Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 327 of 770
Found at i:100252501 original size:32 final size:32
Alignment explanation
Indices: 100252465--100252526 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100252455 AGCTTTTGGT
100252465 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
100252497 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
100252527 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:100260714 original size:6 final size:6
Alignment explanation
Indices: 100260703--100260781 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100260693 GGGATCACTA
100260703 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
100260746 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
100260782 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:100260725 original size:20 final size:21
Alignment explanation
Indices: 100260699--100260744 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100260689 AGCCGGGATC
100260699 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100260720 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100260740 ACTAA
1 ACTAA
100260745 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:100260769 original size:11 final size:11
Alignment explanation
Indices: 100260699--100260745 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
100260689 AGCCGGGATC
100260699 ACTAA-CTAAT
1 ACTAATCTAAT
100260709 ACTAATCTAAT
1 ACTAATCTAAT
100260720 -CTAA-CTAAT
1 ACTAATCTAAT
100260729 ACTAATCTAAT
1 ACTAATCTAAT
100260740 ACTAAT
1 ACTAAT
100260746 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:100260795 original size:14 final size:14
Alignment explanation
Indices: 100260778--100260805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100260768 CTCTAATACT
100260778 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100260792 AATAGAATAGAAAA
1 AATAGAATAGAAAA
100260806 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:100273425 original size:30 final size:30
Alignment explanation
Indices: 100273370--100273500 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
100273360 ATAGTGAATC
*
100273370 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
100273399 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
100273429 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
100273457 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
100273487 CGCACACTTAGTGC
1 CGCACACTTAGTGC
100273501 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:100273480 original size:58 final size:58
Alignment explanation
Indices: 100273369--100273500 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
100273359 TATAGTGAAT
* * * * *
100273369 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
100273428 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
100273486 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
100273501 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:100277738 original size:68 final size:70
Alignment explanation
Indices: 100277666--100277863 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
100277656 ACACCCTGTA
* * * *
100277666 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
100277728 ATAAAT
65 ATAAAT
*
100277734 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
100277799 ATAAAT
65 ATAAAT
*
100277805 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
100277864 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:100277777 original size:41 final size:41
Alignment explanation
Indices: 100277732--100277849 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
100277722 TGAAAGATAA
100277732 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
100277773 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100277803 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100277844 ATGTAG
1 ATGTAG
100277850 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:100277789 original size:71 final size:71
Alignment explanation
Indices: 100277700--100277863 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100277690 GAGATGTATC
100277700 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100277765 AGGACA
66 AGGACA
100277771 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100277836 AGGACA
66 AGGACA
100277842 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
100277864 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:100280260 original size:22 final size:21
Alignment explanation
Indices: 100280244--100280355 Score: 125
Period size: 22 Copynumber: 5.1 Consensus size: 21
100280234 AAAAATTCAA
*
100280244 AAAATTTAAAATTAAAAATTT
1 AAAATTAAAAATTAAAAATTT
*
100280265 AAAAATTAAAAATTTAAAAATTA
1 -AAAATTAAAAA-TTAAAAATTT
*
100280288 AAAATTTAAAAATTAAAAATTA
1 AAAA-TTAAAAATTAAAAATTT
**
100280310 AAAATTAAAAATTAAAAAATAA
1 AAAATTAAAAATT-AAAAATTT
*
100280332 AAAATAAAAAACTTAAAAATTT
1 AAAATTAAAAA-TTAAAAATTT
100280354 AA
1 AA
100280356 TATTTAATAT
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.11
22 53 0.66
23 18 0.22
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAAAAATTAAAAATTT
Found at i:100280327 original size:7 final size:7
Alignment explanation
Indices: 100280220--100280352 Score: 153
Period size: 7 Copynumber: 18.3 Consensus size: 7
100280210 ATATGTTAAT
100280220 TTAAAAA
1 TTAAAAA
*
100280227 TTATAAA
1 TTAAAAA
100280234 --AAAAA
1 TTAAAAA
100280239 TTCAAAAAA
1 TT--AAAAA
*
100280248 TTTAAAA
1 TTAAAAA
100280255 TTAAAAA
1 TTAAAAA
100280262 TTTAAAAA
1 -TTAAAAA
100280270 TTAAAAA
1 TTAAAAA
100280277 TTTAAAAA
1 -TTAAAAA
100280285 TTAAAAA
1 TTAAAAA
100280292 TTTAAAAA
1 -TTAAAAA
100280300 TTAAAAA
1 TTAAAAA
100280307 TTAAAAA
1 TTAAAAA
100280314 TTAAAAA
1 TTAAAAA
100280321 TTAAAAAA
1 TT-AAAAA
*
100280329 TAAAAAA
1 TTAAAAA
*
100280336 TAAAAAA
1 TTAAAAA
100280343 CTTAAAAA
1 -TTAAAAA
100280351 TT
1 TT
100280353 TAATATTTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
5 4 0.04
7 67 0.60
8 33 0.30
9 7 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:100280362 original size:15 final size:15
Alignment explanation
Indices: 100280217--100280355 Score: 173
Period size: 15 Copynumber: 9.5 Consensus size: 15
100280207 TTTATATGTT
*
100280217 AATTTAAAAATTATA
1 AATTTAAAAATTAAA
100280232 AA---AAAAATTCAAAA
1 AATTTAAAAATT--AAA
100280246 AATTT-AAAATTAAA
1 AATTTAAAAATTAAA
100280260 AATTTAAAAATTAAA
1 AATTTAAAAATTAAA
100280275 AATTTAAAAATTAAA
1 AATTTAAAAATTAAA
100280290 AATTTAAAAATTAAA
1 AATTTAAAAATTAAA
100280305 AA-TTAAAAATTAAA
1 AATTTAAAAATTAAA
*
100280319 AA-TTAAAAAATAAA
1 AATTTAAAAATTAAA
* *
100280333 AAATAAAAAACTTAAA
1 AATTTAAAAA-TTAAA
100280349 AATTTAA
1 AATTTAA
100280356 TATTTAATAT
Statistics
Matches: 110, Mismatches: 6, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
12 7 0.06
14 39 0.35
15 49 0.45
16 15 0.14
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (15 bp):
AATTTAAAAATTAAA
Found at i:100285870 original size:27 final size:27
Alignment explanation
Indices: 100285840--100286333 Score: 171
Period size: 27 Copynumber: 18.2 Consensus size: 27
100285830 TTTAGTTTAC
100285840 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
100285867 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* **
100285894 TAAAATTACCACCGAAATACTGTCGA-TTG
1 TAAAATT---ACTGAAATACCCTCGATTTG
* *
100285923 TAAAATTACTGAAATGCCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
100285950 TAAAATTAC-CAAAGAACCCTCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * * *** *
100285977 CAGAATTATTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * * *** * * *
100286004 CAGAATTACCGTTTTACCCACAATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * * ** *
100286031 CAGAATTAC-CATTTTACCCTCGATTTA
1 TAAAATTACTGA-AATACCCTCGATTTG
* * ** *
100286058 TAGAATTAC-CATTTTACCCTCGATTTA
1 TAAAATTACTGA-AATACCCTCGATTTG
* ** *
100286085 TAGAATTA-TCG-TTTAACCCTCGATTTA
1 TAAAATTACT-GAAAT-ACCCTCGATTTG
* *** *
100286112 CAAAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * * * *
100286139 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* ** **
100286166 CAAAATTACCAAAATACCCTCGATCAG
1 TAAAATTACTGAAATACCCTCGATTTG
** *
100286193 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACTGAAATACCCTC-GATTTG
* * * *
100286220 TAAAATTACTAAAATAGCCTTGGTTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* ** **
100286247 TAAAATCACCAAAATACCCAT-GGCTTG
1 TAAAATTACTGAAATACCC-TCGATTTG
**
100286274 TAAAATTACCAAAATACCC-CTGATTTG
1 TAAAATTACTGAAATACCCTC-GATTTG
* *
100286301 TGAAATTA-TCGAAATACACTCGATTTG
1 TAAAATTACT-GAAATACCCTCGATTTG
100286328 TAAAAT
1 TAAAAT
100286334 ATCAAAATAC
Statistics
Matches: 383, Mismatches: 65, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
26 18 0.05
27 336 0.88
28 6 0.02
29 10 0.03
30 13 0.03
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:100285933 original size:56 final size:57
Alignment explanation
Indices: 100285850--100285960 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 57
100285840 TAAAATTACT
*
100285850 GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATTACCACC
1 GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCACC
** * *
100285907 GAAATACTGTCGA-TTGTAAAATTACTGAAATGCCCTCAATTTGTAAAATTACCA
1 GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCA
100285961 AAGAACCCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 38 0.78
57 11 0.22
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (57 bp):
GAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCACC
Found at i:100286011 original size:54 final size:54
Alignment explanation
Indices: 100285965--100286146 Score: 247
Period size: 54 Copynumber: 3.4 Consensus size: 54
100285955 TTACCAAAGA
* *
100285965 ACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTT
1 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTT
* * * * *
100286019 ACCCACAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTT
1 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTT
* * * **
100286073 ACCCTCGATTTATAGAATTATCGTTTAACCCTCGATTTACAAAATTACTGTTTT
1 ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTT
*
100286127 ACCCTCGATTTACAAAATTA
1 ACCCTCGATTTACAGAATTA
100286147 CTAAAATACC
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
ACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTT
Found at i:100286127 original size:81 final size:81
Alignment explanation
Indices: 100285965--100286147 Score: 249
Period size: 81 Copynumber: 2.3 Consensus size: 81
100285955 TTACCAAAGA
*** *
100285965 ACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCACAATTT
1 ACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTAACCCACAATTT
*
100286030 ACAGAATTACCATTTT
66 ACAAAATTACCATTTT
* * * * *
