Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 45 of 208
Found at i:17329454 original size:32 final size:32
Alignment explanation
Indices: 17329413--17329499 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
17329403 AACTTTTCCG
** *
17329413 GAAAATATTTTCAGGAAATCTGTCAAACAGCA
1 GAAAATATTTTCAGGAAATCAATCAAACACCA
* *
17329445 GAAAATATTTTACA-CAGATTCAATCAAACACCA
1 GAAAATATTTT-CAGGA-AATCAATCAAACACCA
17329478 GAAAATATTTTTCAGGAAATCA
1 GAAAATA-TTTTCAGGAAATCA
17329500 TTTTACAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
32 12 0.27
33 27 0.61
34 5 0.11
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAGGAAATCAATCAAACACCA
Found at i:17334305 original size:6 final size:6
Alignment explanation
Indices: 17334290--17334376 Score: 70
Period size: 6 Copynumber: 14.0 Consensus size: 6
17334280 GTTTCCCTGC
17334290 AAAAAT -AAAAT AAAAAT AAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT
* * * * *
17334339 AATAAT AATAAT AATAATAT GAAAAT TAAAAT TAAAAT
1 AAAAAT AAAAAT AA-AA-AT AAAAAT AAAAAT AAAAAT
17334377 GTTCTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
5 10 0.14
6 42 0.60
7 10 0.14
8 8 0.11
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
AAAAAT
Found at i:17334341 original size:3 final size:3
Alignment explanation
Indices: 17334293--17334357 Score: 64
Period size: 3 Copynumber: 22.3 Consensus size: 3
17334283 TCCCTGCAAA
* * * *
17334293 AAT AA- AAT AAA AAT AAA AAT AA- AAT AA- AAT AGT AAA AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
17334336 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
17334358 TGAAAATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:17338006 original size:18 final size:18
Alignment explanation
Indices: 17337973--17338039 Score: 95
Period size: 18 Copynumber: 3.9 Consensus size: 18
17337963 AAGGTTTTCT
17337973 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
17337988 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
17338006 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
17338024 TATTGATGATAGTGAC
1 TATTGATGATAGTGAC
17338040 TCTATTGATC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
15 11 0.24
16 1 0.02
18 34 0.74
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:17338044 original size:18 final size:18
Alignment explanation
Indices: 17337988--17338048 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
17337978 ATGATATCGA
*
17337988 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGC
*
17338006 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGC
*
17338024 TATTGATGATAGTGACTC
1 TATTGATGATAGTGACGC
17338042 TATTGAT
1 TATTGAT
17338049 CGTGACCTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (18 bp):
TATTGATGATAGTGACGC
Found at i:17340978 original size:43 final size:43
Alignment explanation
Indices: 17340917--17341031 Score: 185
Period size: 43 Copynumber: 2.7 Consensus size: 43
17340907 TATGATTTCG
* *
17340917 TGTAAGACCTCGTCTGGGATGTTGGCATCGACTTGTGTTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACA
*
17340960 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACA
* *
17341003 TGTAAGACCATGTCTGGGACATTGGCATC
1 TGTAAGACCACGTCTGGGACGTTGGCATC
17341032 ATATTTGATT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACA
Found at i:17341058 original size:41 final size:43
Alignment explanation
Indices: 17340909--17341064 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
17340899 TTCTGAGATA
* **
17340909 TGATTTCGTGTAAGA-CCTCGTCTGGGATGTTGGCATCGACTTG
1 TGATTACGTGTAAGACCCT-GTCTGGGACATTGGCATCGACTTG
* * *
17340952 TGTTTACATGTAAGACCAC-GTCTGGGACGTTGGCATCGACTTG
1 TGATTACGTGTAAGACC-CTGTCTGGGACATTGGCATCGACTTG
* * *
17340995 TGTTTACGTGTAAGACCATGTCTGGGACATTGGCATC-A-TATT
1 TGATTACGTGTAAGACCCTGTCTGGGACATTGGCATCGACT-TG
*
17341037 TGATT-CGTGTAAGACCCTGTCTAGGACA
1 TGATTACGTGTAAGACCCTGTCTGGGACA
17341065 GTGGAATTGA
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
41 22 0.22
42 6 0.06
43 68 0.69
44 1 0.01
45 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (43 bp):
TGATTACGTGTAAGACCCTGTCTGGGACATTGGCATCGACTTG
Found at i:17345330 original size:13 final size:13
Alignment explanation
Indices: 17345312--17345362 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
17345302 AGTTCTTCAT
17345312 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
17345325 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
17345338 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
17345351 TGCTTTTGAAAA
1 TGCTTTTGAAAA
17345363 ATTTGAGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:17345616 original size:19 final size:18
Alignment explanation
Indices: 17345592--17345639 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
17345582 AATTATTTAT
17345592 TAAATTTAATTAGAATATA
1 TAAATTTAATTA-AATATA
* *
17345611 TAAATTATATTTAAATATT
1 TAAATT-TAATTAAATATA
*
17345630 TAAATATAAT
1 TAAATTTAAT
17345640 AATTAAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTAATTAAATATA
Found at i:17352850 original size:24 final size:24
Alignment explanation
Indices: 17352818--17352864 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17352808 TTAGCAAATG
* *
17352818 TTATTATTACGATAATTATATATA
1 TTATAATTACGATAACTATATATA
*
17352842 TTATAATTATGATAACTATATAT
1 TTATAATTACGATAACTATATAT
17352865 TTTTACATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
TTATAATTACGATAACTATATATA
Found at i:17354035 original size:4 final size:4
Alignment explanation
Indices: 17354026--17354051 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
17354016 TTCAGATAAG
17354026 ACCC ACCC ACCC ACCC ACCC ACCC AC
1 ACCC ACCC ACCC ACCC ACCC ACCC AC
17354052 ACCCGGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.73, G:0.00, T:0.00
Consensus pattern (4 bp):
ACCC
Found at i:17355072 original size:46 final size:45
Alignment explanation
Indices: 17354998--17355126 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 45
17354988 ACAATGCTAT
* *
17354998 AACTCAGTATGGTTTTCTTCACTAAAATACCATACCTAC-TTTTCAC
1 AACTCAGTATGGTTTTCTT-ACTGAAATACCATACCTACGTTCT-AC
* *
17355044 AACTTAGTATGGTTTTCGTTACTGAAATACCATACTTACGTTCTAC
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCTACGTTCTAC
* *
17355090 AACTCAGTATGATTTTCTTTACTGAATTACCATACCT
1 AACTCAGTATGGTTTTC-TTACTGAAATACCATACCT
17355127 GCATTCCACA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
46 67 0.93
47 5 0.07
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTACTGAAATACCATACCTACGTTCTAC
Found at i:17361722 original size:31 final size:33
Alignment explanation
Indices: 17361649--17361722 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
17361639 TCCTAATAAT
* * *
17361649 AACAACAAAATAGTAGCAATATAATAGTGAAAC
1 AACAACAAAACAGTAACAATATAATAGTGAAAA
*
17361682 AACACCAAAACAGTAACAA-A-AATAGT-AAAA
1 AACAACAAAACAGTAACAATATAATAGTGAAAA
17361712 AAGCAACAAAA
1 AA-CAACAAAA
17361723 AGCAATAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 5 0.14
31 13 0.37
32 1 0.03
33 16 0.46
ACGTcount: A:0.64, C:0.15, G:0.09, T:0.12
Consensus pattern (33 bp):
AACAACAAAACAGTAACAATATAATAGTGAAAA
Found at i:17371323 original size:10 final size:10
Alignment explanation
Indices: 17371308--17371335 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17371298 CCTGTTGATG
17371308 ACCAGTCTGC
1 ACCAGTCTGC
17371318 ACCAGTCTGC
1 ACCAGTCTGC
17371328 ACCAGTCT
1 ACCAGTCT
17371336 ACATTACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (10 bp):
ACCAGTCTGC
Found at i:17380314 original size:16 final size:18
Alignment explanation
Indices: 17380275--17380308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17380265 TAAGTTTATA
17380275 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
17380292 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
17380309 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:17385534 original size:46 final size:46
Alignment explanation
Indices: 17385464--17385800 Score: 491
Period size: 46 Copynumber: 7.6 Consensus size: 46
17385454 TACGTATGAT
* *
17385464 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGATAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
