATA
Found at i:72100967 original size:43 final size:43
Alignment explanation
Indices: 72100906--72101064 Score: 230
Period size: 43 Copynumber: 3.7 Consensus size: 43
72100896 CAACAAACTT
* * * *
72100906 GCACACTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
72100949 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
* *
72100992 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
*
72101035 GCACATTTAGTGCC-ATTACATTAAACCGAA
1 GCACACTTAGTGCCAATTA-ATT-AACCGAA
72101065 CTTATATCTG
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
42 4 0.04
43 96 0.91
44 6 0.06
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAACCGAAGCTATAATTGTATC
Found at i:72109948 original size:14 final size:14
Alignment explanation
Indices: 72109929--72109956 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
72109919 ATCTAATACT
72109929 AATAGAATAGAAAA
1 AATAGAATAGAAAA
72109943 AATAGAATAGAAAA
1 AATAGAATAGAAAA
72109957 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:72115239 original size:22 final size:20
Alignment explanation
Indices: 72115195--72115232 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
72115185 TTGATTGTCC
*
72115195 ATATTTTTAATATAATCTAT
1 ATATATTTAATATAATCTAT
72115215 ATATATTTAATATAATCT
1 ATATATTTAATATAATCT
72115233 TAATATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTTAATATAATCTAT
Found at i:72118260 original size:18 final size:18
Alignment explanation
Indices: 72118199--72118274 Score: 95
Period size: 18 Copynumber: 4.4 Consensus size: 18
72118189 CAAGGTCACG
*
72118199 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
72118217 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
72118235 ATCAATATTGTCACTATC
1 ATCAATATCGTCACTATC
72118253 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
72118268 ATCAATA
1 ATCAATA
72118275 AGAAAACCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
15 11 0.21
16 1 0.02
18 41 0.77
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:72120717 original size:24 final size:21
Alignment explanation
Indices: 72120636--72120704 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
72120626 CTCACAAAGA
* * *
72120636 AAAAAGA-AAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
72120656 AAAAAGAGAAGAAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
72120677 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
72120698 AAAAAGA
1 AAAAAGA
72120705 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 7 0.16
21 36 0.84
ACGTcount: A:0.58, C:0.07, G:0.23, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:72126131 original size:21 final size:22
Alignment explanation
Indices: 72126105--72126151 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
72126095 CTCTGCTCAA
*
72126105 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
72126126 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
72126148 ACTC
1 ACTC
72126152 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:72129957 original size:14 final size:13
Alignment explanation
Indices: 72129933--72129963 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
72129923 CGTTGTATAA
72129933 TATATATAAGAAT
1 TATATATAAGAAT
72129946 TATATGATAAGAAT
1 TATAT-ATAAGAAT
72129960 TATA
1 TATA
72129964 CGAATCCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (13 bp):
TATATATAAGAAT
Found at i:72146450 original size:27 final size:27
Alignment explanation
Indices: 72146420--72146597 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
72146410 ATATTGAGTC
* * *
72146420 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
72146447 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72146474 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
72146502 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
72146529 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
72146556 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
72146583 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
72146598 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:72146559 original size:82 final size:81
Alignment explanation
Indices: 72146441--72146596 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
72146431 TGCTATATAA
* *
72146441 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
72146506 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
72146523 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
72146587 CACTTAGTGC
65 CACTTAGTGC
72146597 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:72151830 original size:28 final size:28
Alignment explanation
Indices: 72151799--72151856 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
72151789 CTAATTTTGT
* *
72151799 GAGTTTAATT-GTATAGTACTAAGTGTGC
1 GAGTTTAATTATTA-AGCACTAAGTGTGC
*
72151827 GAGTTTGATTATTAAGCACTAAGTGTGC
1 GAGTTTAATTATTAAGCACTAAGTGTGC
72151855 GA
1 GA
72151857 ACTTACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (28 bp):
GAGTTTAATTATTAAGCACTAAGTGTGC
Found at i:72153102 original size:19 final size:19
Alignment explanation
Indices: 72153080--72153116 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
72153070 GGTATTGAAT
72153080 TGTGTTCTTAAAATTGGTA
1 TGTGTTCTTAAAATTGGTA
72153099 TGTGTTCTTAAAATTGGT
1 TGTGTTCTTAAAATTGGT
72153117 TATATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (19 bp):
TGTGTTCTTAAAATTGGTA
Found at i:72156250 original size:43 final size:42
Alignment explanation
Indices: 72156167--72156282 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
72156157 AGTCCAAACT
* * * * *
72156167 CGTTGAGTGGTACGGGTTCGTGA-GGTATG-TAACATTCGAGCC
1 CGTTGAGTGGTCCGAGTTCATGATGG-ATGCAAACATCCGAG-C
*
72156209 CGTTGA-TAGGTCCGAGTTCATTATGGATGCAAACATCCGAGC
1 CGTTGAGT-GGTCCGAGTTCATGATGGATGCAAACATCCGAGC
* *
72156251 TGTTGAGTGGTCTGAGTTCATGATGGATGCAA
1 CGTTGAGTGGTCCGAGTTCATGATGGATGCAA
72156283 TTCATGTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 48 0.79
43 12 0.20
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (42 bp):
CGTTGAGTGGTCCGAGTTCATGATGGATGCAAACATCCGAGC
Found at i:72157633 original size:13 final size:13
Alignment explanation
Indices: 72157615--72157652 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
72157605 AGGCCGTGTG
72157615 AAGGACACGGGCC
1 AAGGACACGGGCC
72157628 AAGGACACGGGCC
1 AAGGACACGGGCC
72157641 AAGGACACGGGC
1 AAGGACACGGGC
72157653 ATGTGCTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.29, G:0.39, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:72161147 original size:40 final size:40
Alignment explanation
Indices: 72161103--72161322 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
72161093 TATTCGAATG
* *
72161103 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGGTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
72161143 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * * *
72161183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* *
72161223 ATATCCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * * **
72161263 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
72161302 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
72161323 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 13 0.09
39 16 0.11
40 118 0.79
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:72161236 original size:80 final size:80
Alignment explanation
Indices: 72161103--72161322 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
72161093 TATTCGAATG
* * * * *
72161103 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGGTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
72161167 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
72161183 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
72161247 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
72161263 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
72161323 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 13 0.11
79 20 0.17
80 88 0.73
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:72162842 original size:46 final size:46
Alignment explanation
Indices: 72162724--72162844 Score: 199
Period size: 46 Copynumber: 2.6 Consensus size: 46
72162714 TGCCATAATG
* *
72162724 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACACA-TTTCATATCATGTTGCCATGGTA
*
72162770 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATGGTA
72162816 TCTTTCAACTATGGTCTTACACATTTCAT
1 TCTTTCAACTATGGTCTTACACATTTCAT
72162845 TTTAGAAAGC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 4 0.06
46 66 0.94
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.43
Consensus pattern (46 bp):