100286046 ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTAACCCTCGATTT
1 ACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTAACCCACAATTT
**
100286111 ACAAAATTACTGTTTT
66 ACAAAATTACCATTTT
*
100286127 ACCCTCGATTTACAAAATTAC
1 ACCCTCGATTTACAGAATTAC
100286148 TAAAATACCC
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
ACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTAACCCACAATTT
ACAAAATTACCATTTT
Found at i:100286157 original size:81 final size:81
Alignment explanation
Indices: 100285991--100286175 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 81
100285981 ATTATTGTTT
* *
100285991 TACCCTCGATTTACAGAATTACCGTTTTACCCACAATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTAACCCACAATTTACAAAATTACCATTTTACCCTCGATT
* * ***
100286056 TATAGAATTACCATTT
66 TACAAAATTACCAAAA
* * * * **
100286072 TACCCTCGATTTATAGAATTATCGTTTAACCCTCGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTAACCCACAATTTACAAAATTACCATTTTACCCTCGATT
*
100286137 TACAAAATTACTAAAA
66 TACAAAATTACCAAAA
* * *
100286153 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAGAATTACC
100286176 AAAATACCCT
Statistics
Matches: 85, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTAACCCACAATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACCAAAA
Found at i:100286158 original size:54 final size:54
Alignment explanation
Indices: 100285965--100286175 Score: 228
Period size: 54 Copynumber: 3.9 Consensus size: 54
100285955 TTACCAAAGA
* * * *
100285965 ACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTT
1 ACCCTCGATTTACAGAATTACTATTATACCCTCGATTTACAAAATTACCGTTTT
* * * * * * *
100286019 ACCCACAATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTT
1 ACCCTCGATTTACAGAATTACTATTATACCCTCGATTTACAAAATTACCGTTTT
* *
100286073 ACCCTCGATTTATAGAATTATCGT-TTA-ACCCTCGATTTACAAAATTACTGTTTT
1 ACCCTCGATTTACAGAATTA-C-TATTATACCCTCGATTTACAAAATTACCGTTTT
* ** * *
100286127 ACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 ACCCTCGATTTACAGAATTACTATTATACCCTCGATTTACAAAATTACC
100286176 AAAATACCCT
Statistics
Matches: 130, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 124 0.95
55 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
ACCCTCGATTTACAGAATTACTATTATACCCTCGATTTACAAAATTACCGTTTT
Found at i:100286184 original size:54 final size:54
Alignment explanation
Indices: 100286126--100286344 Score: 194
Period size: 54 Copynumber: 4.1 Consensus size: 54
100286116 ATTACTGTTT
* * * **
100286126 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAA
* * *
100286180 TACCCTCGA-TCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAA
* * * * * *
100286234 TAGCCTTGGTTTGTAAAATCACCAAAATACCCATGGCTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAA
* * * * * * *
100286288 TACCC-CTGATTTGTGAAATTATCGAAATACAC-TCGATTTGTAAAA-TATCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAATACCCAT-GGTTTGTAAAATTACCAAAA
100286341 TACC
1 TACC
100286345 TCTATAGGGT
Statistics
Matches: 134, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
53 14 0.10
54 119 0.89
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCATGGTTTGTAAAATTACCAAAA
Found at i:100286301 original size:81 final size:81
Alignment explanation
Indices: 100286140--100286308 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
100286130 CTCGATTTAC
*
100286140 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATCACCAAAATACCCTCGATCAGTAAAATTACCAA
*
100286205 AATACCCCTGGTTTGT
66 AATACCCCTGATTTGT
* ** * * *
100286221 AAAATTACTAAAATAGCCTTGGTTTGTAAAATCACCAAAATACCCATGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATCACCAAAATACCC-TCGATCAGTAAAATTACCA
100286285 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGT
*
100286302 GAAATTA
1 AAAATTA
100286309 TCGAAATACA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 75 0.96
82 3 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATCACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:100286316 original size:81 final size:79
Alignment explanation
Indices: 100286140--100286344 Score: 234
Period size: 81 Copynumber: 2.5 Consensus size: 79
100286130 CTCGATTTAC
**
100286140 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATA-CCTTGGTTTGTAAAA-TACCAAAATACCCTCGATCAGTAAAATTACCAA
*
100286205 AATACCCCTGGTTTGT
64 AATACCCCTGATTTGT
* * *
100286221 AAAATTACTAAAATAGCCTTGGTTTGTAAAATCACCAAAATACCCATGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATA-CCTTGGTTTGTAAAAT-ACCAAAATACCC-TCGATCAGTAAAATTACCA
100286285 AAATACCCCTGATTTGT
63 AAATACCCCTGATTTGT
* * * * *
100286302 GAAATTA-TCGAAATACACTCGATTTGTAAAATATCAAAATACC
1 AAAATTACT-AAAATAC-CTTGGTTTGTAAAATACCAAAATACC
100286345 TCTATAGGGT
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
80 13 0.12
81 92 0.85
82 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (79 bp):
AAAATTACTAAAATACCTTGGTTTGTAAAATACCAAAATACCCTCGATCAGTAAAATTACCAAAA
TACCCCTGATTTGT
Found at i:100286368 original size:27 final size:27
Alignment explanation
Indices: 100286338--100286604 Score: 365
Period size: 27 Copynumber: 9.9 Consensus size: 27
100286328 TAAAATATCA
* * *
100286338 AAATACCTCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100286365 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100286392 AAATACCCCTGTAGGGTAGAAATA-CA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100286418 AAATAACCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100286445 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* **
100286472 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
100286499 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100286526 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
100286553 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
100286580 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
100286605 TATTTTTCCC
Statistics
Matches: 215, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.11
27 192 0.89
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:100286388 original size:80 final size:78
Alignment explanation
Indices: 100286304--100286570 Score: 290
Period size: 80 Copynumber: 3.3 Consensus size: 78
100286294 TGATTTGTGA
** * *
100286304 AATTATCGAAATACACTCG-ATTTGTAAAATATCAAAATACCTCTATAGGGTAGAATTATCGAAA
1 AATTATCGAAATAC-CTCGTA-GGGTAAAATATCAAAATACC-CTGTAGGGTAGAATTACCGAAA
100286368 TACCCCTGTAGGGTAG
63 TACCCCTGTAGGGTAG
*
100286384 AATTATCGAAATACCCCTGTAGGGTAGAAATA-CAAAATAACCCTGTAGGGTAGAATTACCGAAA
1 AATTATCGAAATACCTC-GTAGGGTA-AAATATCAAAAT-ACCCTGTAGGGTAGAATTACCGAAA
*
100286448 TACCCCTATAGGGTAG
63 TACCCCTGTAGGGTAG
* *
100286464 AATTA-CTGAAATACCCTTGTAGGGTAGAAT-TACTAAAATACCCCTGTAGGGTAGAATTACCGA
1 AATTATC-GAAATA-CCTCGTAGGGTAAAATAT-C-AAAATA-CCCTGTAGGGTAGAATTACCGA
*
100286527 AATACCCTTGTAGGGTAG
61 AATACCCCTGTAGGGTAG
* * *
100286545 AAATACCGAAATACCCCTGTAGGGTA
1 AATTATCGAAATACCTC-GTAGGGTA
100286571 GAATTACCGA
Statistics
Matches: 161, Mismatches: 14, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
79 6 0.04
80 82 0.51
81 72 0.45
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (78 bp):
AATTATCGAAATACCTCGTAGGGTAAAATATCAAAATACCCTGTAGGGTAGAATTACCGAAATAC
CCCTGTAGGGTAG
Found at i:100286852 original size:25 final size:25
Alignment explanation
Indices: 100286810--100286903 Score: 129
Period size: 25 Copynumber: 3.8 Consensus size: 25
100286800 AGGAAGTGCT
*
100286810 AAAAGGGCTTTG-CCCAGTTTACCG
1 AAAAAGGCTTTGCCCCAGTTTACCG
*
100286834 AAAAAGGCTTTGCCTCAGTTTACC-
1 AAAAAGGCTTTGCCCCAGTTTACCG
*
100286858 AAAAAGGGCTTTGCCCCTGTTTACCG
1 AAAAA-GGCTTTGCCCCAGTTTACCG
*
100286884 AAAAGGGCTTTGCCCCAGTT
1 AAAAAGGCTTTGCCCCAGTT
100286904 ATTGAAAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
24 16 0.26
25 41 0.67
26 4 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAAGGCTTTGCCCCAGTTTACCG
Found at i:100286916 original size:24 final size:24
Alignment explanation
Indices: 100286885--100286930 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
100286875 TGTTTACCGA
**
100286885 AAAGGGCTTTGCC-CCAGTTATTG
1 AAAGGGCTAGGCCTCCAGTTATTG
100286908 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCCTCCAGTTAT
100286931 ATGATAAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 7 0.37
25 8 0.42
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (24 bp):
AAAGGGCTAGGCCTCCAGTTATTG
Found at i:100289179 original size:27 final size:27
Alignment explanation
Indices: 100289149--100289293 Score: 141
Period size: 27 Copynumber: 5.3 Consensus size: 27
100289139 TTTAGTTTAC
100289149 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
100289176 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
100289203 TAAAATTACCACCGAAATACCGTTGA-TTG
1 TAAAATT---ACTGAAATACCCTCGATTTG
* * *
100289232 AAAAATTACTGAAATGCCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
100289259 TAAAATTAC-CAAAGTACCCTCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
*
100289286 TAGAATTA
1 TAAAATTA
100289294 TCGTTTTACC
Statistics
Matches: 96, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
26 14 0.15
27 60 0.62
29 9 0.09
30 13 0.14
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:100289246 original size:56 final size:57
Alignment explanation
Indices: 100289159--100289284 Score: 152
Period size: 56 Copynumber: 2.3 Consensus size: 57
100289149 TAAAATTACT
* * *
100289159 GAAATACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCACC
1 GAAATACCCTCGATTTGAAAAATTACTGAAATACCCTCAACTTGTAAAATTACCACC
* * * *
100289216 GAAATACCGTTGA-TTGAAAAATTACTGAAATGCCCTCAATTTGTAAAATTACCA--
1 GAAATACCCTCGATTTGAAAAATTACTGAAATACCCTCAACTTGTAAAATTACCACC
*
100289270 -AAGTACCCTCGATTT
1 GAAATACCCTCGATTT
100289285 ATAGAATTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 9 0.16
54 2 0.03
56 36 0.62
57 11 0.19
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (57 bp):
GAAATACCCTCGATTTGAAAAATTACTGAAATACCCTCAACTTGTAAAATTACCACC
Found at i:100289303 original size:27 final size:27
Alignment explanation
Indices: 100289273--100289456 Score: 242
Period size: 27 Copynumber: 6.8 Consensus size: 27
100289263 ATTACCAAAG
* * *
100289273 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
100289300 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
100289327 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
100289354 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
100289381 GACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
100289408 TATCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
100289435 TACCATCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
100289457 TAAAATACCC
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:100289465 original size:27 final size:26
Alignment explanation
Indices: 100289435--100289546 Score: 64
Period size: 27 Copynumber: 4.2 Consensus size: 26