17385508 CACTGATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
17385554 CACTTATCATTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
17385600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
17385646 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
17385692 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
17385728 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
17385774 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
17385801 AGTACTCAAA
Statistics
Matches: 268, Mismatches: 13, Indels: 22
0.88 0.04 0.07
Matches are distributed among these distances:
36 29 0.11
38 2 0.01
39 1 0.00
40 2 0.01
41 2 0.01
42 2 0.01
43 1 0.00
44 11 0.04
45 5 0.02
46 213 0.79
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:17385733 original size:36 final size:36
Alignment explanation
Indices: 17385692--17385764 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
17385682 CTAAAGCTAC
*
17385692 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17385728 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
17385764 C
1 C
17385765 TAAAGCTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:17385739 original size:82 final size:82
Alignment explanation
Indices: 17385646--17385800 Score: 301
Period size: 82 Copynumber: 1.9 Consensus size: 82
17385636 CTAAGGCTAA
*
17385646 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
17385711 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
17385728 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
17385793 TGATCAGA
66 TGATCAGA
17385801 AGTACTCAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TGATCAGATAAGTGTAG
Found at i:17398076 original size:41 final size:41
Alignment explanation
Indices: 17398019--17398159 Score: 237
Period size: 41 Copynumber: 3.4 Consensus size: 41
17398009 AATTGAAATT
*
17398019 TTCAGACTTAAAGTCTAGCAGGTTTAATGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
*
17398060 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
*
17398101 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGAAATAA
1 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
* *
17398142 TTCGGACTTTAAGTCTAG
1 TTCAGACTTAAAGTCTAG
17398160 TAGGCTAATT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (41 bp):
TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
Found at i:17404564 original size:15 final size:15
Alignment explanation
Indices: 17404544--17404574 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17404534 CAGCTAGTGA
17404544 ACCTCGAATCCATTC
1 ACCTCGAATCCATTC
17404559 ACCTCGAATCCATTC
1 ACCTCGAATCCATTC
17404574 A
1 A
17404575 ACAGACGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.39, G:0.06, T:0.26
Consensus pattern (15 bp):
ACCTCGAATCCATTC
Found at i:17412972 original size:18 final size:17
Alignment explanation
Indices: 17412939--17412978 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17412929 GGTTGAACTG
*
17412939 AAATTTTTAAAATTTTT
1 AAATTTGTAAAATTTTT
17412956 AAATTTGTAATAATTTTT
1 AAATTTGTAA-AATTTTT
*
17412974 TAATT
1 AAATT
17412979 AGATTGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
AAATTTGTAAAATTTTT
Found at i:17417258 original size:13 final size:13
Alignment explanation
Indices: 17417242--17417281 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
17417232 TAATTTTTGA
17417242 TTTATTATTTTAT
1 TTTATTATTTTAT
17417255 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
17417268 TTTAATTATTTTAT
1 TTT-ATTATTTTAT
17417282 CTGACTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:17419164 original size:13 final size:13
Alignment explanation
Indices: 17419143--17419176 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
17419133 TCTTTGATTT
17419143 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
17419157 GTTATTTATTTTA
1 ATTATTTATTTTA
17419170 ATTATTT
1 ATTATTT
17419177 TATCTGACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:17420689 original size:27 final size:27
Alignment explanation
Indices: 17420659--17420721 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
17420649 TATCAGGTAA
*
17420659 GCGCCATTGAAGGTGCCTCATAGAGAG
1 GCGCCAATGAAGGTGCCTCATAGAGAG
17420686 GCGCCAATGAAGGTGCCTCATAGAGAG
1 GCGCCAATGAAGGTGCCTCATAGAGAG
17420713 GCGCCAATG
1 GCGCCAATG
17420722 GTGGCCTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (27 bp):
GCGCCAATGAAGGTGCCTCATAGAGAG
Found at i:17420871 original size:17 final size:18
Alignment explanation
Indices: 17420837--17420896 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
17420827 TGGGCACGGT
17420837 AGAGAAA-AA-AA-AAAG
1 AGAGAAAGAAGAAGAAAG
*
17420852 AGAGAAAGGAGAAG-AAG
1 AGAGAAAGAAGAAGAAAG
17420869 AGA-AGAAGAAGAAGAAAG
1 AGAGA-AAGAAGAAGAAAG
*
17420887 AAAGAAAGAA
1 AGAGAAAGAA
17420897 AAAGGTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 7 0.19
16 2 0.06
17 16 0.44
18 10 0.28
19 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAGAAGAAAG
Found at i:17420892 original size:14 final size:13
Alignment explanation
Indices: 17420849--17420888 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
17420839 AGAAAAAAAA
*
17420849 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
17420863 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
17420877 AAGAAGAAAGAA
1 AAGAAGAAAGAA
17420889 AGAAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:17421068 original size:19 final size:19
Alignment explanation
Indices: 17421044--17421284 Score: 90
Period size: 19 Copynumber: 13.1 Consensus size: 19
17421034 TTTGGATTAG
*
17421044 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
*
17421063 AATTTTTTTGTCTGAATATTGT
1 AA---TTTTGTATGAATATTGT
17421085 AATTATT-TATGAATATTGT
1 AATT-TTGTATGAATATTGT
*
17421104 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * * *
17421127 -ATTTACAGTTTTGGAT-TAGT
1 AATTT--TG-TATGAATATTGT
17421147 A-TTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
17421165 AATTTTGTATAAATATTGT
1 AATTTTGTATGAATATTGT
*
17421184 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
17421198 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
17421214 AATTTTATATGAATATTGC
1 AATTTTGTATGAATATTGT
* *
17421233 AATTTT-TTTG--TAATG-
1 AATTTTGTATGAATATTGT
*
17421248 AATATTG--T-AATATTGT
1 AATTTTGTATGAATATTGT
17421264 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
17421283 AA
1 AA
17421285 CGTCGGGATA
Statistics
Matches: 165, Mismatches: 26, Indels: 62
0.65 0.10 0.25
Matches are distributed among these distances:
13 1 0.01
14 8 0.05
15 12 0.07
16 17 0.10
17 5 0.03
18 12 0.07
19 68 0.41
20 12 0.07
21 1 0.01
22 21 0.13
23 4 0.02
24 3 0.02
25 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.54
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:17421073 original size:22 final size:22
Alignment explanation
Indices: 17421046--17421112 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
17421036 TGGATTAGAA
*
17421046 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
*
17421068 TTTTGTCTGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
* *
17421088 TATT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
17421109 TTTT
1 TTTT
17421113 ATAATTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
19 13 0.35
20 4 0.11
21 3 0.08
22 17 0.46
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:17421261 original size:50 final size:49
Alignment explanation
Indices: 17421157--17421337 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 49
17421147 ATTTTGTATG
* *
17421157 AATATTGTAATTTTGTATAAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
17421206 AATATTATAATTTTATATGAATATTGCAATTTTTTTGTAATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGT-ATGAATATTGT
* ** ** *
17421256 AATATTGTAATTTTGTATGAATATTGTAA--CGTCGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
17421301 AATATTGTAATTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA-TTTTGTATGAATATTGCAATTTTTTT
17421338 ATAATTAATT
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
45 17 0.15