TCTTTCAACTATGGTCTTACACATTTCATATCATGTTGCCATGGTA
Found at i:72164753 original size:9 final size:9
Alignment explanation
Indices: 72164733--72164765 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
72164723 AAAGAAAAAC
72164733 TTCTTC-TT
1 TTCTTCTTT
72164741 TTCTTCTTT
1 TTCTTCTTT
*
72164750 TTCTTCTTG
1 TTCTTCTTT
72164759 TTCTTCT
1 TTCTTCT
72164766 CACGTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:72167620 original size:22 final size:23
Alignment explanation
Indices: 72167589--72167657 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 23
72167579 TATGTATTAT
72167589 TAAACAGAGAGCACTAAA-GTGC
1 TAAACAGAGAGCACTAAATGTGC
*
72167611 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAATGTGC
* *
72167633 TAAACGGAGAGCACT-AATATGC
1 TAAACAGAGAGCACTAAATGTGC
72167655 TAA
1 TAA
72167658 TAATCAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.07
22 38 0.93
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATGTGC
Found at i:72169008 original size:46 final size:46
Alignment explanation
Indices: 72168943--72169216 Score: 476
Period size: 46 Copynumber: 6.0 Consensus size: 46
72168933 TTATCTTCGA
* * * * * *
72168943 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
72168989 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
72169035 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
72169081 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
72169127 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
72169173 CATGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
72169217 TTCAGAAAGC
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 220 1.00
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:72172032 original size:29 final size:30
Alignment explanation
Indices: 72171955--72172032 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
72171945 AGAATACCCT
* *
72171955 TAAAGTATTGATTTTGTTTGAGTTAGGTACC
1 TAAATTATTGATTTTG-TTAAGTTAGGTACC
* *
72171986 TAAATTATT--TTTTGGTTAATTTGGGTACC
1 TAAATTATTGATTTT-GTTAAGTTAGGTACC
72172015 TAAATT-TTGATTTTGTTA
1 TAAATTATTGATTTTGTTA
72172033 TTGAAGTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
28 2 0.05
29 25 0.62
30 5 0.12
31 8 0.20
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (30 bp):
TAAATTATTGATTTTGTTAAGTTAGGTACC
Found at i:72172144 original size:19 final size:21
Alignment explanation
Indices: 72172122--72172161 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
72172112 TTAAAATTTT
72172122 TTATATTAA-A-TAAAAATAA
1 TTATATTAATATTAAAAATAA
72172141 TTATATTAATATTAAAAATAA
1 TTATATTAATATTAAAAATAA
72172162 AAAATACCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTATATTAATATTAAAAATAA
Found at i:72172646 original size:10 final size:9
Alignment explanation
Indices: 72172626--72172652 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
72172616 CGAATTAACC
72172626 AAAAAACAA
1 AAAAAACAA
72172635 AAAAAACAA
1 AAAAAACAA
72172644 AAAAAACAA
1 AAAAAACAA
72172653 TTTTGGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:72173531 original size:13 final size:13
Alignment explanation
Indices: 72173513--72173538 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72173503 CTTATCATGG
72173513 TGGATTCAGGTAA
1 TGGATTCAGGTAA
72173526 TGGATTCAGGTAA
1 TGGATTCAGGTAA
72173539 AAGAGTCACT
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:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TGGATTCAGGTAA
Found at i:72184554 original size:21 final size:21
Alignment explanation
Indices: 72184492--72184559 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
72184482 GAGCTGAACA
*
72184492 GAAACCCATAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
* * ** * *
72184513 GAAGCTCAAAATAGCTGAACT
1 GAAACCCAAAAGGGTTAAACT
*
72184534 GAAACCCAGAAGGGTTAAACT
1 GAAACCCAAAAGGGTTAAACT
*
72184555 AAAAC
1 GAAAC
72184560 TCATATGAGT
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (21 bp):
GAAACCCAAAAGGGTTAAACT
Found at i:72184554 original size:42 final size:42
Alignment explanation
Indices: 72184459--72184554 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
72184449 GGAAACCTGT
** * *
72184459 AAGGGTTAAAGGGAAGCTCATAAGAGCTGAACAGAAACCCAT
1 AAGGGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCAG
* *
72184501 AAGGGTTAAACTGAAGCTCAAAATAGCTGAACTGAAACCCAG
1 AAGGGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCAG
72184543 AAGGGTTAAACT
1 AAGGGTTAAACT
72184555 AAAACTCATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
AAGGGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCAG
Found at i:72186255 original size:18 final size:18
Alignment explanation
Indices: 72186227--72186269 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
72186217 AATCATCATT
* *
72186227 AAAAAGTTATTTACTTTC
1 AAAATGTTATTAACTTTC
* *
72186245 AGAATGTTATTAATTTTC
1 AAAATGTTATTAACTTTC
72186263 AAAATGT
1 AAAATGT
72186270 CACTTATTGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (18 bp):
AAAATGTTATTAACTTTC
Found at i:72187238 original size:18 final size:19
Alignment explanation
Indices: 72187215--72187256 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
72187205 CAAATAATTT
72187215 GCCCATGTGGGCCCACAC-
1 GCCCATGTGGGCCCACACG
72187233 GCCCATGTGGGCCCACACG
1 GCCCATGTGGGCCCACACG
72187252 GCCCA
1 GCCCA
72187257 AAATGGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.17, C:0.45, G:0.29, T:0.10
Consensus pattern (19 bp):
GCCCATGTGGGCCCACACG
Found at i:72187821 original size:34 final size:34
Alignment explanation
Indices: 72187782--72187851 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
72187772 CAACTTGGCC
72187782 GAATAGAAGAAAGAAAAAGAAGCGAAAGAGCTTG
1 GAATAGAAGAAAGAAAAAGAAGCGAAAGAGCTTG
*
72187816 GAATAGAAGAAAGAAAAAGAAGGGAAAGAGCTTG
1 GAATAGAAGAAAGAAAAAGAAGCGAAAGAGCTTG
72187850 GA
1 GA
72187852 GAAAATCGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.56, C:0.04, G:0.31, T:0.09
Consensus pattern (34 bp):
GAATAGAAGAAAGAAAAAGAAGCGAAAGAGCTTG
Found at i:72189184 original size:80 final size:80
Alignment explanation
Indices: 72189051--72189306 Score: 367
Period size: 80 Copynumber: 3.2 Consensus size: 80
72189041 GATGATAACG
* * *
72189051 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGTCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
72189116 CGAGTTACTA-ATTCC
66 CGAGTTACTATA-TCC
*
72189131 GGGCTAAGTCCCGAAGGTATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
72189196 CGAGTTACTATATCC
66 CGAGTTACTATATCC
* ** *
72189211 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGT
72189275 GCGAG-TAGCTATATCC
65 GCGAGTTA-CTATATCC
* *
72189291 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
72189307 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
79 18 0.11
80 143 0.88
81 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
CGAGTTACTATATCC
Found at i:72189292 original size:40 final size:40
Alignment explanation
Indices: 72189051--72189280 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
72189041 GATGATAACG
* *
72189051 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
72189091 GGGCTAAGTCCCGAAGTCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
72189131 GGGCTAAGTCCCGAAGGTATTTGTGCCAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
72189171 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
72189211 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
72189251 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
72189281 AGCTATATCC
Statistics
Matches: 176, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:72195668 original size:47 final size:47
Alignment explanation
Indices: 72195615--72195707 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
72195605 TTTCATGCAC
*
72195615 ATGACTCTAATGTCTAATATATATATGGACTAAGTACCTTGAATTTT
1 ATGACTCTAACGTCTAATATATATATGGACTAAGTACCTTGAATTTT
72195662 ATGACTCTAACGTCTAATATATATATGGACTAAGTACCTTGAATTT
1 ATGACTCTAACGTCTAATATATATATGGACTAAGTACCTTGAATTT
72195708 CTCTCGATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (47 bp):
ATGACTCTAACGTCTAATATATATATGGACTAAGTACCTTGAATTTT
Found at i:72196121 original size:40 final size:40
Alignment explanation
Indices: 72196055--72196177 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
72196045 GACTAAGATT
** * *
72196055 CGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCC
1 CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
* *
72196095 CGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACC
1 CGAAGGCATTTATGCGAGTTG-CTATATCCGGGCTAAGACC
*
72196135 CGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACC
1 CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