100289425 ATTACCGTTT
*
100289435 TACCATCGATTTACAAAATTACTAAAA
1 TACC-TCGATTTAAAAAATTACTAAAA
* *
100289462 TACC-CTTAGTTTAAAAAATTACCAAAA
1 TACCTC-GA-TTTAAAAAATTACTAAAA
* * **
100289489 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCTC-GATTTAAAAAATTACTAAAA
* * ** *
100289516 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCTC-GATTTAAAAAATTACTAAAA
100289543 TACC
1 TACC
100289547 CTTAGCTTGA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 69 0.95
28 2 0.03
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (26 bp):
TACCTCGATTTAAAAAATTACTAAAA
Found at i:100289467 original size:81 final size:80
Alignment explanation
Indices: 100289300--100289485 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 80
100289290 ATTATCGTTT
* *
100289300 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTACAAAATTACCATTTTACCATCGATTTACAGAATTACCATTTTACCATCAATT
* * * **
100289365 TATAGAATTACCATT
66 TACAAAATTACAAAA
* * * * * *
100289380 TGACCCTCGATTTATAGAATTATCATTTTATCATCGATTTACAGAATTACCGTTTTACCATCGAT
1 T-ACCCTCGATTTACAAAATTACCATTTTACCATCGATTTACAGAATTACCATTTTACCATCAAT
100289445 TTACAAAATTACTAAAA
65 TTACAAAATTAC-AAAA
* *
100289462 TACCCT-TAGTTTAAAAAATTACCA
1 TACCCTCGA-TTTACAAAATTACCA
100289486 AAATACCCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
80 2 0.02
81 82 0.95
82 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCATTTTACCATCGATTTACAGAATTACCATTTTACCATCAATT
TACAAAATTACAAAA
Found at i:100289547 original size:27 final size:27
Alignment explanation
Indices: 100289449--100289629 Score: 179
Period size: 27 Copynumber: 6.8 Consensus size: 27
100289439 ATCGATTTAC
* * * **
100289449 AAAATTACTAAAATACCCTTAGTTTAA
1 AAAATTACCAAAATACCCCTGGTTTGT
100289476 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
100289503 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
100289530 AAAATTACCAAAATACCCTTAGCTTG-
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
100289556 AAAATTACCAAAATACCTCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
100289583 GAAATTATCAAAAT-GCTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
100289610 AAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
100289630 TAGGGTAGAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
26 35 0.27
27 95 0.73
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:100289559 original size:26 final size:27
Alignment explanation
Indices: 100289449--100289654 Score: 170
Period size: 27 Copynumber: 7.7 Consensus size: 27
100289439 ATCGATTTAC
* * **
100289449 AAAATTACTAAAATACCCTTAGTTTAA
1 AAAATTACCAAAATACCCCTAGTTTGT
*
100289476 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
100289503 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
100289530 AAAATTACCAAAATACCCTTAGCTTG-
1 AAAATTACCAAAATACCCCTAGTTTGT
*
100289556 AAAATTACCAAAATACCTCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * * *
100289583 GAAATTATCAAAAT-GCTCTCGATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* **
100289610 AAAA-TATCAAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTAGT-TTGT
* *
100289636 AGAATTACCAAAAAACCCC
1 AAAATTACCAAAATACCCC
100289655 AGTAGGGTAG
Statistics
Matches: 149, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 40 0.27
27 107 0.72
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:100289642 original size:80 final size:80
Alignment explanation
Indices: 100289449--100289654 Score: 204
Period size: 80 Copynumber: 2.6 Consensus size: 80
100289439 ATCGATTTAC
* ** * *
100289449 AAAATTACTAAAATACCCTTAGTTTAAAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTTAGCGT-GAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
*
100289514 AATACCCCTGGTTTGT
65 AATACCCCTGATTTGT
* * *
100289530 AAAATTACCAAAATACCCTTAGCTTGAAAATTACCAAAATACCTCTGATTTGTGAAATTA-TCAA
1 AAAATTACCAAAATACCCTTAGCGTGAAAATTACCAAAATACCCCTGATTTGTAAAATTACT-AA
* *
100289594 AAT-GCTCTCGATTTGT
65 AATACCCCT-GATTTGT
* * * *
100289610 AAAA-TATCAAAATACCCCTGTAGGGT-AGAATTACCAAAAAACCCC
1 AAAATTACCAAAATA-CCCT-TAGCGTGAAAATTACCAAAATACCCC
100289655 AGTAGGGTAG
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
79 13 0.12
80 66 0.62
81 27 0.25
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTAGCGTGAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
ATACCCCTGATTTGT
Found at i:100289659 original size:27 final size:27
Alignment explanation
Indices: 100289617--100289833 Score: 256
Period size: 27 Copynumber: 8.1 Consensus size: 27
100289607 TGTAAAATAT
100289617 CAAAATACCCCTGTAGGGTAGAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
* *
100289644 CAAAAAACCCCAGTAGGGTAGAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
** *
100289671 TGAAATAACCCTGTAGGGTAGAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
* *
100289698 CAAAATACCCCTGTAGCGTAGAATTAT
1 CAAAATACCCCTGTAGGGTAGAATTAC
**
100289725 TGAAATACCCCTGTAGGGTAGAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
* * *
100289752 CGAAATACCCTTGTAGGGTAGAAATAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
* *
100289779 CGAAATACCCC-GTAGGATAGAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
* * * * *
100289805 CGAGATACCCTTGTGGGGTAAAATTAC
1 CAAAATACCCCTGTAGGGTAGAATTAC
100289832 CA
1 CA
100289834 TTTTTCCCCT
Statistics
Matches: 161, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.14
27 139 0.86
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
CAAAATACCCCTGTAGGGTAGAATTAC
Found at i:100290156 original size:25 final size:25
Alignment explanation
Indices: 100290038--100290156 Score: 159
Period size: 25 Copynumber: 4.8 Consensus size: 25
100290028 GGAAGTGCTC
100290038 AAAGGGCTTTG-CCTCAGTTTACCGA
1 AAAGGGCTTTGCCCT-AGTTTACCGA
* *
100290063 AAATGGCTTTGCCTTAGTTTACCGA
1 AAAGGGCTTTGCCCTAGTTTACCGA
*
100290088 AAAGGGCTTTGCCCAAGTTTACCGA
1 AAAGGGCTTTGCCCTAGTTTACCGA
* * * *
100290113 AAAGGGCTTTACCCCAGTTTATCAA
1 AAAGGGCTTTGCCCTAGTTTACCGA
100290138 AAAGGGCTTTGCCCTAGTT
1 AAAGGGCTTTGCCCTAGTT
100290157 ATTAAAAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
25 80 0.98
26 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTTGCCCTAGTTTACCGA
Found at i:100292426 original size:27 final size:27
Alignment explanation
Indices: 100292396--100292551 Score: 158
Period size: 27 Copynumber: 5.9 Consensus size: 27
100292386 AGTTTACTAT
100292396 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
** *
100292423 AATTACTGAAATACTTTCGACTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
* * *
100292450 AATTAC--AAAGTACCCCCGGTTTATAA
1 AATTACTGAAA-TACCCTCGATTTGTAA
**
100292476 AATTACTGAAATACTGTCGA-TTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
* *
100292502 AATTACTGAAATGCCCTCAATTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAA
* *
100292529 AATTAC-CAAAGTACCCTTGATTT
1 AATTACTGAAA-TACCCTCGATTT
100292552 ACAGAATTAT
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
25 3 0.03
26 40 0.39
27 56 0.55
28 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (27 bp):
AATTACTGAAATACCCTCGATTTGTAA
Found at i:100292530 original size:53 final size:54
Alignment explanation
Indices: 100292396--100292534 Score: 194
Period size: 53 Copynumber: 2.6 Consensus size: 54
100292386 AGTTTACTAT
*
100292396 AATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTTTCGACTTGTAA
1 AATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTGTCGACTTGTAA
* * *
100292450 AATTAC--AAAGTACCCCCGGTTTATAAAATTACTGAAATACTGTCGA-TTGTAA
1 AATTACTGAAA-TACCCTCGATTTGTAAAATTACTGAAATACTGTCGACTTGTAA
* *
100292502 AATTACTGAAATGCCCTCAATTTGTAAAATTAC
1 AATTACTGAAATACCCTCGATTTGTAAAATTAC
100292535 CAAAGTACCC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 15 0.21
53 49 0.67
54 9 0.12
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (54 bp):
AATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACTGTCGACTTGTAA
Found at i:100292559 original size:27 final size:27
Alignment explanation
Indices: 100292540--100292777 Score: 341
Period size: 27 Copynumber: 8.8 Consensus size: 27
100292530 ATTACCAAAG
* * *
100292540 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
***
100292567 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
100292594 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
100292621 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
100292648 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
100292675 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
100292702 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
100292729 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
100292756 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
100292778 TAAAATACCC
Statistics
Matches: 196, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:100292625 original size:81 final size:81
Alignment explanation
Indices: 100292540--100292777 Score: 377
Period size: 81 Copynumber: 2.9 Consensus size: 81
100292530 ATTACCAAAG
* * **
100292540 TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
100292605 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * *
100292621 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
100292686 TACAGAATTATCGTTT
66 TACAGAATTACCGTTT
* *
100292702 TACCCTCGATTTATAGAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
100292767 TACAAAATTAC
66 TACAGAATTAC
100292778 TAAAATACCC
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 142 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:100292786 original size:27 final size:27
Alignment explanation
Indices: 100292702--100292922 Score: 137
Period size: 27 Copynumber: 8.2 Consensus size: 27
100292692 ATTATCGTTT
* ***
100292702 TACCCTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACT-AAAA
* *****
100292729 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
100292756 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * * *
100292783 TACCCTTGGTTTACAAAATAACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
100292810 TACCCTAGA-TTAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
*
100292837 TACCC-CTAGTTTATAAAATTACTAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
100292864 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
** *
100292891 TACCC-CTGGCTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
100292918 TACCC
1 TACCC
100292923 CTAATTTATG
Statistics
Matches: 163, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.02
27 156 0.96
28 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:100292787 original size:81 final size:81
Alignment explanation
Indices: 100292527--100292797 Score: 335
Period size: 81 Copynumber: 3.3 Consensus size: 81
100292517 CTCAATTTGT
* * * **
100292527 AAAATTACCAAAGTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTATTGT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