46 19 0.17
47 2 0.02
48 3 0.03
49 34 0.30
50 37 0.33
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:17421407 original size:60 final size:60
Alignment explanation
Indices: 17421328--17421447 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 60
17421318 ATGAATATTG
* * * * *
17421328 TAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTA
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
*
17421388 TAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGTTTA
1 TAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
17421448 GTTTAGTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 47 0.89
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTA
Found at i:17421525 original size:38 final size:38
Alignment explanation
Indices: 17421480--17421561 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
17421470 CATATAAAGT
*
17421480 TTATAAAAAAATTAAAAATTATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
*
17421518 TTATAAAAAAGTTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
17421556 TTATAA
1 TTATAA
17421562 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:17422025 original size:37 final size:38
Alignment explanation
Indices: 17421983--17422063 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 38
17421973 AAAAAGTTAG
17421983 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
17422020 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
17422058 TTATAA
1 TTATAA
17422064 ACTTTATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 33 0.77
38 10 0.23
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAACTTTT
Found at i:17422173 original size:60 final size:60
Alignment explanation
Indices: 17422097--17422218 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
17422087 ATACTAAACT
* * * ** *
17422097 AAACACAACAACTTATAGCTTAATCCTAAATTACTAGTAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
*
17422157 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
17422217 AA
1 AA
17422219 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:17422245 original size:8 final size:8
Alignment explanation
Indices: 17422232--17422322 Score: 65
Period size: 8 Copynumber: 10.4 Consensus size: 8
17422222 TCATACAAAA
17422232 ATTACAAT
1 ATTACAAT
17422240 ATTACAAT
1 ATTACAAT
* * *
17422248 ATATCCCGAC
1 AT-T-ACAAT
17422258 ATTACAAT
1 ATTACAAT
*
17422266 ATTCATACAAA
1 A-T--TACAAT
17422277 ATTACAAT
1 ATTACAAT
17422285 ATTACAAT
1 ATTACAAT
*
17422293 ATTCATACAAA
1 A-T--TACAAT
17422304 ATTACAAT
1 ATTACAAT
17422312 ATTACAAT
1 ATTACAAT
17422320 ATT
1 ATT
17422323 CATTACAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 43 0.66
9 4 0.06
10 6 0.09
11 12 0.18
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:17422282 original size:19 final size:19
Alignment explanation
Indices: 17422279--17422526 Score: 102
Period size: 19 Copynumber: 13.5 Consensus size: 19
17422269 CATACAAAAT
*
17422279 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
17422298 TACAAAATTACAATA-T--
1 TACAAAATTACAATATTCA
* *
17422314 TACAATATT-C-AT-TACA
1 TACAAAATTACAATATTCA
* *
17422330 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* * *
17422348 CATAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
17422364 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
17422379 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
17422397 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
17422416 TACAAAA-TACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
17422434 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
17422457 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
* *
17422477 TAAAAAATTACAATATTAA
1 TACAAAATTACAATATTCA
*
17422496 TACAAAAAAATTAGAATATTCA
1 TAC---AAAATTACAATATTCA
17422518 TACAAAATT
1 TACAAAATT
17422527 CTAATCCAAA
Statistics
Matches: 174, Mismatches: 27, Indels: 56
0.68 0.11 0.22
Matches are distributed among these distances:
14 11 0.06
15 8 0.05
16 18 0.10
17 5 0.03
18 14 0.08
19 74 0.43
20 13 0.07
21 2 0.01
22 22 0.13
23 5 0.03
25 2 0.01
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:17422294 original size:27 final size:27
Alignment explanation
Indices: 17422258--17422413 Score: 188
Period size: 27 Copynumber: 6.1 Consensus size: 27
17422248 ATATCCCGAC
17422258 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
17422285 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
17422312 ATTACAATATTCATTAC-AAA--A-AA-
1 ATTACAATATTCA-TACAAAATTACAAT
* * * *
17422335 ATTGCAATATTCACATAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
17422362 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
17422384 ATTACAATATTCATAAAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
17422411 ATT
1 ATT
17422414 CATACAAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
22 16 0.14
23 20 0.18
24 3 0.03
25 3 0.03
26 7 0.06
27 59 0.53
28 3 0.03
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:17422419 original size:41 final size:41
Alignment explanation
Indices: 17422362--17422526 Score: 155
Period size: 41 Copynumber: 4.1 Consensus size: 41
17422352 AAATTATAAT
*
17422362 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAA
1 ATTACAATATTAATACAAAAAAATTACAATATTCATAAAAA
* * *
17422403 ATTACAATATTCATAC---AAAA-TACTA-ATCCA-AAACTATA
1 ATTACAATATTAATACAAAAAAATTACAATATTCATAAA--A-A
* * *
17422441 AATACAA-ATTTAATTATAAAATAATTACAATATTCATAAAAA
1 ATTACAATA-TTAA-TACAAAAAAATTACAATATTCATAAAAA
* *
17422483 ATTACAATATTAATACAAAAAAATTAGAATATTCATACAAA
1 ATTACAATATTAATACAAAAAAATTACAATATTCATAAAAA
17422524 ATT
1 ATT
17422527 CTAATCCAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
35 3 0.03
36 4 0.04
37 6 0.06
38 14 0.14
39 2 0.02
41 43 0.43
42 14 0.14
43 6 0.06
44 4 0.04
45 3 0.03
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.31
Consensus pattern (41 bp):
ATTACAATATTAATACAAAAAAATTACAATATTCATAAAAA
Found at i:17422503 original size:22 final size:22
Alignment explanation
Indices: 17422458--17422524 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
17422448 ATTTAATTAT
*
17422458 AAAATAATTACAATATTCAT--
1 AAAAAAATTACAATATTCATAC
*
17422478 -AAAAAATTACAATATTAATAC
1 AAAAAAATTACAATATTCATAC
*
17422499 AAAAAAATTAGAATATTCATAC
1 AAAAAAATTACAATATTCATAC
17422521 AAAA
1 AAAA
17422525 TTCTAATCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.43
22 23 0.57
ACGTcount: A:0.61, C:0.09, G:0.01, T:0.28
Consensus pattern (22 bp):
AAAAAAATTACAATATTCATAC
Found at i:17422569 original size:102 final size:100
Alignment explanation
Indices: 17422362--17422560 Score: 267
Period size: 102 Copynumber: 1.9 Consensus size: 100
17422352 AAATTATAAT
*
17422362 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAATACT
1 ATTACAATATTCAT--AAAAAAATTACAATATTAATAAAAAATTACAATATTCATACAAAATACT
* * *
17422427 AATCCAAAACTATAAATACAAATTTAATTATAAAATA
64 AATCCAAAACTATAAACACAAATATAATAATAAAATA
* *
17422464 ATTACAATATTCAT-AAAAAATTACAATATTAATACAAAAAAATTAGAATATTCATACAAAATTC
1 ATTACAATATTCATAAAAAAATTACAATATTAAT---AAAAAATTACAATATTCATACAAAATAC
17422528 TAATCC-AAACTATAAACACTAAATATAGATAAT
63 TAATCCAAAACTATAAACAC-AAATATA-ATAAT
17422561 TTATAATTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
99 18 0.21
101 12 0.14
102 52 0.60
103 4 0.05
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.30
Consensus pattern (100 bp):
ATTACAATATTCATAAAAAAATTACAATATTAATAAAAAATTACAATATTCATACAAAATACTAA
TCCAAAACTATAAACACAAATATAATAATAAAATA
Found at i:17422610 original size:12 final size:12
Alignment explanation
Indices: 17422593--17422618 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17422583 AAAAATTCAC
17422593 AATATCTTCTAA
1 AATATCTTCTAA
17422605 AATATCTTCTAA
1 AATATCTTCTAA
17422617 AA
1 AA
17422619 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:17423099 original size:27 final size:28
Alignment explanation
Indices: 17423038--17423108 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
17423028 TAAAAAAATA
*
17423038 ACCTATTTTAGTAAATATTTTTTCTTAC
1 ACCTATTTGAGTAAATATTTTTTCTTAC
* *
17423066 ACTCTATTTGAGTAATTTTTTTTTCTTAC