72196175 CGA
1 CGA
72196178 GATGCTTGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 68 0.94
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTATGCGAGTTGCTATATCCGGGCTAAGACC
Found at i:72196281 original size:79 final size:79
Alignment explanation
Indices: 72196150--72196307 Score: 275
Period size: 79 Copynumber: 2.0 Consensus size: 79
72196140 GCATTTGTGC
72196150 GAGTTGCTATATCCGGGCTAAGACCCGAGATGCTTGGGTTTGGAAGTGAGCGATTTTGCTATAAT
1 GAGTTGCTATATCCGGGCTAAGACCCGAGATGCTTGGGTTTGGAAGTGAGCGATTTTGCTATAAT
72196215 AATTTCAATTAATA
66 AATTTCAATTAATA
*
72196229 GAGTTGTTATATCC-GGCTAA-ATCCCGAAGATGCTTGGGTTTGGAAGTGAGCGATTTTGCTATA
1 GAGTTGCTATATCCGGGCTAAGA-CCCG-AGATGCTTGGGTTTGGAAGTGAGCGATTTTGCTATA
72196292 ATAATTTCAATTAATA
64 ATAATTTCAATTAATA
72196308 CGCTCATAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
77 1 0.01
78 10 0.13
79 65 0.86
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (79 bp):
GAGTTGCTATATCCGGGCTAAGACCCGAGATGCTTGGGTTTGGAAGTGAGCGATTTTGCTATAAT
AATTTCAATTAATA
Found at i:72204313 original size:40 final size:40
Alignment explanation
Indices: 72204276--72204440 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
72204266 GGACTATGAT
* * *
72204276 CCGAAGGCATTCGTG-TGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCT-AGTTGCTATATCCGGGCTAAGAC
* * *
72204316 CTGAAGGCATTTATGCTAG-TGATAATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTTGCT-ATATCCGGGCTAAGAC
* *
72204356 CCAAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGAC
* *
72204396 CCGAAGGCATTTGTGCTAGTTGTTATAT-CTGGCTAA-ATC
1 CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGA-C
72204435 CCGAAG
1 CCGAAG
72204441 ATGCTTGGGT
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 17 0.16
40 84 0.79
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTGCTATATCCGGGCTAAGAC
Found at i:72204881 original size:103 final size:103
Alignment explanation
Indices: 72204702--72204907 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
72204692 TGAATGTTAT
72204702 ACCTTAGCCGAACTAATTTCATTATTCAAAACTTACTAAGCATTAAATGCTGATTCCGTTTCTTT
1 ACCTTAGCCGAACTAATTTCATTATTCAAAACTTACTAAGCATTAAATGCTGATTCCGTTTCTTT
72204767 GATTCTCTGTTTTATAGATTTTGGTTTGTCAGCTATCA
66 GATTCTCTGTTTTATAGATTTTGGTTTGTCAGCTATCA
72204805 ACCTTAGCCGAACTAATTTCATTATTCAAAACTTACTAAGCATTAAATGCTGATTCCGTTTCTTT
1 ACCTTAGCCGAACTAATTTCATTATTCAAAACTTACTAAGCATTAAATGCTGATTCCGTTTCTTT
72204870 GATTCTCTGTTTTATAGATTTTGGTTTGTCAGCTATCA
66 GATTCTCTGTTTTATAGATTTTGGTTTGTCAGCTATCA
72204908 GACTCGGGAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (103 bp):
ACCTTAGCCGAACTAATTTCATTATTCAAAACTTACTAAGCATTAAATGCTGATTCCGTTTCTTT
GATTCTCTGTTTTATAGATTTTGGTTTGTCAGCTATCA
Found at i:72206749 original size:27 final size:27
Alignment explanation
Indices: 72206632--72206754 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
72206622 AGTACACTAT
* **
72206632 AAAGGCTATTCTTGCAG-GATTTTCCAC
1 AAAGGCTATTCTTTCAGAG-TTCGCCAC
* * * * *
72206659 TAAGGCTATCCCTTCATAATTCGCCAC
1 AAAGGCTATTCTTTCAGAGTTCGCCAC
* * *
72206686 TAATGCTATTCTCTCAGAGTTCGCCAC
1 AAAGGCTATTCTTTCAGAGTTCGCCAC
*
72206713 AAAGGCTATTCTTTCAGAGTTCGCCAT
1 AAAGGCTATTCTTTCAGAGTTCGCCAC
*
72206740 AAGGGCTATTCTTTC
1 AAAGGCTATTCTTTC
72206755 CTGACACATT
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.33
Consensus pattern (27 bp):
AAAGGCTATTCTTTCAGAGTTCGCCAC
Found at i:72209702 original size:46 final size:46
Alignment explanation
Indices: 72209651--72209820 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
72209641 GGCATCTGAA
*
72209651 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAG
* * * * * *
72209697 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---GC--CCGAG
* * *
72209744 CTTGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAG
*
72209790 CTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGG
72209821 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 4 0.04
46 56 0.57
47 25 0.25
48 4 0.04
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAG
Found at i:72209800 original size:93 final size:93
Alignment explanation
Indices: 72209641--72209813 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
72209631 TGGATATTTG
* * *
72209641 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
*
72209706 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCAAGTTCGTGAAATGTAACTA
* *
72209734 GGCATCCGAACTTGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
72209799 TTGAGTCCAAGTTCG
66 TTGAGTCCAAGTTCG
72209814 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
TTGAGTCCAAGTTCGTGAAATGTAACTA
Found at i:72219863 original size:22 final size:22
Alignment explanation
Indices: 72219837--72219886 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
72219827 TGTACTTTTG
*
72219837 GGGCTAGATCCGGAAAGCTATT
1 GGGCTAGATCCGAAAAGCTATT
*
72219859 GGGCTTTGATCCGAAAAGCTATT
1 GGGC-TAGATCCGAAAAGCTATT
72219882 GGGCT
1 GGGCT
72219887 TTGTGGTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (22 bp):
GGGCTAGATCCGAAAAGCTATT
Found at i:72219869 original size:23 final size:23
Alignment explanation
Indices: 72219843--72219889 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
72219833 TTTGGGGCTA
*
72219843 GATCCGGAAAGCTATTGGGCTTT
1 GATCCGAAAAGCTATTGGGCTTT
72219866 GATCCGAAAAGCTATTGGGCTTT
1 GATCCGAAAAGCTATTGGGCTTT
72219889 G
1 G
72219890 TGGTCAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (23 bp):
GATCCGAAAAGCTATTGGGCTTT
Found at i:72223760 original size:43 final size:45
Alignment explanation
Indices: 72223690--72223776 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 45
72223680 GCCTCACCTC
* * **
72223690 TCTGAGGTAGTAAGAGAGCAGTTTGAAGAATG-AG-TCTTATCTT
1 TCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTTATCTT
* *
72223733 TCTGAGGTAGCAAGAAAGTAGACTGAAGATTGAAGATCTTATCT
1 TCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTTATCT
72223777 CCCTGAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 26 0.72
44 2 0.06
45 8 0.22
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.30
Consensus pattern (45 bp):
TCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGATCTTATCTT
Found at i:72223894 original size:176 final size:177
Alignment explanation
Indices: 72223580--72223904 Score: 526
Period size: 176 Copynumber: 1.8 Consensus size: 177
72223570 GCGATATTGG
* *
72223580 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGAGGAGCGGATCGAATATGGTGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATCGAAAATGGTGAATCTTATC
* * * *
72223645 TCCATGTATCGGCAATGGAGCAGATTTTACCACCCGCCTCACCTCTCTGAGGTAGTAAGAGAGCA
66 TCCATGTATCGGCAAGGGAGCAGATTTTACCACCAGCCTCACCTCTCTGAGGTAGCAAGAGAACA
*
72223710 GTTTGAAGAATGAG-TCTTATCTTTCTGAGGTAGCAAGAAAGTAGAC
131 GATTGAAGAATGAGATCTTATCTTTCTGAGGTAGCAAGAAAGTAGAC
* *
72223756 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAATGGTGAATCTTATT
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATCGAAAATGGTGAATCTTATC
* * *
72223821 TCCATGTATCGGCAAGGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTGGCAAGAGAACA
66 TCCATGTATCGGCAAGGGAGCAGATTTTACCACCAGCCTCACCTCTCTGAGGTAGCAAGAGAACA
*
72223886 GATTGAAGAGTGAGATCTT
131 GATTGAAGAATGAGATCTT
72223905 CTTGAGATAA
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
176 131 0.97
177 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (177 bp):
TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATCGAAAATGGTGAATCTTATC
TCCATGTATCGGCAAGGGAGCAGATTTTACCACCAGCCTCACCTCTCTGAGGTAGCAAGAGAACA
GATTGAAGAATGAGATCTTATCTTTCTGAGGTAGCAAGAAAGTAGAC
Found at i:72225590 original size:653 final size:650
Alignment explanation
Indices: 72224250--72225497 Score: 2122
Period size: 653 Copynumber: 1.9 Consensus size: 650
72224240 TCCAGAAATG
72224250 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
1 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
72224315 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
66 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
***
72224380 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCCAAATCAGGCAATTAGCTGAT
131 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCCAAATCAAAAAATTAGCTGAT
* *
72224445 AAAATATTCTTGCAAAAAGGCCCTTGAAAAACCTTCAAATTACGTTCAAACCCCATCTTTATTTT
196 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
72224510 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
261 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
** *
72224575 TGGCCAACGGTGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTTAGCTA
326 TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
* * *