100292592 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *** * * *
100292608 AGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
100292673 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *** * *
100292689 AGAATTATCGTTTTACCCTCGATTTATAGAATTATCATTTTACCCTCGATTTACAAAATTACCGT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
100292754 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
100292770 AAAATTACTAAAATACCCTTGGTTTACA
1 AAAATTACCAAATTACCCTCGATTTACA
100292798 AAATAACCAA
Statistics
Matches: 162, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 162 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:100292814 original size:81 final size:81
Alignment explanation
Indices: 100292567--100292895 Score: 227
Period size: 81 Copynumber: 4.1 Consensus size: 81
100292557 ATTATCGTTT
* *** * *****
100292567 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
* ***
100292632 TACAGAATTACCATTT
66 TACAAAATTACCAAAA
* * * **
100292648 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGT--TTTACCCTCGA
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTA-C-TAAAATACCCTCGA
* * * ***
100292711 TTTATAGAATTATCATTT
64 TTTACAAAATTACCAAAA
* * *
100292729 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
*
100292794 TACAAAATAACCAAAA
66 TACAAAATTACCAAAA
* * *** * *
100292810 TACCCTAGA-TTAGTAAAATTACCAAAATACCC-CTAGTTTATAAAATTACTAAAATACCC-CTG
1 TACCCTCGATTTA-CAAAATTACCATTTTACCCTCGA-TTTACAAAATTACTAAAATACCCTC-G
* **
100292872 GTTTGTAAAATTACCAAAA
63 ATTTACAAAATTACCAAAA
100292891 TACCC
1 TACCC
100292896 CTGGCTTGTA
Statistics
Matches: 207, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
80 6 0.03
81 199 0.96
82 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.35
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATT
TACAAAATTACCAAAA
Found at i:100292923 original size:54 final size:55
Alignment explanation
Indices: 100292770--100292925 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 55
100292760 CTCGATTTAC
* * * * *
100292770 AAAATTACTAAAATACCCTTGGTTTACAAAATAACCAAAATA-CCCTAGATTAGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGATTAGT
* * *
100292824 AAAATTACCAAAATACCCCTAGTTTATAAAATTACTAAAATACCCCT-GGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGATTAGT
* *
100292878 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTA
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTA
100292926 ATTTATGAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
54 85 0.96
55 4 0.04
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (55 bp):
AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGATTAGT
Found at i:100292936 original size:27 final size:27
Alignment explanation
Indices: 100292765--100292947 Score: 188
Period size: 27 Copynumber: 6.8 Consensus size: 27
100292755 TTACCCTCGA
* * * *
100292765 TTTACAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
100292792 TTTACAAAATAACCAAAATA-CCCTAG
1 TTTATAAAATTACCAAAATACCCCTAG
*
100292818 ATTAGTAAAATTACCAAAATACCCCTAG
1 TTTA-TAAAATTACCAAAATACCCCTAG
* *
100292846 TTTATAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* *
100292873 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTAG
* * * *
100292900 CTTGTAAAATTACTAAAATACCCCTAA
1 TTTATAAAATTACCAAAATACCCCTAG
* * *
100292927 TTTATGAAATTATCGAAATAC
1 TTTATAAAATTACCAAAATAC
100292948 TCTCGACTTG
Statistics
Matches: 132, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 7 0.05
27 116 0.88
28 9 0.07
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTAG
Found at i:100292947 original size:81 final size:82
Alignment explanation
Indices: 100292764--100292938 Score: 246
Period size: 81 Copynumber: 2.2 Consensus size: 82
100292754 TTTACCCTCG
* * ** *
100292764 ATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATAACCAAAATA-CCCTAGATTAGTAAAA
1 ATTTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
100292828 TTACCAAAATACCCCTA
66 TTACCAAAATACCCCTA
* * *
100292845 GTTTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTT-GTAAAA
1 ATTTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
*
100292909 TTACTAAAATACCCCTA
66 TTACCAAAATACCCCTA
*
100292926 ATTTATGAAATTA
1 ATTTATAAAATTA
100292939 TCGAAATACT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 75 0.91
82 7 0.09
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (82 bp):
ATTTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
TTACCAAAATACCCCTA
Found at i:100292958 original size:54 final size:54
Alignment explanation
Indices: 100292764--100292978 Score: 172
Period size: 54 Copynumber: 4.0 Consensus size: 54
100292754 TTTACCCTCG
* * * ** ** * *
100292764 ATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATAACCAAAATA-CCCTA
1 ATTTATAAAATTACCAAAATACCCCTGACTTGTAAAATTACTAAAATACCCCTA
* * *
100292817 GA-TTAGTAAAATTACCAAAATACCCCT-AGTTTATAAAATTACTAAAATACCCCTG
1 -ATTTA-TAAAATTACCAAAATACCCCTGA-CTTGTAAAATTACTAAAATACCCCTA
* * *
100292872 GTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCCTGACTTGTAAAATTACTAAAATACCCCTA
* * * *
100292926 ATTTATGAAATTATCGAAATA-CTCTCGACTTGTAAAA-TA-TCAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCCT-GACTTGTAAAATTACT-AAAATACCCCTA
100292979 TAGGGTAGAA
Statistics
Matches: 133, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
52 1 0.01
53 20 0.15
54 106 0.80
55 6 0.05
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
ATTTATAAAATTACCAAAATACCCCTGACTTGTAAAATTACTAAAATACCCCTA
Found at i:100292959 original size:81 final size:82
Alignment explanation
Indices: 100292764--100292978 Score: 224
Period size: 81 Copynumber: 2.7 Consensus size: 82
100292754 TTTACCCTCG
* * ** ** *
100292764 ATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATAACCAAAATA-CCCTAGATTAGTAAAA
1 ATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
100292828 TTACCAAAATACCCCTA
66 TTACCAAAATACCCCTA
* ** * *
100292845 GTTTATAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTT-GTAAAA
1 ATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
*
100292909 TTACTAAAATACCCCTA
66 TTACCAAAATACCCCTA
* * * *
100292926 ATTTATGAAATTA-TCGAAATA-CTCTCGACTTGTAAAA-TATCAAAATACCCCTA
1 ATTTATAAAATTACT-AAAATACCCCT-GACTTGTAAAATTACCAAAATACCCCTA
100292979 TAGGGTAGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 18 0.16
81 89 0.78
82 7 0.06
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (82 bp):
ATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAATACCCCTAGATTAGTAAAA
TTACCAAAATACCCCTA
Found at i:100292998 original size:27 final size:27
Alignment explanation
Indices: 100292968--100293235 Score: 349
Period size: 27 Copynumber: 10.0 Consensus size: 27
100292958 TAAAATATCA
* *
100292968 AAATACCCCTATAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100292995 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100293022 AAATACCCATGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100293049 AAATAACCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
100293076 AAATACCCCTATCGAGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100293103 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100293130 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
100293157 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
100293184 -AATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
100293210 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
100293236 ATTTTTCCCT
Statistics
Matches: 207, Mismatches: 33, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 23 0.11
27 184 0.89
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:100293038 original size:54 final size:54
Alignment explanation
Indices: 100292968--100293235 Score: 403
Period size: 54 Copynumber: 5.0 Consensus size: 54
100292958 TAAAATATCA
* * *
100292968 AAATACCCCTATAGGGTAGAATTATCGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* * * *
100293022 AAATACCCATGTAGGGTAGAATTACCAAAATAACCTTGTAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* * *
100293076 AAATACCCCTATCGAGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
*
100293130 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
* * *
100293184 -AATACCCCTATAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
100293236 ATTTTTCCCT
Statistics
Matches: 192, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
53 48 0.25
54 144 0.75
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCG
Found at i:100293474 original size:25 final size:25
Alignment explanation
Indices: 100293440--100293534 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
100293430 AGGAAGTGCT
100293440 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
100293465 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
100293490 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
100293515 AAAAGGGCTTTGCCGCAGTT
1 AAAAGGGCTTTGCCCCAGTT
100293535 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:100293547 original size:24 final size:24
Alignment explanation
Indices: 100293440--100293570 Score: 138
Period size: 25 Copynumber: 5.2 Consensus size: 24
100293430 AGGAAGTGCT
100293440 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTAT-G
*
100293465 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
100293490 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAT-G
* *
100293515 AAAAGGGCTTTGCCGCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
100293538 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
100293565 ATAAAG
1 A-AAAG
100293571 CAACTATGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.06
24 11 0.12
25 65 0.72
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:100295821 original size:27 final size:27
Alignment explanation
Indices: 100295791--100295951 Score: 166
Period size: 27 Copynumber: 6.0 Consensus size: 27
100295781 CTTTAGTTTA
100295791 GTAAAATTACTGAAATACCCTCGATTT
1 GTAAAATTACTGAAATACCCTCGATTT
* * *
100295818 GTAAAATTTCTGAAATACCTTCGACTT
1 GTAAAATTACTGAAATACCCTCGATTT
* * *
100295845 GTAAAATTAC-CAAAGTACCCTAGACTT
1 GTAAAATTACTGAAA-TACCCTCGATTT
* *
100295872 GTAAAATTACCGAAATACCATCGA-TT
1 GTAAAATTACTGAAATACCCTCGATTT
** *
100295898 GTAAAATTACTGAAATGGCCTCAATTT
1 GTAAAATTACTGAAATACCCTCGATTT
* *
100295925 GTAAAATTAC-CAAAGTACCCTTGATTT
1 GTAAAATTACTGAAA-TACCCTCGATTT
100295952 ACAGAATTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.25
27 80 0.73
28 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
GTAAAATTACTGAAATACCCTCGATTT
Found at i:100295960 original size:80 final size:81
Alignment explanation
Indices: 100295791--100295945 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 81
100295781 CTTTAGTTTA
* * * *
100295791 GTAAAATTACTGAAATACCCTCGATTTGTAAAATTTCTGAAATACCTTCGACTTGTAAAATTACC