1 AC-CTATTTGAGTAAATATTTTTTCTTAC
*
17423095 -CCTATTTGTGTAAA
1 ACCTATTTGAGTAAA
17423109 AAACCCCCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.30
28 3 0.08
29 23 0.62
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
ACCTATTTGAGTAAATATTTTTTCTTAC
Found at i:17442556 original size:57 final size:59
Alignment explanation
Indices: 17442442--17442589 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
17442432 AATTGACAGT
*
17442442 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAAAATATGTG-G
*
17442505 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATATCCCTCCCGAAAAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAAAATATGTGG
* * *
17442561 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
17442590 GAATTAGGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.06
57 44 0.56
58 1 0.01
59 1 0.01
61 1 0.01
62 21 0.27
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAAAATATGTGG
Found at i:17443688 original size:16 final size:17
Alignment explanation
Indices: 17443667--17443700 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17443657 ACATAATTAT
*
17443667 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
17443683 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
17443700 T
1 T
17443701 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:17444630 original size:42 final size:42
Alignment explanation
Indices: 17444570--17444669 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
17444560 CTATATGAAC
* *
17444570 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
* *
17444612 GGCACTAAGTGTGTGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
17444654 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
17444670 TACCAAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACG
Found at i:17448221 original size:52 final size:49
Alignment explanation
Indices: 17448136--17448502 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
17448126 TTTGAGTACT
* ** *
17448136 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17448182 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
17448234 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17448280 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
17448332 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
17448378 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
17448430 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17448476 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
17448503 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:17448256 original size:98 final size:98
Alignment explanation
Indices: 17448136--17448491 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
17448126 TTTGAGTACT
* *
17448136 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
17448201 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17448234 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
17448299 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17448332 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
17448397 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
17448430 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
17448492 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:17448514 original size:37 final size:37
Alignment explanation
Indices: 17448466--17448611 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
17448456 GATAGCTTTA
*
17448466 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
17448503 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
17448540 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
17448577 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17448612 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:17449927 original size:49 final size:49
Alignment explanation
Indices: 17449866--17450009 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
17449856 ATGTGAACAT
* *
17449866 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTGTGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
17449916 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
17449965 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTCTGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
17450010 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.95
50 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:17453218 original size:52 final size:49
Alignment explanation
Indices: 17453133--17453499 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
17453123 TTTGAGTACT
* ** *
17453133 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17453179 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
17453231 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17453277 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
17453329 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
17453375 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
17453427 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
17453473 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
17453500 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:17453253 original size:98 final size:98
Alignment explanation
Indices: 17453133--17453488 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
17453123 TTTGAGTACT
* *
17453133 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
17453198 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17453231 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
17453296 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
17453329 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
17453394 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
17453427 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
17453489 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:17453511 original size:37 final size:37
Alignment explanation
Indices: 17453463--17453608 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
17453453 GATAGCTTTA
*
17453463 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
17453500 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
17453537 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
17453574 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17453609 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:17476315 original size:2 final size:2
Alignment explanation
Indices: 17476308--17476340 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17476298 ACTGTGTAAA
17476308 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
17476341 GCTCGCTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:17480761 original size:64 final size:64
Alignment explanation
Indices: 17480679--17480799 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
17480669 GCGAGCATCC
* * * * * *
17480679 TGATCGGTATTGATCCTGCATGTGTTGCGAACATACCGCAGCTCTTTGTGAGTGTCCTATTATA
1 TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCCTATTATA
* *
17480743 TGATCGGTGTGGATCCTGCATATATTGAGGACATACCGCAGCTCTTTATGAGCGTCC
1 TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCC
17480800 CGATATATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (64 bp):
TGATCGGTATGGATCCTGCATATATTGAGAACATACCGCAGCTCTTTATGAGCGTCCTATTATA
Found at i:17487874 original size:9 final size:9
Alignment explanation
Indices: 17487845--17487881 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17487835 TGAGTTTTCG
17487845 AATTCGAAT
1 AATTCGAAT
*
17487854 AACTCGAAT
1 AATTCGAAT
17487863 AATTCGAAT
1 AATTCGAAT
*
17487872 AATTTGAAT
1 AATTCGAAT
17487881 A
1 A
17487882 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17487964 original size:30 final size:31
Alignment explanation
Indices: 17487933--17487990 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
17487923 TCTTTTTACT
*
17487933 TTTCCCT-CAAAACATTTAC-CCCTTCCCAC
1 TTTCCCTCCAAAACATTTACTCCCCTCCCAC
* *
17487962 TTTCTCTCCAAAACTTTTACTCCCCTCCC
1 TTTCCCTCCAAAACATTTACTCCCCTCCC
17487991 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 11 0.46
31 7 0.29