72224640 TAAAATCCACCCTATGCTGGCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTT
391 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
72224705 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
456 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
* *
72224770 GTGCTGATTTCCTCTCTTGAGAAAGAGGTGTTCTTCAGCCATCTTGGGCAGTAATCAAGGATTCA
521 GTGCTGATTTCCTCTCTTGAGAAAGAGGTGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTCA
* ** * ***
72224835 TAGAAGCCTTGAAATCCAGAAATATGTATTGAGACCAATTAATTTCCAGCCCAAGACATCCAAAA
586 TAGAAGCCTTG-AATCCAGAAACA--TACGGAGACCAATGAAGAGCCAGCCCAAGACATCCAAAA
**
72224900 ATG
648 AAC
72224903 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
1 TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
* *
72224968 TTTTAATTAATTATGAAGAAATGGCCTAGTGAACCGCAGTGGTTGAACCGAATGAAGTGAGCCGA
66 TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
* * *
72225033 ACCAGCCACTAATTGGGCTGACCAGGATCGTCCATTGGCTGACGCAAATCAAAAAATTAGCTGAT
131 ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCCAAATCAAAAAATTAGCTGAT
*
72225098 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATTTTTATTTT
196 AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
*
72225163 AGGCTTTGTAGATTTGCCCCAGTCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
261 AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
*** * *
72225228 TGGCTGGCCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTAGCAGCCCTCTTCATCTA
326 TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
72225293 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
391 TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
*
72225358 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCCA-TTTTCCATCCCATTTTCCCTTCCTCTT
456 TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
*
72225422 GTGCTGATTTCCTCTTTTGAGAAAGAGGAT-ATCTTCAGCCATCTTGGGCAGCAATCAAGGATTC
521 GTGCTGATTTCCTCTCTTGAGAAAGAGG-TGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTC
72225486 ATAGAAGCCTTG
585 ATAGAAGCCTTG
72225498 CTCGGCGAAG
Statistics
Matches: 567, Mismatches: 27, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
652 98 0.17
653 469 0.83
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (650 bp):
TGTATTAATTCATAATTAAATTAATTTTAATTTATTTCCTATTTAATTTAGGTTAAATGAATTAA
TTTTAATTAATTATGAAGAAAGGGCCTAGTGAACCGCACTGGTTGAACCGAATGAAGTGAGCCGA
ACCAGCCACTAATTGGGCTGACCAGAACCGTCCATTGGCTGACCCAAATCAAAAAATTAGCTGAT
AAAATATGCTTGCAAAAAGGCCCTTGAAAAACCTCCAAATTACGTTCAAACCCCATCTTTATTTT
AGGCTTTGTAGATTTGCCCCAGCCTATTTTTAGCAAGGTTGAAAGCTTCAACCTTGCCATGTGTG
TGGCCAACCATGGGAGGGCTCTCTTGGCTGCTGAATTTGCTATTTTTACCAGCCCTCTTCAGCTA
TAAAAGCCACCCTATGCTGCCCATTTCAAGGCATCCCTCAACATCCCTCATTCCACAACATTCTC
TCACCCTCTCTTCACTTCTCTCAAAGTTTCCTCTCAATTTTTCCATCCCATTTTCCCTTCCTCTT
GTGCTGATTTCCTCTCTTGAGAAAGAGGTGATCTTCAGCCATCTTGGGCAGCAATCAAGGATTCA
TAGAAGCCTTGAATCCAGAAACATACGGAGACCAATGAAGAGCCAGCCCAAGACATCCAAAAAAC
Found at i:72228419 original size:10 final size:11
Alignment explanation
Indices: 72228402--72228427 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
72228392 TAAGTTTATT
72228402 GACAAAAATTG
1 GACAAAAATTG
72228413 GACAAAAATTG
1 GACAAAAATTG
72228424 GACA
1 GACA
72228428 TGGATGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.12, G:0.19, T:0.15
Consensus pattern (11 bp):
GACAAAAATTG
Found at i:72229467 original size:46 final size:46
Alignment explanation
Indices: 72229400--72229577 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
72229390 GATATTTGGG
* *
72229400 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
*
72229446 CATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
** * * * * * *
72229492 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-GCTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCCA-A
*
72229539 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72229578 GCGGGTTTGC
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 77 0.69
47 32 0.29
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAA
Found at i:72236083 original size:26 final size:26
Alignment explanation
Indices: 72236054--72236104 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
72236044 TCACCAAGAC
72236054 ATTCATGTTACATTTGCATTTACTAT
1 ATTCATGTTACATTTGCATTTACTAT
72236080 ATTCATGTTACATTTGCATTTACTA
1 ATTCATGTTACATTTGCATTTACTA
72236105 CCTTACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.49
Consensus pattern (26 bp):
ATTCATGTTACATTTGCATTTACTAT
Found at i:72240589 original size:43 final size:43
Alignment explanation
Indices: 72240526--72240692 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 43
72240516 TATTTAAAAA
** * *
72240526 AAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCTCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
*
72240569 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
* * *
72240612 AAACGCCGTTAAAGACCATGACCTTTAGCGACGCTTTTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
* * * * *
72240655 AAACGCCGCTAAAAATCATGACCTTTAGTGGCACTTTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTT
72240693 TTTGAAAACG
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCGC
Found at i:72240702 original size:43 final size:43
Alignment explanation
Indices: 72240525--72240712 Score: 205
Period size: 43 Copynumber: 4.4 Consensus size: 43
72240515 TTATTTAAAA
** * *
72240525 AAAACGCCGCTAAAGGTCAAGACCTTTAGCGGCACTTTTCTCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
*
72240568 CAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
* * * *
72240611 TAAACGCCGTTAAAGACCATGACCTTTAGCGACGCTTTTCCCG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
* * * * * * ***
72240654 CAAACGCCGCTAAAAATCATGACCTTTAGTGGCACTTTTTTTG
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
*
72240697 AAAACGCCACTAAAGA
1 AAAACGCCGCTAAAGA
72240713 ACATATCTTT
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 123 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCG
Found at i:72240761 original size:22 final size:24
Alignment explanation
Indices: 72240736--72240779 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
72240726 AAAAAATTAT
72240736 TAAATAATAT-TTAT-TTTTATGA
1 TAAATAATATATTATGTTTTATGA
*
72240758 TAAATATTATATTATGTTTTAT
1 TAAATAATATATTATGTTTTAT
72240780 TTTTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
TAAATAATATATTATGTTTTATGA
Found at i:72240948 original size:24 final size:24
Alignment explanation
Indices: 72240921--72240967 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
72240911 ATAATAGAAG
72240921 CTACAAAACTAGTAATAATTAACA
1 CTACAAAACTAGTAATAATTAACA
**
72240945 CTACAAAACTCTTAATAATTAAC
1 CTACAAAACTAGTAATAATTAAC
72240968 CATCATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (24 bp):
CTACAAAACTAGTAATAATTAACA
Found at i:72246005 original size:7 final size:7
Alignment explanation
Indices: 72245989--72246057 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
72245979 CATAGAATAT
72245989 AACCCATA
1 AACCC-TA
72245997 AACCCTA
1 AACCCTA
72246004 AACCCCT-
1 AA-CCCTA
*
72246011 AACCTTA
1 AACCCTA
*
72246018 AACCC-C
1 AACCCTA
72246024 AACCCTTA
1 AACCC-TA
*
72246032 AACCATA
1 AACCCTA
* *
72246039 AATCATA
1 AACCCTA
72246046 AACCCTA
1 AACCCTA
72246053 AACCC
1 AACCC
72246058 ATAACCCATG
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
6 8 0.16
7 28 0.57
8 13 0.27
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:72246071 original size:22 final size:21
Alignment explanation
Indices: 72245992--72246076 Score: 55
Period size: 22 Copynumber: 4.0 Consensus size: 21
72245982 AGAATATAAC
* **
72245992 CCATAAACCCTAAACCCCTAA
1 CCATAAACCATAAACCCTAAA
* **
72246013 CCTTAAACC-CCAACCCTTAAA
1 CCATAAACCATAAACCC-TAAA
*
72246034 CCATAAATCATAAACCCTAAA
1 CCATAAACCATAAACCCTAAA
* * *
72246055 CCCATAACCCATGAACCTTAAA
1 -CCATAAACCATAAACCCTAAA
72246077 ATAGTAACTC
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
20 5 0.10
21 21 0.44
22 22 0.46
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.18
Consensus pattern (21 bp):
CCATAAACCATAAACCCTAAA
Found at i:72246458 original size:82 final size:81
Alignment explanation
Indices: 72246279--72246459 Score: 197
Period size: 82 Copynumber: 2.2 Consensus size: 81
72246269 AGACAGATAT
* *
72246279 ATTTTTTGAGGCGTTTTTCAAAAGCGCCACTAAAAGCTCGATCTATAGCGGCGCTTCTGGAAAAA
1 ATTTTTTGCGGCGTTTTTCAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGGAAAAA
72246344 CGCCGCTATAACCTCA
66 CGCCGCTATAACCTCA
** * * * * * *
72246360 ACCTATAGCAGTGTTTTTCCAGAAGCGCCGCTAAAACCTCGATCTATAGCGGCG-TT-TGGACCA
1 ATTTTTTGCGGCGTTTTT-CAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGG---A
**
72246423 AAAACGCCGCTAT-TGCTCA