1 GTAAAATTACCGAAATACCATCGATTTGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACC
100295856 AAAGTACCCTAGACTT
66 AAAGTACCCTAGACTT
* *
100295872 GTAAAATTACCGAAATACCATCGA-TTGTAAAATTACTGAAATGGCC-TCAATTTGTAAAATTAC
1 GTAAAATTACCGAAATACCATCGATTTGTAAAATTACTGAAAT-ACCTTCAACTTGTAAAATTAC
100295935 CAAAGTACCCT
65 CAAAGTACCCT
100295946 TGATTTACAG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 43 0.64
81 24 0.36
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCATCGATTTGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACC
AAAGTACCCTAGACTT
Found at i:100295970 original size:27 final size:27
Alignment explanation
Indices: 100295940--100296122 Score: 249
Period size: 27 Copynumber: 6.8 Consensus size: 27
100295930 ATTACCAAAG
* *
100295940 TACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTATCATTT
* **
100295967 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTATCATTT
*
100295994 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTATCATTT
* *
100296021 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTATCATTT
* * *
100296048 TACCCTCGGTTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTATCATTT
100296075 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTATCATTT
* *
100296102 TACCCTCAATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
100296123 CTAAAATACC
Statistics
Matches: 140, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTATCATTT
Found at i:100296025 original size:81 final size:81
Alignment explanation
Indices: 100295940--100296123 Score: 287
Period size: 81 Copynumber: 2.3 Consensus size: 81
100295930 ATTACCAAAG
* * * *
100295940 TACCCTTGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
100296005 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* *
100296021 TACCCTCGATTTATAGAATTACCATTTTACCCTCGGTTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
*
100296086 TACAGAATTATCATTT
66 TACAGAATTACCATTT
* *
100296102 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
100296124 TAAAATACCC
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:100296132 original size:27 final size:27
Alignment explanation
Indices: 100296102--100296241 Score: 97
Period size: 27 Copynumber: 5.2 Consensus size: 27
100296092 ATTATCATTT
* *
100296102 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
100296129 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAA
* *
100296156 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * * *
100296183 TACCC-CTGGTTTGTAAAGTTACCAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* ** * *
100296210 TACCCTTGGCTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
100296237 TACCC
1 TACCC
100296242 CTAATTTGTG
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.03
27 92 0.96
28 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:100296149 original size:81 final size:81
Alignment explanation
Indices: 100295983--100296149 Score: 210
Period size: 81 Copynumber: 2.1 Consensus size: 81
100295973 CGATTTATAG
* * * * ***
100295983 AATTATTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 AATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
* * *
100296048 TACCCTCGGTTTATAG
66 TACCCTCGGATCATAA
* *
100296064 AATTATCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCAATTTACAAAATTACTAAAA
1 AATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
100296129 TACCCTC-GATCAGTAA
66 TACCCTCGGATCA-TAA
100296145 AATTA
1 AATTA
100296150 CCAAAATACC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 3 0.04
81 70 0.96
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
AATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACCAAAA
TACCCTCGGATCATAA
Found at i:100296160 original size:54 final size:55
Alignment explanation
Indices: 100296102--100296215 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 55
100296092 ATTATCATTT
100296102 TACCCTC-AATTTACAAAATTACTAAAATA-CCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCTAATTTACAAAATTACTAAAATACCCCT-GATCAGTAAAATTACCAAAA
** ** * ** *
100296156 TACCC-CTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAGTTACCAAAA
1 TACCCTCTAATTTACAAAATTACTAAAATACCCCTGATCAGTAAAATTACCAAAA
100296210 TACCCT
1 TACCCT
100296216 TGGCTTGTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 44 0.90
55 4 0.08
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (55 bp):
TACCCTCTAATTTACAAAATTACTAAAATACCCCTGATCAGTAAAATTACCAAAA
Found at i:100296187 original size:81 final size:81
Alignment explanation
Indices: 100296104--100296257 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
100296094 TATCATTTTA
* * **
100296104 CCCTCAATTTACAAAATTACTAAAATACCCTC-GATCAGTAAAATTACCAAAATACCCCTGGTTT
1 CCCT-AATTTACAAAATTACCAAAATACCCTCGGCT-AGTAAAATTACCAAAATACCCCTAATTT
100296168 GTAAAATTACTAAAATAC
64 GTAAAATTACTAAAATAC
** ** * * *
100296186 CCCTGGTTTGTAAAGTTACCAAAATACCCTTGGCTTGTAAAATTACCAAAATACCCCTAATTTGT
1 CCCTAATTTACAAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAAAATACCCCTAATTTGT
*
100296251 GAAATTA
66 AAAATTA
100296258 TCAAAATGCT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
81 53 0.90
82 6 0.10
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
CCCTAATTTACAAAATTACCAAAATACCCTCGGCTAGTAAAATTACCAAAATACCCCTAATTTGT
AAAATTACTAAAATAC
Found at i:100296224 original size:54 final size:53
Alignment explanation
Indices: 100296116--100296351 Score: 203
Period size: 54 Copynumber: 4.4 Consensus size: 53
100296106 CTCAATTTAC
** *
100296116 AAAATTACTAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT-AAATTACCAAAATACCCTTGGTTTGT
* *
100296170 AAAATTACTAAAATACCCCTGGTTTGTAAAGTTACCAAAATACCCTTGGCTTGT
1 AAAATTACTAAAATACCCCTGATTTGTAAA-TTACCAAAATACCCTTGGTTTGT
* * * * * * *
100296224 AAAATTACCAAAATACCCCTAATTTGTGAAATTATCAAAATGCTCTCGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT-AAATTACCAAAATACCCTTGGTTTGT
** **
100296278 AAAA-TA-TCAAAATACCCCTG-TAGGGTAGAATTACCAAAATACCCTT-GTAAGGT
1 AAAATTACT-AAAATACCCCTGAT-TTGTA-AATTACCAAAATACCCTTGGT-TTGT
* *
100296331 AGAATTACTGAAATACCCCTG
1 AAAATTACTAAAATACCCCTG
100296352 TACGGTAGAA
Statistics
Matches: 146, Mismatches: 27, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
52 3 0.02
53 37 0.25
54 98 0.67
55 8 0.05
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (53 bp):
AAAATTACTAAAATACCCCTGATTTGTAAATTACCAAAATACCCTTGGTTTGT
Found at i:100296250 original size:27 final size:27
Alignment explanation
Indices: 100296141--100296321 Score: 188
Period size: 27 Copynumber: 6.7 Consensus size: 27
100296131 CCCTCGATCA
100296141 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
*
100296168 GTAAAATTACTAAAATACCCCTGGTTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * *
100296195 GTAAAGTTACCAAAATACCCTTGGCTT
1 GTAAAATTACCAAAATACCCCTGGTTT
**
100296222 GTAAAATTACCAAAATACCCCTAATTT
1 GTAAAATTACCAAAATACCCCTGGTTT
* * * * *
100296249 GTGAAATTATCAAAAT-GCTCTCGATTT
1 GTAAAATTACCAAAATACCCCT-GGTTT
* **
100296276 GTAAAA-TATCAAAATACCCCT-GTAGG
1 GTAAAATTACCAAAATACCCCTGGT-TT
*
100296302 GTAGAATTACCAAAATACCC
1 GTAAAATTACCAAAATACCC
100296322 TTGTAAGGTA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
25 1 0.01
26 17 0.13
27 109 0.86
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (27 bp):
GTAAAATTACCAAAATACCCCTGGTTT
Found at i:100296326 original size:27 final size:27
Alignment explanation
Indices: 100296287--100296582 Score: 398
Period size: 27 Copynumber: 11.0 Consensus size: 27
100296277 TAAAATATCA
* *
100296287 AAATACCCCTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
100296314 AAATACCCTTGTAAGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
100296341 AAATACCCCTGTACGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
100296368 AAATAACCC-TGTAGGGTAGAATTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
*
100296395 AAATAACCC-TGTAGGGTAGAATTACCA
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
* *
100296422 AAATACCCTTATAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
100296449 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
100296476 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
100296503 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* ***
100296530 AAATGCCCCAATAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
100296557 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
100296583 ATTTTCCCCT
Statistics
Matches: 238, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.02
27 230 0.97
28 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:100296830 original size:25 final size:25
Alignment explanation
Indices: 100296786--100296871 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
100296776 AAGAAGTGCT
*
100296786 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGACTTTGCCCCAGTTTACCG
* *
100296811 AAGAGGACTTTGCCCTAGTTTACCG
1 AAAAGGACTTTGCCCCAGTTTACCG
* * *
100296836 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGACTTTGCCCCAGTTTACCG
*
100296861 AAAAGGGCTTT
1 AAAAGGACTTT
100296872 ACTGCAGTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGACTTTGCCCCAGTTTACCG
Found at i:100298724 original size:80 final size:82
Alignment explanation
Indices: 100298584--100298737 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 82
100298574 AATACTTTAG
* * * *
100298584 TTTACTAAAATTACTAAAATACCATCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAAT
1 TTTACTAAAATTACCAAAATACCATCGAATTGTAAAATTACTGAAATACCCTCAACTTGTAAAAT
100298649 TACCAAAGTACCCCCAA
66 TACCAAAGTACCCCCAA
* * * *
100298666 TTTA-TAAAATTACCGAAATACCGTC-AATTGTAAAATTACTGAAATGCCCTCAATTTGTAAAAT
1 TTTACTAAAATTACCAAAATACCATCGAATTGTAAAATTACTGAAATACCCTCAACTTGTAAAAT
*
100298729 TACCCAAGT
66 TACCAAAGT
100298738 GCCTCGATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 41 0.65
81 18 0.29
82 4 0.06
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (82 bp):
TTTACTAAAATTACCAAAATACCATCGAATTGTAAAATTACTGAAATACCCTCAACTTGTAAAAT
TACCAAAGTACCCCCAA
Found at i:100298740 original size:27 final size:27
Alignment explanation
Indices: 100298589--100299145 Score: 159
Period size: 27 Copynumber: 20.7 Consensus size: 27
100298579 TTTAGTTTAC
** * *
100298589 TAAAATTACTAAAATACCATCGATTTG
1 TAAAATTACCGAAATACCCTCAATTTG
* * * *
100298616 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCCTCAATTTG
* *
100298643 TAAAATTACC-AAAGTACCCCCAATTTA
1 TAAAATTACCGAAA-TACCCTCAATTTG
*
100298670 TAAAATTACCGAAATACCGTCAA-TTG
1 TAAAATTACCGAAATACCCTCAATTTG
* *
100298696 TAAAATTACTGAAATGCCCTCAATTTG
1 TAAAATTACCGAAATACCCTCAATTTG
* * * * *
100298723 TAAAATTACCCAAGT-GCCTCGATTTA
1 TAAAATTACCGAAATACCCTCAATTTG
* ** *** * *
100298749 TAGAATTATTGTTTTACCCTCGATTTA
1 TAAAATTACCGAAATACCCTCAATTTG
* *** * *
100298776 CAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCGAAATACCCTCAATTTG