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (31 bp):
TTTCCCTCCAAAACATTTACTCCCCTCCCAC
Found at i:17488131 original size:30 final size:31
Alignment explanation
Indices: 17488095--17488154 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17488085 AAACCTTTTA
*
17488095 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
17488125 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
17488155 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:17495464 original size:20 final size:21
Alignment explanation
Indices: 17495426--17495465 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
17495416 CCCATTTTTC
*
17495426 ATTCTTTTTTACGTTTAAATTT
1 ATTCTTTTATACG-TTAAATTT
17495448 ATTCTTTTATACG-TAAAT
1 ATTCTTTTATACGTTAAAT
17495466 CTAGAGACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTCTTTTATACGTTAAATTT
Found at i:17495737 original size:7 final size:7
Alignment explanation
Indices: 17495725--17495751 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17495715 TTGTTTTAAT
17495725 AAATAGC
1 AAATAGC
17495732 AAATAGC
1 AAATAGC
17495739 AAATAGC
1 AAATAGC
17495746 AAATAG
1 AAATAG
17495752 GTCAAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATAGC
Found at i:17500024 original size:64 final size:64
Alignment explanation
Indices: 17499923--17500053 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 64
17499913 AATTTTCAAC
*
17499923 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAATATTTTATGCAT
1 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
17499987 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
1 CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
17500051 CCT
1 CCT
17500054 AGTTCACTAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (64 bp):
CCTTAGTAAACTATCAGCTGTGTGGATACTTGAAGTGAATTAAGATACTGAACATTTTATGCAT
Found at i:17503858 original size:45 final size:45
Alignment explanation
Indices: 17503809--17503902 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
17503799 AGTTTTTATT
17503809 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
1 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
* * *
17503854 TCAAACAAAAGATTACTGGCTTTAGATTCTAATAAAAATTAAAGC
1 TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
17503899 TCAA
1 TCAA
17503903 TAACCTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.28
Consensus pattern (45 bp):
TCAAACAAAACATTACTAGCTTTAGATGCTAATAAAAATTAAAGC
Found at i:17516138 original size:95 final size:95
Alignment explanation
Indices: 17516016--17516205 Score: 344
Period size: 95 Copynumber: 2.0 Consensus size: 95
17516006 AGCGAAATAG
17516016 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
1 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
*
17516081 GAAGATATGTGAGTCTAGTTTCAGGAAAAA
66 GAAGATATGTGAGTCTAATTTCAGGAAAAA
* * *
17516111 GGGAAACTTTGAAGAATAAACTGTACTATTTTGCTGAACCAAAAATTCTGAAAATTTTATGATAT
1 GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
17516176 GAAGATATGTGAGTCTAATTTCAGGAAAAA
66 GAAGATATGTGAGTCTAATTTCAGGAAAAA
17516206 TTAACGGATC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (95 bp):
GGGAAACTTTAAAGAATAAACTGTACTATTTGGCTAAACCAAAAATTCTGAAAATTTTATGATAT
GAAGATATGTGAGTCTAATTTCAGGAAAAA
Found at i:17516735 original size:52 final size:48
Alignment explanation
Indices: 17516716--17517016 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
17516706 TGACAAGTGG
* * *
17516716 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
17516762 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
17516810 GTGGAAAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGTGACAAGTGA
1 ----AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-A---A
* * *
17516866 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
17516912 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
* *
17516958 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
17517004 AAAGTGATAAGTG
1 AAAGTGATAAGTG
17517017 GCTACACTTA
Statistics
Matches: 234, Mismatches: 11, Indels: 20
0.88 0.04 0.08
Matches are distributed among these distances:
46 145 0.62
52 87 0.37
53 1 0.00
56 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
Found at i:17516770 original size:98 final size:98
Alignment explanation
Indices: 17516650--17517005 Score: 499
Period size: 98 Copynumber: 3.6 Consensus size: 98
17516640 TTTGAGTACT
* * *
17516650 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
17516715 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
17516748 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
17516813 GAAAGTGATAAGTGATAGCTTCGGTTACACTTA
66 GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
17516846 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
**
17516911 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
17516944 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
17517006 AGTGATAAGT
Statistics
Matches: 235, Mismatches: 15, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
92 43 0.18
98 149 0.63
104 43 0.18
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:17517024 original size:37 final size:37
Alignment explanation
Indices: 17516980--17517069 Score: 171
Period size: 37 Copynumber: 2.4 Consensus size: 37
17516970 GATAGCTTTA
*
17516980 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17517017 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
17517054 GCTACACTTATCTGAT
1 GCTACACTTATCTGAT
17517070 ACACTTATCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:17517074 original size:13 final size:13
Alignment explanation
Indices: 17517056--17517082 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17517046 GATAAGTGGC
17517056 TACACTTATCTGA
1 TACACTTATCTGA
17517069 TACACTTATCTGA
1 TACACTTATCTGA
17517082 T
1 T
17517083 CAAGAAATAA
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:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TACACTTATCTGA
Found at i:17517095 original size:50 final size:50
Alignment explanation
Indices: 17517019--17517119 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
17517009 GATAAGTGGC
17517019 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGA
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGA
*
17517069 TACACTTATCTGATCAAGAAATAAAGTGATAAGTGGCTACACTTATCTGA
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGA
17517119 T
1 T
17517120 CAGGGACAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (50 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGA
Found at i:17517107 original size:87 final size:84
Alignment explanation
Indices: 17516934--17517138 Score: 290
Period size: 87 Copynumber: 2.4 Consensus size: 84
17516924 GATAGCTTTA
* *
17516934 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT-GATAGCTTTAGCTACACTTATCTGATCA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGATAACTTTAGATACACTTATCTGATCA
*
17516998 AGAGACAAAGTGATAAGTG
66 AGAAACAAAGTGATAAGTG
* * *
17517017 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATACACTTATCTGA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGATA-ACTT-T-AGATACACTTATCTGA
*
17517082 TCAAGAAATAAAGTGATAAGTG
63 TCAAGAAACAAAGTGATAAGTG
*
17517104 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
17517139 ATCATACGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
83 35 0.32
84 3 0.03
85 15 0.14
86 5 0.05
87 51 0.47
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (84 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGATAACTTTAGATACACTTATCTGATCA
AGAAACAAAGTGATAAGTG
Found at i:17518752 original size:13 final size:13
Alignment explanation
Indices: 17518725--17518792 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
17518715 GTATAAGCAC
17518725 TTCATATAACCAT
1 TTCATATAACCAT
* *
17518738 TTCATATATCTAT
1 TTCATATAACCAT
*
17518751 TTCCATATAAACAT
1 TT-CATATAACCAT
** *
17518765 TTTGTATATCCAT
1 TTCATATAACCAT
17518778 TTCATA-ATACCAT
1 TTCATATA-ACCAT
17518791 TT
1 TT
17518793 TCGTTTACTC
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 1 0.02
13 30 0.73
14 10 0.24
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:17518765 original size:27 final size:27