62 AAAACGCCGCTATAACCTCA
72246442 ATTTTTTGCGGCGTTTTT
1 ATTTTTTGCGGCGTTTTT
72246460 TATCCAAACA
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
80 3 0.04
81 13 0.17
82 48 0.62
83 14 0.18
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (81 bp):
ATTTTTTGCGGCGTTTTTCAAAAGCGCCACTAAAACCTCGATCTATAGCGGCGCTTCTGGAAAAA
CGCCGCTATAACCTCA
Found at i:72251866 original size:26 final size:24
Alignment explanation
Indices: 72251836--72251885 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
72251826 TAAATAAAAA
*
72251836 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
*
72251862 ATTTAAAAGCATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
72251886 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:72252730 original size:17 final size:18
Alignment explanation
Indices: 72252704--72252751 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
72252694 TTTGGTTAAA
*
72252704 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
72252722 -ATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
72252739 AATTACCCAAATT
1 AATTACCCGAATT
72252752 GAATCACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:72252744 original size:9 final size:9
Alignment explanation
Indices: 72252704--72252751 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
72252694 TTTGGTTAAA
*
72252704 AATTAACCG
1 AATTACCCG
*
72252713 AATTAACCG
1 AATTACCCG
72252722 -ATTACCCG
1 AATTACCCG
72252730 AATTACCCG
1 AATTACCCG
*
72252739 AATTACCCA
1 AATTACCCG
72252748 AATT
1 AATT
72252752 GAATCACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
8 7 0.19
9 29 0.81
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:72252855 original size:17 final size:17
Alignment explanation
Indices: 72252833--72252893 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
72252823 TATGAGTCAC
72252833 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
72252850 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
72252870 AACATAATTAAAAACAT
1 TACATAATTAAAAACAT
72252887 TACATAA
1 TACATAA
72252894 GTCTTGAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 19 0.61
20 12 0.39
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:72252915 original size:37 final size:37
Alignment explanation
Indices: 72252750--72252898 Score: 226
Period size: 37 Copynumber: 4.0 Consensus size: 37
72252740 ATTACCCAAA
**
72252750 TTGAATCACTACATAATTAAAAACATTATGTAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* * *
72252787 TTGAATCACTACATAATTAAAAATATTATATAAGCCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
72252824 ATGAGTCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
72252861 TTGAATCACAACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
72252898 T
1 T
72252899 GAAATTAACA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:72253107 original size:58 final size:58
Alignment explanation
Indices: 72253045--72253161 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
72253035 GGTTCCAGCA
*
72253045 TATGCTTTGCGGCATTCCCATTGCTAAGAAATGCAACAATCTGGAATATAAATTGAAT
1 TATGCTTTGCAGCATTCCCATTGCTAAGAAATGCAACAATCTGGAATATAAATTGAAT
*
72253103 TATGCTTTGCAGCATTCCTATTGCTAAGAAATGCAACAATCTGGAATATAAATTGAAT
1 TATGCTTTGCAGCATTCCCATTGCTAAGAAATGCAACAATCTGGAATATAAATTGAAT
72253161 T
1 T
72253162 TCATTCAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (58 bp):
TATGCTTTGCAGCATTCCCATTGCTAAGAAATGCAACAATCTGGAATATAAATTGAAT
Found at i:72255330 original size:28 final size:28
Alignment explanation
Indices: 72255290--72255360 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
72255280 TGGTACTCAG
72255290 TGTACGAAATATTGAGAATGACACTTAA
1 TGTACGAAATATTGAGAATGACACTTAA
* *
72255318 TGTACGAGATATTGAGAATGACACTTAG
1 TGTACGAAATATTGAGAATGACACTTAA
* *
72255346 TGTGCAAAATATTGA
1 TGTACGAAATATTGA
72255361 ATGATTAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (28 bp):
TGTACGAAATATTGAGAATGACACTTAA
Found at i:72255477 original size:39 final size:39
Alignment explanation
Indices: 72255433--72255655 Score: 340
Period size: 39 Copynumber: 5.7 Consensus size: 39
72255423 GACTTTATAA
*
72255433 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
** *
72255472 TGGTGTTATATCCGGGCTAAGTCCTAAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
72255511 TGGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
72255550 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
72255589 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
72255628 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
72255656 TATGCTTTGT
Statistics
Matches: 172, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 150 0.87
40 22 0.13
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:72267684 original size:28 final size:27
Alignment explanation
Indices: 72267644--72267702 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 27
72267634 GCTATGATAC
* *
72267644 TTTTGAAGGTTTTGGGAGATTTTAAAT
1 TTTTGAAGGTTTTGAGAGATTTGAAAT
72267671 ATTTTGAAGGTTTTGAGAGATTTGAAAT
1 -TTTTGAAGGTTTTGAGAGATTTGAAAT
72267699 TTTT
1 TTTT
72267703 AATTAGGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (27 bp):
TTTTGAAGGTTTTGAGAGATTTGAAAT
Found at i:72267878 original size:13 final size:13
Alignment explanation
Indices: 72267860--72267893 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
72267850 ATTTGTATTG
*
72267860 GGTTGGGTAATTA
1 GGTTGGGTAAATA
*
72267873 GGTTGGGTAAATG
1 GGTTGGGTAAATA
72267886 GGTTGGGT
1 GGTTGGGT
72267894 TTGGTTGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (13 bp):
GGTTGGGTAAATA
Found at i:72267954 original size:6 final size:6
Alignment explanation
Indices: 72267943--72267968 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
72267933 TTATGTTGGA
72267943 TTGGGT TTGGGT TTGGGT TTGGGT TT
1 TTGGGT TTGGGT TTGGGT TTGGGT TT
72267969 TGTTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (6 bp):
TTGGGT
Found at i:72268116 original size:18 final size:18
Alignment explanation
Indices: 72268093--72268128 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
72268083 TTCGGTTAAC
72268093 CGATCGATTAACTGAATT
1 CGATCGATTAACTGAATT
*
72268111 CGATCGGTTAACTGAATT
1 CGATCGATTAACTGAATT
72268129 TTTTTGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (18 bp):
CGATCGATTAACTGAATT
Found at i:72268691 original size:44 final size:42
Alignment explanation
Indices: 72268623--72268782 Score: 141
Period size: 44 Copynumber: 3.8 Consensus size: 42
72268613 TATGTGTTAT
* *
72268623 CGTGTAAGACCACGTTTGGAACGTTGGCATTGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGA-TT-TGATTTA
72268667 CGTGTAAGACCACGTCTGGGACGTTGGCATCAT-ATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT--TGATTTGATTTA
** *
72268709 CGTGTAAGACC-TTTCTGGGATAG-TGGCATTGATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGA-CGTTGGCATTG--ATTTGATTTA
* * * *
72268751 CATGTTACACCACGTCTAGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTG
72268783 TACGAGCTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
39 1 0.01
41 15 0.16
42 27 0.28
43 20 0.21
44 30 0.32
45 1 0.01
46 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGATTTGATTTA
Found at i:72268744 original size:42 final size:44
Alignment explanation
Indices: 72268623--72268782 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 44
72268613 TATGTGTTAT
* *
72268623 CGTGTAAGACCACGT-TTGGAACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGAA-GTTGGCATTGA-TATTTGATTTA
* *
72268667 CGTGTAAGACCACGTCTGGGACGTTGGCA-TCATATTTGATTT-
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATTGATATTTGATTTA
**
72268709 CGTGTAAGACC-TTTCTGGGATAG-TGGCATTGATATTTGA-TTA
1 CGTGTAAGACCACGTCTGGGA-AGTTGGCATTGATATTTGATTTA
* * * * *
72268751 CATGTTACACCACGTCTAGGACGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGAAGTTGGCATTG
72268783 TACGAGCTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
41 14 0.15
42 31 0.33
43 23 0.24
44 22 0.23
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGAAGTTGGCATTGATATTTGATTTA
Found at i:72271043 original size:27 final size:27
Alignment explanation
Indices: 72270975--72271047 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
72270965 ATTGTTGAAA
72270975 TACCCCAG--TTGTAAAATTACCAAAG
1 TACCCCAGATTTGTAAAATTACCAAAG
* *
72271000 TACCCCAGGTTTATAAAATTACCCAAA-
1 TACCCCAGATTTGTAAAATTA-CCAAAG
*
72271027 TATCCTC-GATTTGTAAAATTA
1 TA-CCCCAGATTTGTAAAATTA
72271048 TTGAAATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.20
27 24 0.60
28 8 0.20
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCCAGATTTGTAAAATTACCAAAG
Found at i:72271073 original size:26 final size:27
Alignment explanation