* ** * *
100298803 CAAAATTACC-ATTTTACCCTCGATTTA
1 TAAAATTACCGA-AATACCCTCAATTTG
* ** * *
100298830 TAGAATTACC-ATTTTACCCTCGATTTA
1 TAAAATTACCGA-AATACCCTCAATTTG
* * ** * *
100298857 TAGAATTATC-ATTTTACCCTCGATTTA
1 TAAAATTACCGA-AATACCCTCAATTTG
* *** *
100298884 CAAAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCGAAATACCCTCAATTTG
* ** *** *
100298911 CAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCGAAATACCCTCAATTTG
* * * **
100298938 CAAAATTACCAAAATACCCTCGATCAG
1 TAAAATTACCGAAATACCCTCAATTTG
**
100298965 TAAAATTACC-AAGATACCC-CTGGTTTG
1 TAAAATTACCGAA-ATACCCTC-AATTTG
** *
100298992 TAAAATTACTAAAATACCC-CTTATTTG
1 TAAAATTACCGAAATACCCTC-AATTTG
* **
100299019 TAAAATTACCAAAATACCC-CTAGCTTG
1 TAAAATTACCGAAATACCCTC-AATTTG
* *
100299046 TAAAATTACCAAAATACCC-CTGATTTG
1 TAAAATTACCGAAATACCCTC-AATTTG
* * * * *
100299073 TGAAATTATCAAAATACTCTCGATTTG
1 TAAAATTACCGAAATACCCTCAATTTG
* * * **
100299100 TAAAA-TATCAAAATACCC-CAGTAGGG
1 TAAAATTACCGAAATACCCTCAAT-TTG
*
100299126 TAGAATTACCGAAATACCCT
1 TAAAATTACCGAAATACCCT
100299146 TGTAGGGTAG
Statistics
Matches: 435, Mismatches: 82, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.00
26 61 0.14
27 366 0.84
28 6 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCAATTTG
Found at i:100298810 original size:54 final size:54
Alignment explanation
Indices: 100298739--100298918 Score: 261
Period size: 54 Copynumber: 3.3 Consensus size: 54
100298729 TACCCAAGTG
* * **
100298739 CCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
* * * *
100298793 CCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
* *
100298847 CCTCGATTTATAGAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
*
100298901 CCTCAATTTACAAAATTA
1 CCTCGATTTACAAAATTA
100298919 CTAAAATACC
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (54 bp):
CCTCGATTTACAAAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
Found at i:100298845 original size:81 final size:81
Alignment explanation
Indices: 100298739--100298948 Score: 276
Period size: 81 Copynumber: 2.6 Consensus size: 81
100298729 TACCCAAGTG
* * *
100298739 CCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
100298804 AAAATTACCATTTTAC
66 AAAATTACCATTTTAC
* * * *
100298820 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCATTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
*
100298885 AAAATTACCGTTTTAC
66 AAAATTACCATTTTAC
* * * *** * *
100298901 CCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCA
100298949 AAATACCCTC
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 109 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTAC
AAAATTACCATTTTAC
Found at i:100298929 original size:54 final size:54
Alignment explanation
Indices: 100298739--100298947 Score: 258
Period size: 54 Copynumber: 3.9 Consensus size: 54
100298729 TACCCAAGTG
* * * *
100298739 CCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTAC
* * * *
100298793 CCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTAC
* *
100298847 CCTCGATTTATAGAATTA-TCATTTTACCCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAAAATTACT-ATTTTACCCTCGATTTACAAAATTACCGTTTTAC
* *** * *
100298901 CCTCAATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
1 CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACC
100298948 AAAATACCCT
Statistics
Matches: 131, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 130 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (54 bp):
CCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTAC
Found at i:100299065 original size:54 final size:54
Alignment explanation
Indices: 100298912--100299118 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
100298902 CTCAATTTAC
* * ** **
100298912 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * *
100298966 AAAATTACCAAGATACCCCTGGTTTGTAAAATTACTAAAATACCCCTTATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
100299020 AAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * *
100299074 GAAATTATCAAAATA-CTCTCGATTTGTAAAA-TATCAAAATACCCC
1 AAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
100299119 AGTAGGGTAG
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
53 16 0.12
54 110 0.85
55 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:100299073 original size:81 final size:81
Alignment explanation
Indices: 100298912--100299118 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
100298902 CTCAATTTAC
* ** *
100298912 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCTT-ATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
* *
100298976 AGATACCCCTGGTTTGT
65 AAATACCCCTGATTTGT
* *
100298993 AAAATTACTAAAATACCCCTTATTTGTAAAATTACCAAAATACCCCTAGCT-TGTAAAATTACCA
1 AAAATTACTAAAATA-CCCTTATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
100299057 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGT
* * * *
100299074 GAAATTA-TCAAAATACTCTCGATTTGTAAAA-TATCAAAATACCCC
1 AAAATTACT-AAAATACCCT-TATTTGTAAAATTACCAAAATACCCC
100299119 AGTAGGGTAG
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
80 17 0.15
81 82 0.75
82 11 0.10
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:100299150 original size:27 final size:27
Alignment explanation
Indices: 100299110--100299324 Score: 281
Period size: 27 Copynumber: 8.0 Consensus size: 27
100299100 TAAAATATCA
**
100299110 AAATACCCCAGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
100299137 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
100299164 AAATAACCC-TATAGGGTAGAGTTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
*
100299191 AAATACCCTTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
100299218 AAATACACC-TGTAGGGTAGAATTATCG
1 AAATAC-CCTTGTAGGGTAGAATTACCG
* *
100299245 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
100299272 AAACACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
100299299 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
100299325 ATTTTTCCCC
Statistics
Matches: 163, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.04
27 151 0.93
28 6 0.04
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:100299487 original size:16 final size:16
Alignment explanation
Indices: 100299466--100299496 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
100299456 CAAATATGGG
*
100299466 CATGACATTTTGCATA
1 CATGACATGTTGCATA
100299482 CATGACATGTTGCAT
1 CATGACATGTTGCAT
100299497 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:100299605 original size:24 final size:25
Alignment explanation
Indices: 100299529--100299605 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
100299519 AGGAAGTGCT
* *
100299529 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTATTA
*
100299554 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATTA
* *
100299579 AAAAGGACTTTACCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
100299603 AAA
1 AAA
100299606 GAGGCTAGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 8 0.17
25 38 0.83
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTA
Found at i:100299622 original size:50 final size:50
Alignment explanation
Indices: 100299529--100299623 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
100299519 AGGAAGTGCT
* * **
100299529 AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGACTTTACCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
*
100299579 AAAAGGACTTTACCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGACTTTACCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
100299624 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 6 0.16
49 10 0.26
50 22 0.58
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (50 bp):
AAAAGGACTTTACCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:100301392 original size:191 final size:194
Alignment explanation
Indices: 100301171--100301543 Score: 590
Period size: 194 Copynumber: 1.9 Consensus size: 194
100301161 ATATAGTTTA
*
100301171 AAGTTCAAATTTCAAAAATAAAAAATAATATATTATTTATCATAGAAATAAATATTATTTAATTA
1 AAGTTCAAATTTCAAAAATAAAAAATAATATAATATTTATCATAGAAATAAATATTATTTAATTA
* * *
100301236 A-A-ATA-TTTTTAAAGGACATGTTTTTTAGCGGCGTTTGTGGGAAAAACATTGCTAAAGGTCTG
66 ATATATATTTTTTAAAGGACATGTTCTTTAGCGGCGTTTGTAGGAAAAACATCGCTAAAGGTCTG
* *
100301298 TTCTATAGTGGCGTTTCTAGAAAAAGCGCCGCTAAAGATCATGACCTTTAGCAGCACTTTTGGG
131 TTCTATAGCGGCGTTTCTAGAAAAAGCGCCGCTAAAGATCATCACCTTTAGCAGCACTTTTGGG
*
100301362 AAGTTCAAATTTCAAAAATAAAACATAATATAATATTTATCATAGAAATAAATATTATTTAATTA
1 AAGTTCAAATTTCAAAAATAAAAAATAATATAATATTTATCATAGAAATAAATATTATTTAATTA
* *
100301427 ATATATATTTTTTAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCATCGCTAAAGGTCTG
66 ATATATATTTTTTAAAGGACATGTTCTTTAGCGGCGTTTGTAGGAAAAACATCGCTAAAGGTCTG
* * * * * *
100301492 TTCTATAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCATCATCTTTAGC
131 TTCTATAGCGGCGTTTCTAGAAAAAGCGCCGCTAAAGATCATCACCTTTAGC
100301544 GGCATTTGCA
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
191 64 0.39
192 1 0.01
193 3 0.02
194 96 0.59
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (194 bp):
AAGTTCAAATTTCAAAAATAAAAAATAATATAATATTTATCATAGAAATAAATATTATTTAATTA
ATATATATTTTTTAAAGGACATGTTCTTTAGCGGCGTTTGTAGGAAAAACATCGCTAAAGGTCTG
TTCTATAGCGGCGTTTCTAGAAAAAGCGCCGCTAAAGATCATCACCTTTAGCAGCACTTTTGGG
Found at i:100301501 original size:42 final size:43
Alignment explanation
Indices: 100301439--100301624 Score: 214
Period size: 43 Copynumber: 4.3 Consensus size: 43
100301429 ATATATTTTT
* * **
100301439 TAAAGGTCATGTTCTTTAGCGGCGTTTGTAGGAAAAGCATCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTGCAGGAAAAGCGCCGC
* * *** *
100301482 TAAAGGTC-TGTTCTATAGCGGCGTTTTTGGGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTGCAGGAAAAGCGCCGC
** *
100301524 TAAAGGTCATCATCTTTAGCGGCATTTGCAGGGAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCATTTGCAGGAAAAGCGCCGC
* *
100301567 TAAAGGTCATCG-TCTTTAGCGGCATTTACGGGAAAAGCGCCGC
1 TAAAGGTCAT-GTTCTTTAGCGGCATTTGCAGGAAAAGCGCCGC
100301610 TAAAGGTCATGTTCT
1 TAAAGGTCATGTTCT
100301625 ATAGTGGCTT
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.32
43 84 0.68
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCATTTGCAGGAAAAGCGCCGC
Found at i:100303047 original size:21 final size:21
Alignment explanation
Indices: 100303023--100303086 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
100303013 ATAGAAATCA
100303023 AGCCATTTTCGCATGGCTTAG
1 AGCCATTTTCGCATGGCTTAG
100303044 AGCCATTTTCGCATGGCTTAG
1 AGCCATTTTCGCATGGCTTAG
100303065 AGCCATTTTCGCATGGCTTAG
1 AGCCATTTTCGCATGGCTTAG
100303086 A
1 A
100303087 TTTATACATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (21 bp):
AGCCATTTTCGCATGGCTTAG
Found at i:100305121 original size:14 final size:16
Alignment explanation
Indices: 100305094--100305126 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