Alignment explanation
Indices: 17518727--17518780 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17518717 ATAAGCACTT
* *
17518727 CATATAACCATTTCATATATCTATTTC
1 CATATAAACATTTCATATATCCATTTC
**
17518754 CATATAAACATTTTGTATATCCATTTC
1 CATATAAACATTTCATATATCCATTTC
17518781 ATAATACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (27 bp):
CATATAAACATTTCATATATCCATTTC
Found at i:17518782 original size:53 final size:53
Alignment explanation
Indices: 17518684--17518792 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
17518674 TAAATGTCCC
* *
17518684 TTTCACATATCTATATTCATATAAATATTTTGTATAAGCACTTCAT-ATAACCA
1 TTTCACATATCTATATTCATATAAACATTTTGTATAACCACTTCATAAT-ACCA
* * *
17518737 TTTCATATATCTAT-TTCCATATAAACATTTTGTATATCCATTTCATAATACCA
1 TTTCACATATCTATATT-CATATAAACATTTTGTATAACCACTTCATAATACCA
17518790 TTT
1 TTT
17518793 TCGTTTACTC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 2 0.04
53 45 0.92
54 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (53 bp):
TTTCACATATCTATATTCATATAAACATTTTGTATAACCACTTCATAATACCA
Found at i:17522919 original size:8 final size:8
Alignment explanation
Indices: 17522906--17522937 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
17522896 ATTTTATCTT
17522906 TAATTACC
1 TAATTACC
17522914 TAATTACC
1 TAATTACC
17522922 TAATTACC
1 TAATTACC
*
17522930 AAATTACC
1 TAATTACC
17522938 CTTACTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (8 bp):
TAATTACC
Found at i:17534733 original size:23 final size:23
Alignment explanation
Indices: 17534699--17534772 Score: 103
Period size: 23 Copynumber: 3.0 Consensus size: 23
17534689 TATTTATTTT
17534699 TAATTTTATTTTTTATTTTTAAAA
1 TAATTTT-TTTTTTATTTTTAAAA
17534723 TAATTTTTTTTTTATTTTTAAAA
1 TAATTTTTTTTTTATTTTTAAAA
*
17534746 TAATTTTTTAATGTTTATTTTAAAAA
1 TAATTTTTT--T-TTTATTTTTAAAA
17534772 T
1 T
17534773 GGACCGAGCC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 25 0.54
24 7 0.15
25 1 0.02
26 13 0.28
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (23 bp):
TAATTTTTTTTTTATTTTTAAAA
Found at i:17534762 original size:20 final size:19
Alignment explanation
Indices: 17534691--17534755 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
17534681 ATAATAAATA
** *
17534691 TTTATTTTTAATTTTATTT
1 TTTATTTTTAAAATAATTT
17534710 TTTATTTTTAAAATAATTTTTTT
1 TTTATTTTTAAAATAA----TTT
17534733 TTTATTTTTAAAATAATTT
1 TTTATTTTTAAAATAATTT
17534752 TTTA
1 TTTA
17534756 ATGTTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 20 0.51
23 19 0.49
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTTTAAAATAATTT
Found at i:17545836 original size:34 final size:33
Alignment explanation
Indices: 17545796--17545901 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
17545786 AAATATAAAA
17545796 ATAAAATATTTGAAATATTTTAATATAATTTAAT
1 ATAAAATATTT-AAATATTTTAATATAATTTAAT
** *
17545830 ATAAAATATTT-AAT-TTCAAAGTATAATTTAAA
1 ATAAAATATTTAAATATTTTAA-TATAATTTAAT
* *
17545862 ATAAAGTATTTTAAAAATTTTAATATAATTTAAT
1 ATAAAATA-TTTAAATATTTTAATATAATTTAAT
17545896 ATAAAA
1 ATAAAA
17545902 ATAATTATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
31 4 0.07
32 20 0.34
33 3 0.05
34 28 0.47
35 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (33 bp):
ATAAAATATTTAAATATTTTAATATAATTTAAT
Found at i:17551817 original size:46 final size:46
Alignment explanation
Indices: 17551750--17551841 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
17551740 GACCAGAAAA
17551750 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
1 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
17551796 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
1 GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
17551842 TACTGGTCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.09, C:0.24, G:0.13, T:0.54
Consensus pattern (46 bp):
GATTGTTTTTCTACGACTTCCTCTCTCTCATGGTCTTTTCTTTTGT
Found at i:17565390 original size:29 final size:29
Alignment explanation
Indices: 17565348--17565410 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
17565338 ACCGCCCTTC
17565348 AACTTCCGAAGATTCTCCTGCTTCGCAAT
1 AACTTCCGAAGATTCTCCTGCTTCGCAAT
17565377 AACTTCCGAAGATTCTCCTGCTTCGCAAT
1 AACTTCCGAAGATTCTCCTGCTTCGCAAT
17565406 AACTT
1 AACTT
17565411 TGTTCTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (29 bp):
AACTTCCGAAGATTCTCCTGCTTCGCAAT
Found at i:17568560 original size:21 final size:21
Alignment explanation
Indices: 17568514--17568561 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
17568504 TACTGTTTTG
17568514 AATATTTGAATTTATTTTCTT
1 AATATTTGAATTTATTTTCTT
*
17568535 TATATTT-AATTTAATTTT-TAT
1 AATATTTGAATTT-ATTTTCT-T
17568556 AATATT
1 AATATT
17568562 ATTAGTAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
AATATTTGAATTTATTTTCTT
Found at i:17569470 original size:16 final size:15
Alignment explanation
Indices: 17569451--17569480 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17569441 ACTATTGAGA
17569451 ATAATAAAAGTTTACT
1 ATAATAAAA-TTTACT
17569467 ATAATAAAATTTAC
1 ATAATAAAATTTAC
17569481 GATTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ATAATAAAATTTACT
Found at i:17577582 original size:24 final size:24
Alignment explanation
Indices: 17577554--17577608 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
17577544 TATATCACTA
17577554 CATCTTTCCGGCT-ATCCTTCTTCT
1 CATCTTT-CGGCTCATCCTTCTTCT
**
17577578 CATCTTTCTTCTCATCCTTCTTCT
1 CATCTTTCGGCTCATCCTTCTTCT
*
17577602 CCTCTTT
1 CATCTTT
17577609 TGCGGCCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.07, C:0.38, G:0.04, T:0.51
Consensus pattern (24 bp):
CATCTTTCGGCTCATCCTTCTTCT
Found at i:17577588 original size:12 final size:12
Alignment explanation
Indices: 17577571--17577608 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
17577561 CCGGCTATCC
17577571 TTCTTCTCATCT
1 TTCTTCTCATCT
*
17577583 TTCTTCTCATCC
1 TTCTTCTCATCT
*
17577595 TTCTTCTCCTCT
1 TTCTTCTCATCT
17577607 TT
1 TT
17577609 TGCGGCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.58
Consensus pattern (12 bp):
TTCTTCTCATCT
Found at i:17582692 original size:3 final size:3
Alignment explanation
Indices: 17582681--17582712 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
17582671 AAAATCCAAA
17582681 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
17582713 CAAGCAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:17588186 original size:13 final size:13
Alignment explanation
Indices: 17588168--17588195 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17588158 AGTTTATCGG
17588168 AATTATTATAATT
1 AATTATTATAATT
17588181 AATTATTATAATT
1 AATTATTATAATT
17588194 AA
1 AA
17588196 GATTTTGGTC
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:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATTATAATT
Found at i:17599236 original size:24 final size:25
Alignment explanation
Indices: 17599207--17599267 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
17599197 ATGAAACAAC
*
17599207 AAAAAGAAAATA-TATTCTAAAAAG
1 AAAAAGAAAATACTAATCTAAAAAG
* *
17599231 GAAAAGAAAA-ACTTAATCTAAAAAT
1 AAAAAGAAAATAC-TAATCTAAAAAG
17599256 AAAAAGAAAATA
1 AAAAAGAAAATA
17599268 AACAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 9 0.30
25 19 0.63
26 1 0.03
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (25 bp):
AAAAAGAAAATACTAATCTAAAAAG
Found at i:17599277 original size:16 final size:16
Alignment explanation
Indices: 17599256--17599286 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17599246 ATCTAAAAAT
*
17599256 AAAAAGAAAATAAACA
1 AAAAAGAAAAGAAACA
17599272 AAAAAGAAAAGAAAC
1 AAAAAGAAAAGAAAC
17599287 TTAACGTAAA
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:0.81, C:0.06, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAGAAACA
Found at i:17603201 original size:69 final size:69
Alignment explanation
Indices: 17603114--17603243 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
17603104 TGGGATGCTA
*
17603114 AAACTATGCTATGATCATGTAGAATAATGATTTCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