Indices: 72271032--72271082 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
72271022 CCAAATATCC
* *
72271032 TCGATTTGTAAAATTATTGAAATACAG
1 TCGATTTGTAAAATTACTAAAATACAG
72271059 TCGA-TTGTAAAATTACTAAAATAC
1 TCGATTTGTAAAATTACTAAAATAC
72271083 CCCTGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (27 bp):
TCGATTTGTAAAATTACTAAAATACAG
Found at i:72271101 original size:27 final size:27
Alignment explanation
Indices: 72271069--72271408 Score: 430
Period size: 27 Copynumber: 12.6 Consensus size: 27
72271059 TCGATTGTAA
*
72271069 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72271096 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72271123 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
***
72271150 AATTACTGAAATACCCCTGTAAAATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72271177 AATTACCGAAATACCCCTTTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
72271204 AATTACTTAAATACCCCTATCA-AGTAG
1 AATTACTGAAATACCCCTGT-AGGGTAG
72271231 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
72271258 AATTACTGAAATACCCCTATAAAGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72271285 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
72271312 AATTACTAAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
72271339 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
72271366 AAATACTGAAATACCCCTATACGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
72271393 AATTACTGAGATACCC
1 AATTACTGAAATACCC
72271409 TCATGGGTTA
Statistics
Matches: 264, Mismatches: 47, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 262 0.99
28 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:72271137 original size:54 final size:54
Alignment explanation
Indices: 72271077--72271408 Score: 486
Period size: 54 Copynumber: 6.1 Consensus size: 54
72271067 AAAATTACTA
* *
72271077 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* **
72271131 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAAATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * *
72271185 AAATACCCCTTTAGGGTAGAATTACTTAAATACCCCTATCAA-GTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTAT-AAGGTAGAATTACCG
*
72271239 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAAGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * * *
72271293 AAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
* * * *
72271347 AAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATACGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
*
72271401 AGATACCC
1 AAATACCC
72271409 TCATGGGTTA
Statistics
Matches: 254, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
53 2 0.01
54 250 0.98
55 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCG
Found at i:72271436 original size:27 final size:27
Alignment explanation
Indices: 72271406--72271463 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
72271396 TACTGAGATA
*
72271406 CCCTCATGGGT-TAAAATTACCATTTTG
1 CCCTCA-GGGTGTAAAATGACCATTTTG
* * *
72271433 CCCTTAGGGTGTTAAATGACTATTTTG
1 CCCTCAGGGTGTAAAATGACCATTTTG
72271460 CCCT
1 CCCT
72271464 TGTGGGCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
CCCTCAGGGTGTAAAATGACCATTTTG
Found at i:72271786 original size:22 final size:22
Alignment explanation
Indices: 72271761--72271812 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
72271751 TCAATGGCCC
72271761 TGTGCCAACCTAAATATGGCTT
1 TGTGCCAACCTAAATATGGCTT
* * * *
72271783 TGTGCCATCTTGACTATGGCTT
1 TGTGCCAACCTAAATATGGCTT
*
72271805 CGTGCCAA
1 TGTGCCAA
72271813 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (22 bp):
TGTGCCAACCTAAATATGGCTT
Found at i:72272000 original size:27 final size:26
Alignment explanation
Indices: 72271970--72272078 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
72271960 ATTCTGTTAA
* *
72271970 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
*
72271997 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
72272024 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
72272051 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
72272077 GT
1 GT
72272079 AGTCATGCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 52 0.71
28 7 0.10
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:72272227 original size:25 final size:25
Alignment explanation
Indices: 72272198--72272262 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
72272188 CATTCACATT
* *
72272198 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTTTGATTCTGTCACCTAATA
*
72272223 CTGATTTTGATTCTGTCACCTAATT
1 CTGATTTTGATTCTGTCACCTAATA
72272248 CTGATTTTGATTCTG
1 CTGATTTTGATTCTG
72272263 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (25 bp):
CTGATTTTGATTCTGTCACCTAATA
Found at i:72272252 original size:31 final size:31
Alignment explanation
Indices: 72272217--72272330 Score: 99
Period size: 31 Copynumber: 3.7 Consensus size: 31
72272207 ATTCTGTTAC
*
72272217 CTGATACTGATTTTGATTCTGTCACCTAATT
1 CTGATACTGATTCTGATTCTGTCACCTAATT
** * * *
72272248 CTGATTTTGATTCTGATT-T-TGATTCT-GTT
1 CTGATACTGATTCTGATTCTGTCA-CCTAATT
* *
72272277 ACCTGATACTGATTCTGATTTTGTCACTTAATT
1 --CTGATACTGATTCTGATTCTGTCACCTAATT
*
72272310 CTGATTCTGATTCTGATTCTG
1 CTGATACTGATTCTGATTCTG
72272331 ATTCTCATTT
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
29 4 0.06
30 3 0.05
31 50 0.79
32 2 0.03
33 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
CTGATACTGATTCTGATTCTGTCACCTAATT
Found at i:72272264 original size:6 final size:6
Alignment explanation
Indices: 72272195--72272356 Score: 91
Period size: 6 Copynumber: 26.3 Consensus size: 6
72272185 TTGCATTCAC
* * * * *
72272195 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
72272245 ATTCTG ATTTTG ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * *
72272294 ATTTTG -TCACTTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
72272343 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
72272357 AATGTTTCTT
Statistics
Matches: 116, Mismatches: 26, Indels: 28
0.68 0.15 0.16
Matches are distributed among these distances:
5 7 0.06
6 94 0.81
7 11 0.09
8 4 0.03
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:72272264 original size:37 final size:37
Alignment explanation
Indices: 72272217--72272296 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
72272207 ATTCTGTTAC
* *
72272217 CTGATACTGATTTTGATTCTGTCACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATACTGATT
* * *
72272254 TTGATTCTGATTTTGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATACTGATT
72272291 CTGATT
1 CTGATT
72272297 TTGTCACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATACTGATT
Found at i:72272270 original size:62 final size:62
Alignment explanation
Indices: 72272195--72272335 Score: 237
Period size: 62 Copynumber: 2.3 Consensus size: 62
72272185 TTGCATTCAC
* *
72272195 ATTCTGATTTTGATTCTGTTACCTGATACTGATTTTGATTCTGTCACCTAATTCTGATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
* *
72272257 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTTTGTCACTTAATTCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
*
72272319 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
72272336 CATTTTGATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (62 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTCTGATTCTG
Found at i:72276482 original size:48 final size:47
Alignment explanation
Indices: 72276382--72276483 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
72276372 ACATAATAAG
* * * *
72276382 ATGCCAAAGCCATGTCCTAGATATGGTCCTACATGGGATTAGCACTCG
1 ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGATTA-CAATCA
* *
72276430 ATGCCAATGCCATGTCCTAGACATGGTCTTACATCGGATCT-CATATCA
1 ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGAT-TACA-ATCA
72276478 ATGCCA
1 ATGCCA
72276484 TATCCCAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.04
48 43 0.93
49 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGCCAAAGCCATGTCCTAGACATGGTCCTACATCGGATTACAATCA
Found at i:72278763 original size:27 final size:27
Alignment explanation
Indices: 72278730--72278930 Score: 267
Period size: 27 Copynumber: 7.4 Consensus size: 27
72278720 TGAATAAGTT
*
72278730 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTATAGG
*
72278757 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
** *
72278784 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
72278811 GTAGAATTACCGAAATACCCCTTGTAGG
1 GTAGAATTACCGAAATACCCC-TATAGG
*
72278839 ATAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
72278866 GTAGAAATACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * * *
72278893 GTAGAATTACTGAGATACCCTTATCGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
72278920 GTAAAATTACC
1 GTAGAATTACC
72278931 ATTTTGCCCC
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
27 130 0.83
28 26 0.17
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:72278866 original size:82 final size:81
Alignment explanation
Indices: 72278730--72278930 Score: 278
Period size: 82 Copynumber: 2.5 Consensus size: 81
72278720 TGAATAAGTT
* * *
72278730 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACT
*
72278795 GAAATACCCCTGTAGG
66 GAAATACCCCTATAGG
*
72278811 GTAGAATTACCGAAATACCCCT-TGTAGGATAGAATTACCGAAATACCCCTATAGGGTAGAAATA
1 GTAGAATTACCGAAATACCCCTAT-AAGG-TAGAATTACCGAAATACCCCTATAGGGTAGAAATA
72278875 CTGAAATACCCCTATAGG
64 CTGAAATACCCCTATAGG
* * * ** *
72278893 GTAGAATTACTGAGATACCCTTATCGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACC
72278931 ATTTTGCCCC
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 34 0.32
82 70 0.66
83 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAAATACT
GAAATACCCCTATAGG
Found at i:72278941 original size:109 final size:109
Alignment explanation
Indices: 72278731--72278930 Score: 310
Period size: 109 Copynumber: 1.8 Consensus size: 109
72278721 GAATAAGTTG
* * *
72278731 TAGAATTACCGAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
* *
72278796 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTTGTAGGA
66 AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTTGTAGGA
* *
72278840 TAGAATTACCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTATAGGGTAGAATTACTG
1 TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
* * *
72278905 AGATACCCTTATCGGGTAAAATTACC
66 AAATACCCCTATAGGGTAAAATTACC
72278931 ATTTTGCCCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (109 bp):
TAGAATTACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACTG
AAATACCCCTATAGGGTAAAATTACCGAAATACCCCTTGTAGGA
Found at i:72280615 original size:33 final size:33
Alignment explanation
Indices: 72280524--72280616 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
72280514 AATATACAAA
*
72280524 ACAATCTGGGCTTTAGCCCTATACAGTACCAGT
1 ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
* * * *
72280557 ACAGTCCGGG-CATAGCCCTATACAGTAGCAGT
1 ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
*
72280589 ACAATCTGGGCCTTAGTCCTATACAGTA
1 ACAATCTGGGCCTTAGCCCTATACAGTA
72280617 AAAGTGTGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACAATCTGGGCCTTAGCCCTATACAGTACCAGT
Found at i:72281004 original size:27 final size:27
Alignment explanation
Indices: 72280973--72281277 Score: 398
Period size: 27 Copynumber: 11.3 Consensus size: 27
72280963 GGGCATAATC
* *
72280973 GTCATTTTACCATGA-AGGGGTATTACA
1 GTCATTTTACCAT-ACAGGGGCATTACG
*
72281000 GTCATTTTACCATATAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* * *
72281027 ATCATTTTATCC-TATAGGGGCATTACA
1 GTCATTTTA-CCATACAGGGGCATTACG
72281054 GTCATTTTACCATACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
*
72281081 GTCATTTTACCATACAGGGGCATTACA
1 GTCATTTTACCATACAGGGGCATTACG
* * *
72281108 GTCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCATACAGGGGCATTACG
*
72281135 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
72281162 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
72281189 GTCATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGCATTACG
* *
72281216 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
** *
72281243 GTCATTTTACGTTATAGGGGCATTACG
1 GTCATTTTACCATACAGGGGCATTACG
72281270 GTCATTTT
1 GTCATTTT
72281278 GCCTAGTTTA
Statistics
Matches: 252, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 3 0.01
27 247 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACG
Found at i:72281424 original size:17 final size:17
Alignment explanation
Indices: 72281402--72281440 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
72281392 TCAGCCCAAA
72281402 TGGCCTACACGCTCGTG
1 TGGCCTACACGCTCGTG
*
72281419 TGGCCTACATGCTCGTG
1 TGGCCTACACGCTCGTG
72281436 TGGCC
1 TGGCC
72281441 CATTTAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (17 bp):
TGGCCTACACGCTCGTG
Found at i:72284223 original size:50 final size:50
Alignment explanation
Indices: 72284115--72284250 Score: 177
Period size: 50 Copynumber: 2.8 Consensus size: 50
72284105 AGATATCAAC
* * * * *
72284115 GCCATATCCCAAATATGGTCTTACATGGGATCAC-CA-CTCGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
* *
72284163 GCCATGTCCCAGACATGGTCTTACATGGGATCTCATATGTAGATGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
* *
72284213 GCCATATCCCAGACATGGTCTTACTTGGGAACTCATAT
1 GCCATATCCCAGACATGGTCTTACATGGGATCTCATAT
72284251 TAACACCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
48 30 0.39
49 1 0.01
50 45 0.59
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATATCCCAGACATGGTCTTACATGGGATCTCATATCTAGATGCCAAT
Found at i:72287220 original size:119 final size:120
Alignment explanation
Indices: 72287044--72287266 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
72287034 TACTCGTTCA
* * *
72287044 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
72287109 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
72287164 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* * *
72287226 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
72287267 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.04
119 67 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:72287266 original size:40 final size:40
Alignment explanation
Indices: 72287023--72287266 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
72287013 CGGAATTTAA
** *
72287023 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72287063 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72287103 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
72287143 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
72287182 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
72287222 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
72287262 CCGGA
1 CCGGA
72287267 CATCATTCAA
Statistics
Matches: 180, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 33 0.18
40 133 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:72298164 original size:14 final size:15
Alignment explanation
Indices: 72298145--72298174 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
72298135 ATATTTGACT
72298145 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
72298159 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
72298174 T
1 T
72298175 TCTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:72303732 original size:55 final size:55
Alignment explanation
Indices: 72303667--72303776 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
72303657 TGTATGGTAA
72303667 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
*
72303722 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTAGTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
72303777 TTGACGCCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (55 bp):
CCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
Found at i:72309388 original size:16 final size:16
Alignment explanation
Indices: 72309367--72309399 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
72309357 CACAAGTTTC
72309367 TTTTCTT-TTTTTATTT
1 TTTTCTTCTTTTT-TTT
72309383 TTTTCTTCTTTTTTTT
1 TTTTCTTCTTTTTTTT
72309399 T
1 T
72309400 GAATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTCTTCTTTTTTTT
Found at i:72310274 original size:55 final size:55
Alignment explanation
Indices: 72310185--72310293 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
72310175 TGTATAGCAA
72310185 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
1 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
* *
72310240 CCTTGTATTTGAAATTTGAAATTCAAACATAAACTACTTGATCTTATCCTTGAA
1 CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAA
72310294 ATTGACGCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (55 bp):
CCTTGTATTTGAAATTTAAAATTCAAACACAAACTACTTGATCTTATCCTTGAAG
Found at i:72314811 original size:38 final size:38
Alignment explanation
Indices: 72314760--72314920 Score: 243
Period size: 38 Copynumber: 4.3 Consensus size: 38
72314750 ATATTCGATG
*
72314760 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
72314798 TATATCCAGGTTAAATCCCGCAGGCTTCGTGC-GGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
72314835 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** * *
72314873 TATATCCGGGTTAAATCTTGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
72314911 TATATTCGGG
1 TATATCCGGG
72314921 CCTTTGAGCC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 34 0.30