100305084 TAAAACACGA
100305094 AAATTTAGCACAT-AT
1 AAATTTAGCACATAAT
100305109 AAATTTA-CACATAAT
1 AAATTTAGCACATAAT
100305124 AAA
1 AAA
100305127 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (16 bp):
AAATTTAGCACATAAT
Found at i:100309292 original size:54 final size:54
Alignment explanation
Indices: 100309233--100309340 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
100309223 CTAAGCCTAG
*
100309233 CTGAACCATATATATGCTCATATCAGCCCAAATTTTTCATCAACTCAGATTTTT
1 CTGAACCATATATATGCTCATATCAGCCCAAATTTTTCATCAAATCAGATTTTT
*
100309287 CTGAACCATATATATGCTCATATCAGTCCAAATTTTTCATCAAATCAGATTTTT
1 CTGAACCATATATATGCTCATATCAGCCCAAATTTTTCATCAAATCAGATTTTT
100309341 ACTACCCATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.38
Consensus pattern (54 bp):
CTGAACCATATATATGCTCATATCAGCCCAAATTTTTCATCAAATCAGATTTTT
Found at i:100318799 original size:14 final size:15
Alignment explanation
Indices: 100318780--100318809 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100318770 GTTTATTATA
100318780 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
100318794 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
100318809 T
1 T
100318810 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:100320565 original size:43 final size:43
Alignment explanation
Indices: 100320511--100320639 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
100320501 GCTGGTGAAT
* *
100320511 AATATTATCGGGCTTCGGGCCTAGAAGGCTATAATGCTGATGA
1 AATAATATCGGGCTTCGGGCCTAGAAGGCTATAATGCCGATGA
* * *
100320554 GATAATATCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGAAGGCTATAATGCCGATGA
* ** * * *
100320597 AATGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGAAGGCTATAATGCCGATGA
100320639 A
1 A
100320640 TGAGTTCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 12 0.16
43 63 0.84
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGAAGGCTATAATGCCGATGA
Found at i:100323629 original size:44 final size:44
Alignment explanation
Indices: 100323566--100323652 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
100323556 TATGTGTGTT
100323566 AGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTGC
1 AGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTGC
100323610 AGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
1 AGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
100323653 TATTGAGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.34
Consensus pattern (44 bp):
AGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTGC
Found at i:100324960 original size:38 final size:37
Alignment explanation
Indices: 100324917--100325087 Score: 191
Period size: 38 Copynumber: 4.4 Consensus size: 37
100324907 AGCTTAAAGA
* *
100324917 CCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAAT
* *
100324955 CCCGCAGGTTTTGTGCTGGTAA-TATATTCGGGTTAAAT
1 CCCGCAGG-CTTGTGCTGG-AATTATATCCGGGTTAAAT
100324993 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAAT
* * * *
100325031 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGG-CTTGTGCTGGAATTATATCCG-GGTTAAA-T
100325071 CCCGCAGGCTTAGTGCT
1 CCCGCAGGCTT-GTGCT
100325088 AGTGACTGGA
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.04
38 83 0.73
39 13 0.11
40 14 0.12
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (37 bp):
CCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAAT
Found at i:100325017 original size:76 final size:77
Alignment explanation
Indices: 100324901--100325089 Score: 240
Period size: 76 Copynumber: 2.4 Consensus size: 77
100324891 ATTTGATGTG
* * * **
100324901 TATCCGAGCTTAAAGACCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAATCCCGCAGGTTT
1 TATCTGAGCTTAAAGTCCCGCAGGCT-TGTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCCT
*
100324966 TGTGCTGGTAATA
65 AGTGCTGGTAATA
* *
100324979 TAT-TCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCC
1 TATCT-GAGCTTAAAGTCCCGCAGGCTT-GTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCC
*
100325041 TAGTGCTGGTATTA
64 TAGTGCTGGTAATA
100325055 TATCTGAGCTTAAAGTCCCGCAGGCTTAGTGCTAG
1 TATCTGAGCTTAAAGTCCCGCAGGCTT-GTGCTAG
100325090 TGACTGGACT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
75 1 0.01
76 58 0.62
77 13 0.14
78 22 0.23
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (77 bp):
TATCTGAGCTTAAAGTCCCGCAGGCTTGTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCCTA
GTGCTGGTAATA
Found at i:100331111 original size:10 final size:10
Alignment explanation
Indices: 100331079--100331105 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
100331069 AAGGACAAGG
100331079 CTTGTTCATC
1 CTTGTTCATC
100331089 CTTGTTCATC
1 CTTGTTCATC
100331099 CTTGTTC
1 CTTGTTC
100331106 GACCTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.11, T:0.52
Consensus pattern (10 bp):
CTTGTTCATC
Found at i:100336581 original size:44 final size:44
Alignment explanation
Indices: 100336518--100336607 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
100336508 ATATGTGCGT
100336518 TAGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
1 TAGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
100336562 TAGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
1 TAGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
100336606 TA
1 TA
100336608 TTGAGATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (44 bp):
TAGCCGAATTTGAACTTGAATAATGATTTGAGCATGATGTATTG
Found at i:100337916 original size:38 final size:37
Alignment explanation
Indices: 100337874--100338044 Score: 200
Period size: 38 Copynumber: 4.4 Consensus size: 37
100337864 GGCTTAAAGA
* *
100337874 CCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TGTGCTGGAATTATATCCGGGTTAAAT
*
100337912 CCCGCAGGCTTCGTGCTGGTAA-TATATTCGGGTTAAAT
1 CCCGCAGGCTT-GTGCTGG-AATTATATCCGGGTTAAAT
100337950 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCTT-GTGCTGGAATTATATCCGGGTTAAAT
* * * *
100337988 CCCGCAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGT
1 CCCGCAGG-CTTGTGCTGGAATTATATCCG-GGTTAAA-T
100338028 CCCGCAGGCTTAGTGCT
1 CCCGCAGGCTT-GTGCT
100338045 AGTGACTGGA
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
37 3 0.03
38 88 0.75
39 12 0.10
40 14 0.12
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (37 bp):
CCCGCAGGCTTGTGCTGGAATTATATCCGGGTTAAAT
Found at i:100337974 original size:76 final size:77
Alignment explanation
Indices: 100337865--100338046 Score: 244
Period size: 76 Copynumber: 2.4 Consensus size: 77
100337855 GTGTATCCAG
* * * *
100337865 GCTTAAAGACCCGCAGGCTATATGCTAGAATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTG
1 GCTTAAAGTCCCGCAGGCT-TGTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTG
100337930 GTAATATAT-TCG-
65 GTAATATATCT-GA
* *
100337942 GGTTAAA-TCCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTG
1 GCTTAAAGTCCCGCAGGCTT-GTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTG
*
100338006 GTATTATATCTGA
65 GTAATATATCTGA
100338019 GCTTAAAGTCCCGCAGGCTTAGTGCTAG
1 GCTTAAAGTCCCGCAGGCTT-GTGCTAG
100338047 TGACTGGACT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
75 1 0.01
76 59 0.65
77 13 0.14
78 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (77 bp):
GCTTAAAGTCCCGCAGGCTTGTGCTAGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGG
TAATATATCTGA
Found at i:100341532 original size:14 final size:15
Alignment explanation
Indices: 100341513--100341542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100341503 GTTTATTATA
100341513 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
100341527 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
100341542 T
1 T
100341543 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:100343211 original size:43 final size:43
Alignment explanation
Indices: 100343127--100343291 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
100343117 AATGTGATAT
* * * *
100343127 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-A-AATATTA
* *
100343170 TCGGGCTTCGGGCCTAGTAGGCTATAATGCCGGTGAGATATTA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATATTA
*
100343213 TCGAGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAT-ATTA
** *
100343256 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
100343292 TGAGTTCAGA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 12 0.11
43 72 0.68
44 16 0.15
45 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATATTA
Found at i:100343314 original size:41 final size:43
Alignment explanation
Indices: 100343181--100343318 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 43
100343171 CGGGCTTCGG
* * * ***
100343181 GCCTAGTAGGCTATAATGCCGGTGAGAT-ATTATC-GAGCTTCGG
1 GCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCAGA-CTTAAA
* * * *
100343224 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
100343267 GCCTAGCAGGCGA-AATGCCGGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGA-TATCAGACTTAAA
*
100343308 GTCTAGCAGGC
1 GCCTAGCAGGC
100343319 TTCGTGCCGG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
41 23 0.28
42 11 0.13
43 46 0.56
44 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:100343372 original size:40 final size:41
Alignment explanation
Indices: 100343224--100343371 Score: 147
Period size: 40 Copynumber: 3.6 Consensus size: 41
100343214 CGAGCTTCGG
*
100343224 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
100343267 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
100343308 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *
100343348 ACCTAGCAGGCTAAATGCTGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
100343372 TTTGATAAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 30 0.36
41 30 0.36
42 11 0.13
43 12 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:100351663 original size:40 final size:40
Alignment explanation
Indices: 100351595--100351761 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
100351585 GGGGTTTAGT
** * * *
100351595 CGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
* *
100351634 CGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
* *
100351674 CGGATATAGTTACTAGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGGA-CTTAGCC
* * * *
100351714 CAGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCC
1 CGGATATAGTCAC-TAGCACAAATGCCTTCGGGACTTAGCC
100351755 CGGATAT
1 CGGATAT
100351762 CATTCGAGTA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 59 0.56
41 26 0.25
42 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
Found at i:100352476 original size:2 final size:2
Alignment explanation
Indices: 100352469--100352500 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
100352459 ATGTGCAAAC
*
100352469 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100352501 GTGCAAGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:100362950 original size:30 final size:30