17603179 ATAG
66 ATAG
17603183 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
1 AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGC
17603244 ATATCTGAAG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (69 bp):
AAACTATGCTATGATCATGTAGAATAATGATTCCAAGCTATAACCAAAGTTTGCATGAAGCCGAG
ATAG
Found at i:17607116 original size:6 final size:6
Alignment explanation
Indices: 17607105--17607141 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
17607095 GTTTCAACCT
17607105 CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA C
1 CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA C
17607142 ATTCCATTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCCA
Found at i:17608506 original size:15 final size:15
Alignment explanation
Indices: 17608486--17608515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17608476 CATATTCCAT
*
17608486 TTAATATTATATAAA
1 TTAATATAATATAAA
17608501 TTAATATAATATAAA
1 TTAATATAATATAAA
17608516 AATTATTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATATAATATAAA
Found at i:17617375 original size:18 final size:18
Alignment explanation
Indices: 17617352--17617388 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17617342 TTTTAATTAA
*
17617352 TTAAAAATAATTTAAAAT
1 TTAAAAATAAATTAAAAT
*
17617370 TTAAAATTAAATTAAAAT
1 TTAAAAATAAATTAAAAT
17617388 T
1 T
17617389 CATTAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAAATAAATTAAAAT
Found at i:17617858 original size:25 final size:24
Alignment explanation
Indices: 17617823--17617878 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
17617813 TATATTACAT
* *
17617823 ATAC-AAATAATTTTATTTATTCA
1 ATACAAAATAATTTGATGTATTCA
*
17617846 ATACAAAAGTAATTTGATGTATTTA
1 ATACAAAA-TAATTTGATGTATTCA
*
17617871 ATAAAAAA
1 ATACAAAA
17617879 AATCATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 3 0.11
25 20 0.74
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (24 bp):
ATACAAAATAATTTGATGTATTCA
Found at i:17618222 original size:12 final size:14
Alignment explanation
Indices: 17618191--17618227 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
17618181 AGTTAGTAGA
17618191 TATTTAAACATAAT
1 TATTTAAACATAAT
*
17618205 TCTTTAAA-A-AAT
1 TATTTAAACATAAT
17618217 TATTTAAACAT
1 TATTTAAACAT
17618228 GTTATTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
12 10 0.53
13 2 0.11
14 7 0.37
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (14 bp):
TATTTAAACATAAT
Found at i:17624990 original size:14 final size:14
Alignment explanation
Indices: 17624971--17625000 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17624961 TCTAAATTAG
17624971 TACAATAAATTAAT
1 TACAATAAATTAAT
17624985 TACAATAAATTAAT
1 TACAATAAATTAAT
17624999 TA
1 TA
17625001 TTCAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
TACAATAAATTAAT
Found at i:17626475 original size:29 final size:29
Alignment explanation
Indices: 17626433--17626490 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
17626423 CCACTGGTCA
17626433 CATCAAATTTTTTTAAAGAAAGTTATAAG
1 CATCAAATTTTTTTAAAGAAAGTTATAAG
17626462 CATCAAATTTTTTTAAAGAAAGTTATAAG
1 CATCAAATTTTTTTAAAGAAAGTTATAAG
17626491 TATAGGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (29 bp):
CATCAAATTTTTTTAAAGAAAGTTATAAG
Found at i:17626778 original size:15 final size:15
Alignment explanation
Indices: 17626760--17626823 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
17626750 AACTAAAATT
17626760 TATTTTTCAAAAAAA
1 TATTTTTCAAAAAAA
*
17626775 TATTTGTTC-AAATAA
1 TATTT-TTCAAAAAAA
* * * *
17626790 TCTTTTTTATAAAAT
1 TATTTTTCAAAAAAA
*
17626805 TATTTTTCAAAAAAT
1 TATTTTTCAAAAAAA
17626820 TATT
1 TATT
17626824 CGAACGGGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 33 0.87
16 3 0.08
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (15 bp):
TATTTTTCAAAAAAA
Found at i:17634042 original size:17 final size:17
Alignment explanation
Indices: 17634022--17634056 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17634012 ATGAATATAG
17634022 AGAAAAAGAA-GGAAATA
1 AGAAAAA-AATGGAAATA
17634039 AGAAAAAAATGGAAATA
1 AGAAAAAAATGGAAATA
17634056 A
1 A
17634057 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (17 bp):
AGAAAAAAATGGAAATA
Found at i:17661342 original size:17 final size:17
Alignment explanation
Indices: 17661320--17661353 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17661310 ATCCACTAAT
*
17661320 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
17661337 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
17661354 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:17665981 original size:17 final size:17
Alignment explanation
Indices: 17665959--17665992 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17665949 ATCCACTAAT
*
17665959 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
17665976 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
17665993 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:17667511 original size:3 final size:3
Alignment explanation
Indices: 17667503--17667543 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17667493 GGCGGCAATC
17667503 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
17667544 CTAGTTACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:17672417 original size:81 final size:81
Alignment explanation
Indices: 17672318--17672492 Score: 305
Period size: 81 Copynumber: 2.1 Consensus size: 81
17672308 GAAATGAATG
17672318 ACTATGTGAAAGTATATCCGATTCAGGTACGTACAAAGTGTATATGATATTCAAGAATGAAAGGT
1 ACTATGTGAAAGTATATCCGATTCAGGTACGTACAAAGTGTATATGATATTCAAGAATGAAAGGT
17672383 GAGTATGTTTCAAATA
66 GAGTATGTTTCAAATA
* *
17672399 ACTATGTGAAAGTATATCCGATTTAGGTACGTACGAAGTGTATATGATATTCAAGAATGAAAGGT
1 ACTATGTGAAAGTATATCCGATTCAGGTACGTACAAAGTGTATATGATATTCAAGAATGAAAGGT
*
17672464 GAGTATGTTTCAAATG
66 GAGTATGTTTCAAATA
17672480 ACGATATGTGAAA
1 AC--TATGTGAAA
17672493 TACATGAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
81 80 0.90
83 9 0.10
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (81 bp):
ACTATGTGAAAGTATATCCGATTCAGGTACGTACAAAGTGTATATGATATTCAAGAATGAAAGGT
GAGTATGTTTCAAATA
Found at i:17677121 original size:21 final size:21
Alignment explanation
Indices: 17677096--17677163 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
17677086 TGTTTTTGAG
17677096 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
17677117 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
17677135 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
17677157 TACTGAA
1 TACTGAA
17677164 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:17677139 original size:40 final size:40
Alignment explanation
Indices: 17677056--17677163 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
17677046 TTGAGACTGA
* * * * *
17677056 TACTGAATTGCATTATGAAATACCGAATATTGTTTTTGAG
1 TACTGAATTGAATTGTGAATTACTGAATATTGTTTATGAG
*
17677096 TACTGAATTGAATTGTGAAGTTACTGAATATTG-TTATGTG
1 TACTGAATTGAATTGTGAA-TTACTGAATATTGTTTATGAG
* *
17677136 TACTGCATTGAACTGTGAAATTACTGAA
1 TACTGAATTGAATTGTG-AATTACTGAA
17677164 GTAATGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 45 0.78
41 13 0.22
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (40 bp):
TACTGAATTGAATTGTGAATTACTGAATATTGTTTATGAG
Found at i:17677433 original size:45 final size:45
Alignment explanation
Indices: 17677366--17677462 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
17677356 GCCGACTACT
* * *
17677366 GTTACTGTTACTGATTCGACACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
* *
17677411 GTTACTGTTACAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
17677456 GTTACTG
1 GTTACTG
17677463 CTACCGTTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCGAATACTATTACC
Found at i:17680108 original size:21 final size:23
Alignment explanation
Indices: 17680084--17680140 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
17680074 TTTAAAGGTT
17680084 TTTTCTATATTTTTAAA-A-TTA
1 TTTTCTATATTTTTAAATAGTTA
* * * *
17680105 TTTTTTAAAATTTTAAATAGTTT
1 TTTTCTATATTTTTAAATAGTTA
17680128 TTTTC-ATATTTTT
1 TTTTCTATATTTTT