38 78 0.70
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:72314885 original size:75 final size:76
Alignment explanation
Indices: 72314760--72314920 Score: 243
Period size: 75 Copynumber: 2.1 Consensus size: 76
72314750 ATATTCGATG
*
72314760 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
*
72314825 CGTGC-GGTAT
66 AGTGCTGGTAT
* * * **
72314835 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTATTATATCCGGGTTAAATCTTGCAGGCCT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
72314900 AGTGCTGGTAT
66 AGTGCTGGTAT
*
72314911 TATATTCGGG
1 TATATCCGGG
72314921 CCTTTGAGCC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 63 0.82
76 14 0.18
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (76 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCCT
AGTGCTGGTAT
Found at i:72319653 original size:22 final size:23
Alignment explanation
Indices: 72319572--72319682 Score: 111
Period size: 22 Copynumber: 4.7 Consensus size: 23
72319562 GGACTCACCA
72319572 CAGCTCGTATGAGCTTACTGATAT
1 CAGCTCGTATGAGCTTACTG-TAT
* * * *
72319596 ACCAGCTTGTAAGAGCTTACTATTCT
1 --CAGCTCGTATGAGCTTACT-GTAT
*
72319622 CAGCTAGTATGAGCTTACTGT-T
1 CAGCTCGTATGAGCTTACTGTAT
72319644 CAGCTCGTATGAGCTTACTGT-T
1 CAGCTCGTATGAGCTTACTGTAT
72319666 CAGCTCGTCA-GAGCTTA
1 CAGCTCGT-ATGAGCTTA
72319683 TCGTTTCAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
22 37 0.49
23 2 0.03
24 17 0.23
26 19 0.25
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTAT
Found at i:72343260 original size:24 final size:25
Alignment explanation
Indices: 72343212--72343262 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
72343202 GCATGCAAAC
72343212 CCATCTGGGGAGACTACTCAACCCA
1 CCATCTGGGGAGACTACTCAACCCA
72343237 CCATCTGGGGA-A-TATCTCAACCCA
1 CCATCTGGGGAGACTA-CTCAACCCA
72343261 CC
1 CC
72343263 CAGCCTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 11 0.44
ACGTcount: A:0.27, C:0.37, G:0.18, T:0.18
Consensus pattern (25 bp):
CCATCTGGGGAGACTACTCAACCCA
Found at i:72367896 original size:25 final size:25
Alignment explanation
Indices: 72367866--72368125 Score: 326
Period size: 25 Copynumber: 10.4 Consensus size: 25
72367856 GACCTCAGCA
* *
72367866 TGCTCTCTGATTATTAGCACGTCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
72367891 TGCTCTCT-AATTATTAGCATGTCAG
1 TGCTCTCTGAA-TATTAGCACGCCAG
* *
72367916 TGCTATCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
72367941 TGCTCTCTGAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
*
72367966 TGCTCTCTGAATATTAGCACGCCAA
1 TGCTCTCTGAATATTAGCACGCCAG
* * *
72367991 TGCTATCTAAATATTAGCACGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
* * *
72368016 TGCTCTTTGAATATTAGCATGCTAG
1 TGCTCTCTGAATATTAGCACGCCAG
72368041 TGCTCTCTGAATATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
72368066 TTCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTGAATATTAGCACGCCAG
* *
72368091 TGCTCTTTG-ATATTTAGCACGTCAG
1 TGCTCTCTGAATA-TTAGCACGCCAG
72368116 TGCTCTCTGA
1 TGCTCTCTGA
72368126 TTAGCACATT
Statistics
Matches: 202, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.01
25 198 0.98
26 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (25 bp):
TGCTCTCTGAATATTAGCACGCCAG
Found at i:72368169 original size:22 final size:21
Alignment explanation
Indices: 72368104--72368170 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
72368094 TCTTTGATAT
*
72368104 TTAGCACGTCAGTGCTCTCTG
1 TTAGCACTTCAGTGCTCTCTG
*
72368125 ATTAGCACATT-TGTGCTCTCTG
1 -TTAGCAC-TTCAGTGCTCTCTG
72368147 TGTAGCACTTCAGTGCTCTCTG
1 T-TAGCACTTCAGTGCTCTCTG
72368169 TT
1 TT
72368171 CATTAGTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
TTAGCACTTCAGTGCTCTCTG
Found at i:72375158 original size:40 final size:40
Alignment explanation
Indices: 72375089--72375251 Score: 247
Period size: 40 Copynumber: 4.1 Consensus size: 40
72375079 AACCCAAGTA
* **
72375089 CCTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
72375128 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
72375168 CCTTCGGGACTTAGCCCGGATATAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
72375208 CCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
72375248 CCTT
1 CCTT
72375252 TGGATCTTAG
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.11
40 101 0.89
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:72378759 original size:46 final size:46
Alignment explanation
Indices: 72378709--72378930 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
72378699 TGTTTGGGCA
72378709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
72378755 TCCGAACTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
72378801 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
72378846 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
72378894 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
72378931 GCGGGTTACA
Statistics
Matches: 156, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 1 0.01
45 2 0.01
46 108 0.69
47 27 0.17
48 2 0.01
49 1 0.01
50 6 0.04
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:72383071 original size:42 final size:42
Alignment explanation
Indices: 72383024--72383107 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
72383014 GGGATTCATA
72383024 GCAGGAATAAGAAGTATAAACTCCACAAACCACCATGACCAT
1 GCAGGAATAAGAAGTATAAACTCCACAAACCACCATGACCAT
* * * ***
72383066 GCAGGAATGAGGAGTATAAACTTCTTGAACCACCATGACCAT
1 GCAGGAATAAGAAGTATAAACTCCACAAACCACCATGACCAT
72383108 TCACCAGAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (42 bp):
GCAGGAATAAGAAGTATAAACTCCACAAACCACCATGACCAT
Found at i:72398992 original size:30 final size:30
Alignment explanation
Indices: 72398958--72399018 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
72398948 TCCTTAACTC
72398958 AAACTTTGGCAAAACTACAATTTTGCCCCT
1 AAACTTTGGCAAAACTACAATTTTGCCCCT
* * ** *
72398988 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAACTACAATTTTGCCCCT
72399018 A
1 A
72399019 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAACTACAATTTTGCCCCT
Found at i:72403544 original size:15 final size:14
Alignment explanation
Indices: 72403521--72403556 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
72403511 AAATAATCCA
*
72403521 AATAAAAATGAATT
1 AATAAAAATGAATG
72403535 AATAAGAAATGAATG
1 AATAA-AAATGAATG
72403550 AATAAAA
1 AATAAAA
72403557 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:72404825 original size:24 final size:24
Alignment explanation
Indices: 72404799--72404934 Score: 139
Period size: 24 Copynumber: 5.7 Consensus size: 24
72404789 GAAATGGCTT
72404799 TGGCACTATGTGTGCGAATTTG-A
1 TGGCACTATGTGTGCGAATTTGTA
*
72404822 TTGGCACTATGTGTACGAATTTGTA
1 -TGGCACTATGTGTGCGAATTTGTA
* *
72404847 CGGCACTATGTGTGTGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
* *
72404871 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGTA
* * * * * **
72404895 TGTCAATATGTATGTGCATTACTA
1 TGGCACTATGTGTGCGAATTTGTA
*
72404919 AGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
72404935 GGTAAACATG
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
24 89 0.99
25 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGTA
Found at i:72405969 original size:18 final size:18
Alignment explanation
Indices: 72405946--72405983 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
72405936 AATGGATATG
72405946 ATAAATCTACAATGCAAT
1 ATAAATCTACAATGCAAT
72405964 ATAAATCTACAATGCAAT
1 ATAAATCTACAATGCAAT
72405982 AT
1 AT
72405984 TTACTTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (18 bp):
ATAAATCTACAATGCAAT
Found at i:72411351 original size:28 final size:28
Alignment explanation
Indices: 72411291--72411352 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
72411281 AATGACCAAA
* *
72411291 ATACCCCTAAGGGGTAAAAATTACTATT
1 ATACCTCTAAGGGGTAAAAATGACTATT
* * * *
72411319 CTACCTCTAATGGGTGAAAATGACTGTT
1 ATACCTCTAAGGGGTAAAAATGACTATT
72411347 ATACCT
1 ATACCT
72411353 TAGAGGTAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (28 bp):
ATACCTCTAAGGGGTAAAAATGACTATT
Found at i:72416185 original size:30 final size:30
Alignment explanation
Indices: 72416090--72416186 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
72416080 AGCTCACTCC
* *
72416090 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAGCCT
* * * * *
72416120 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAGCCT
* *
72416150 CAGCTCAACTTTAGCTCACGAGCTAAGGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAGCCT
72416180 TAGCTCA
1 TAGCTCA
72416187 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAGCCT
Done.