Alignment explanation
Indices: 100362914--100363014 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
100362904 GACAAGATTG
* * *
100362914 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100362944 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
100362972 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
100363001 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
100363015 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:100363026 original size:29 final size:28
Alignment explanation
Indices: 100362943--100363018 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
100362933 AAAATTGTAC
* *
100362943 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
100362971 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
100363000 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
100363019 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:100369734 original size:14 final size:14
Alignment explanation
Indices: 100369715--100369742 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100369705 TATATTAGTA
100369715 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100369729 TTTTCTATTCTATT
1 TTTTCTATTCTATT
100369743 AGTATTAGAG
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:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:100369750 original size:6 final size:6
Alignment explanation
Indices: 100369739--100369817 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100369729 TTTTCTATTC
* *
100369739 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
100369786 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
100369818 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:100369765 original size:11 final size:11
Alignment explanation
Indices: 100369740--100369821 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
100369730 TTTCTATTCT
100369740 ATTAGTATTAG
1 ATTAGTATTAG
100369751 ---AGTATTAG
1 ATTAGTATTAG
**
100369759 ATTAGTATTCT
1 ATTAGTATTAG
*
100369770 ATT-CTATTAG
1 ATTAGTATTAG
100369780 TATTAG-ATTAG
1 -ATTAGTATTAG
100369791 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
100369806 ATTAGTATTAG
1 ATTAGTATTAG
100369817 -TTAGT
1 ATTAGT
100369822 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:100369806 original size:20 final size:21
Alignment explanation
Indices: 100369776--100369821 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100369766 TTCTATTCTA
100369776 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100369797 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
100369817 TTAGT
1 TTAGT
100369822 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:100378036 original size:32 final size:32
Alignment explanation
Indices: 100377995--100378056 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100377985 CATCTATTTT
100377995 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
100378027 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
100378057 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:100382200 original size:22 final size:22
Alignment explanation
Indices: 100382174--100382217 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100382164 TTATCTCTTT
100382174 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100382196 TGATTGAAAAGGAGCAATAAAA
1 TGATTGAAAAGGAGCAATAAAA
100382218 AAATCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.18
Consensus pattern (22 bp):
TGATTGAAAAGGAGCAATAAAA
Found at i:100384474 original size:21 final size:21
Alignment explanation
Indices: 100384450--100384493 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
100384440 ACGACCTAAT
*
100384450 TAAATAGAAAGGATA-ATTAAA
1 TAAATA-AAAGGATACAATAAA
*
100384471 TAAATAAAATGATACAATAAA
1 TAAATAAAAGGATACAATAAA
100384492 TA
1 TA
100384494 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:100394416 original size:13 final size:13
Alignment explanation
Indices: 100394398--100394425 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
100394388 AATATAGGGG
100394398 AAAATGTACCATT
1 AAAATGTACCATT
100394411 AAAATGTACCATT
1 AAAATGTACCATT
100394424 AA
1 AA
100394426 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:100401755 original size:32 final size:32
Alignment explanation
Indices: 100401719--100401780 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
100401709 AGCTTTTGGT
100401719 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
100401751 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
100401781 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:100409964 original size:6 final size:6
Alignment explanation
Indices: 100409953--100410031 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
100409943 GGGATCACTA
100409953 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
100409996 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
100410032 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:100409975 original size:20 final size:21
Alignment explanation
Indices: 100409949--100409994 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
100409939 AGCCGGGATC
100409949 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100409970 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
100409990 ACTAA
1 ACTAA
100409995 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:100410019 original size:11 final size:11
Alignment explanation
Indices: 100409949--100409995 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
100409939 AGCCGGGATC
100409949 ACTAA-CTAAT
1 ACTAATCTAAT
100409959 ACTAATCTAAT
1 ACTAATCTAAT
100409970 -CTAA-CTAAT
1 ACTAATCTAAT
100409979 ACTAATCTAAT
1 ACTAATCTAAT
100409990 ACTAAT
1 ACTAAT
100409996 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:100410062 original size:13 final size:13
Alignment explanation
Indices: 100410028--100410054 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
100410018 CTCTAATACT
100410028 AATAGAATAGAAA
1 AATAGAATAGAAA
100410041 AATAGAATAGAAA
1 AATAGAATAGAAA
100410054 A
1 A
100410055 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AATAGAATAGAAA
Found at i:100418380 original size:18 final size:18
Alignment explanation
Indices: 100418301--100418394 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
100418291 CAAGGTCACG
*
100418301 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTATC
* *
100418319 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATC
*
100418337 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTATC
100418355 ATCAATATCGTCACTATC
1 ATCAATATCGTCACTATC
100418373 ATCAATATCG--A-TATC
1 ATCAATATCGTCACTATC
100418388 ATCAATA
1 ATCAATA
100418395 AGAAAACCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTATC
Found at i:100418381 original size:9 final size:9
Alignment explanation
Indices: 100418301--100418381 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
100418291 CAAGGTCACG
*
100418301 ATCAATAGC
1 ATCAATATC
* *
100418310 GTCACTATC
1 ATCAATATC
*
100418319 ATCAATAGC
1 ATCAATATC
* * *
100418328 GTCACTAGC
1 ATCAATATC
100418337 ATCAATATC
1 ATCAATATC
* * *
100418346 GTCACTAGC
1 ATCAATATC
100418355 ATCAATATC
1 ATCAATATC
* *
100418364 GTCACTATC
1 ATCAATATC
100418373 ATCAATATC
1 ATCAATATC
100418382 GATATCATCA
Statistics
Matches: 51, Mismatches: 21, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
ATCAATATC
Found at i:100420790 original size:21 final size:21
Alignment explanation
Indices: 100420760--100420848 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
100420750 CTCACAAAGA
* *
100420760 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
100420780 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
100420801 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
100420822 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
100420846 AAA
1 AAA
100420849 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:100420841 original size:24 final size:21
Alignment explanation
Indices: 100420760--100420828 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
100420750 CTCACAAAGA
* * *
100420760 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
100420780 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
100420801 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
100420822 AAAAAGA
1 AAAAAGA
100420829 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:100425014 original size:14 final size:14
Alignment explanation
Indices: 100424995--100425023 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100424985 TACAATATAT
100424995 ATAAGAATTATACG
1 ATAAGAATTATACG
100425009 ATAAGAATTATACG
1 ATAAGAATTATACG
100425023 A
1 A
100425024 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:100430734 original size:16 final size:16
Alignment explanation
Indices: 100430709--100430741 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
100430699 ACGGTATTCT
*
100430709 ATATTTTATAGTAGCA
1 ATATTCTATAGTAGCA
100430725 ATATTCTATAGTAGCA
1 ATATTCTATAGTAGCA
100430741 A
1 A
100430742 AGGAATAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (16 bp):
ATATTCTATAGTAGCA
Found at i:100431238 original size:15 final size:15
Alignment explanation
Indices: 100431205--100431238 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
100431195 AGTTATGTCT
*
100431205 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
100431220 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
100431235 ATGT
1 ATGT
100431239 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:100432261 original size:19 final size:19
Alignment explanation
Indices: 100432239--100432278 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
100432229 TTAAACTTTT
* *
100432239 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
100432258 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
100432277 AT
1 AT
100432279 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:100433984 original size:14 final size:14
Alignment explanation
Indices: 100433965--100433993 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100433955 CTTTTTACTT
100433965 TGTTATATAGATTA
1 TGTTATATAGATTA
100433979 TGTTATATAGATTA
1 TGTTATATAGATTA
100433993 T
1 T
100433994 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:100434142 original size:21 final size:21
Alignment explanation
Indices: 100434118--100434157 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
100434108 TTTATCAGTA
*
100434118 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
100434139 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
100434158 TTTAAATAAA
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:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Done.