17680141 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
21 14 0.52
22 7 0.26
23 6 0.22
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTCTATATTTTTAAATAGTTA
Found at i:17684811 original size:22 final size:23
Alignment explanation
Indices: 17684776--17684820 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17684766 AATTTATTAA
17684776 AATAAAAAATAAATTAAAATATG
1 AATAAAAAATAAATTAAAATATG
* *
17684799 AATAAAACA-AAATTTAAATATG
1 AATAAAAAATAAATTAAAATATG
17684821 TAAATATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (23 bp):
AATAAAAAATAAATTAAAATATG
Found at i:17698596 original size:6 final size:6
Alignment explanation
Indices: 17698585--17698627 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
17698575 GAATGAAAGC
* *
17698585 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GACGTT GACGTT G
1 GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT GGCGTT G
17698628 ACGATGACGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.05, C:0.16, G:0.47, T:0.33
Consensus pattern (6 bp):
GGCGTT
Found at i:17698628 original size:6 final size:6
Alignment explanation
Indices: 17698587--17698636 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
17698577 ATGAAAGCGG
* * * * *
17698587 CGTTGG CGTTGG CGTTGG CGTTGG CGTTGA CGTTGA CGTTGA CGATGA
1 CGTTGA CGTTGA CGTTGA CGTTGA CGTTGA CGTTGA CGTTGA CGTTGA
17698635 CG
1 CG
17698637 ATGGGCGGCG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.10, C:0.18, G:0.42, T:0.30
Consensus pattern (6 bp):
CGTTGA
Found at i:17703624 original size:18 final size:18
Alignment explanation
Indices: 17703603--17703639 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17703593 TCATTAATTT
* *
17703603 TAAATTTTATTATTAAAA
1 TAAATTGTACTATTAAAA
17703621 TAAATTGTACTATTAAAA
1 TAAATTGTACTATTAAAA
17703639 T
1 T
17703640 TTTATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAATTGTACTATTAAAA
Found at i:17704845 original size:30 final size:29
Alignment explanation
Indices: 17704809--17704875 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
17704799 ATAATTTGTG
* *
17704809 AAAATTAAACCAAATCAAAATTTCATATAT
1 AAAATTAAACAAAATCAAAA-CTCATATAT
* *
17704839 AAAATTACACAAAATTAAAACTCATATAT
1 AAAATTAAACAAAATCAAAACTCATATAT
*
17704868 AATATTAA
1 AAAATTAA
17704876 CATTACATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAATTAAACAAAATCAAAACTCATATAT
Found at i:17705706 original size:3 final size:3
Alignment explanation
Indices: 17705698--17705723 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17705688 AAATATAAAT
17705698 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
17705724 TTAAGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:17709230 original size:48 final size:48
Alignment explanation
Indices: 17709159--17709366 Score: 245
Period size: 48 Copynumber: 4.3 Consensus size: 48
17709149 TCGGAATAAA
* * * * * *
17709159 AACAGATTTCTCGGTGGCTTGCACACAGTCCGTACCACCTTTGTGTAAT
1 AACAGA-TTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * *
17709208 AACAGATTCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * * *
17709256 AACCGGTTATTGGTGGCCTGCACACAATCCGTGCCACCCTTGTATCAT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * * *
17709304 TACAGAATATCAGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
*
17709352 AACAGAATATCGGTG
1 AACAGATTATCGGTG
17709367 CGCATAGTAG
Statistics
Matches: 135, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 129 0.96
49 6 0.04
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
Found at i:17711819 original size:50 final size:50
Alignment explanation
Indices: 17711697--17711945 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
17711687 GATAATAACA
* ** * *
17711697 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCCTATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
17711748 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
17711798 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
17711848 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* * *
17711903 ATGCTAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17711946 TTACCCAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
50 97 0.55
51 33 0.19
53 5 0.03
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:17712061 original size:13 final size:13
Alignment explanation
Indices: 17712040--17712071 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17712030 GCTTGGATCA
*
17712040 TCATCAAATAAAT
1 TCATAAAATAAAT
17712053 TCATAAAATAAAT
1 TCATAAAATAAAT
17712066 TCATAA
1 TCATAA
17712072 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:17740764 original size:72 final size:72
Alignment explanation
Indices: 17740678--17740820 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
17740668 GGGCTTGCAT
* ** *
17740678 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCGCTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
17740743 CTTCAAC
66 CTTCAAC
* ***
17740750 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
17740815 CTTCAA
66 CTTCAA
17740821 TAGGCTCGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:17746983 original size:16 final size:18
Alignment explanation
Indices: 17746944--17746984 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
17746934 TTAATTAATC
17746944 TATCAAATTAACTACTTT
1 TATCAAATTAACTACTTT
*
17746962 TCTCAAATTAA-TA-TTT
1 TATCAAATTAACTACTTT
17746978 TATCAAA
1 TATCAAA
17746985 ATATTCTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TATCAAATTAACTACTTT
Found at i:17749991 original size:29 final size:30
Alignment explanation
Indices: 17749938--17749997 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17749928 TCCGAGCCTT
*
17749938 GGGGCAAAAATGTAATTATGTAAAAATTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
* *
17749968 GGGGCAAAATTGTAATTTTG-AAAAAGTTA
1 GGGGCAAAAATGTAATTATGTAAAAAGTTA
17749997 G
1 G
17749998 AGTCGAGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAAGTTA
Found at i:17750225 original size:13 final size:13
Alignment explanation
Indices: 17750207--17750238 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
17750197 TTTCCAGCAA
17750207 TTATGAATTTATT
1 TTATGAATTTATT
17750220 TTATGAATTTATT
1 TTATGAATTTATT
*
17750233 TGATGA
1 TTATGA
17750239 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:17750429 original size:56 final size:51
Alignment explanation
Indices: 17750333--17750738 Score: 444
Period size: 50 Copynumber: 7.8 Consensus size: 51
17750323 ATTTGGGTAA
*
17750333 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCATG
*
17750389 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCATG
* * * *
17750445 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * *
17750495 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * * *
17750545 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
** * * *
17750595 AGAACATCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGA-GATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * * *
17750646 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
** *
17750696 AGAATATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
17750739 TGTTATTATC
Statistics
Matches: 304, Mismatches: 41, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
49 2 0.01
50 129 0.42
51 75 0.25
52 1 0.00
55 2 0.01
56 95 0.31
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
Found at i:17750652 original size:101 final size:101
Alignment explanation
Indices: 17750345--17750738 Score: 515
Period size: 101 Copynumber: 3.8 Consensus size: 101
17750335 AGATCCCATG
* * * *
17750345 TAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATGGGCA-CC---A-ATCACGAGAGATCCCATGTAAGACCAT
* * * *
17750410 GTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTG
61 GTCTAGGACATGGCGTTGGCA-CC----GA-GATGAGAGGTCCCCTA
* * *
17750457 TAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACGAGAGGTCCCATGTAAGACCATGTCTA
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAATCACGAGAGATCCCATGTAAGACCATGTCTA
17750521 GGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
66 GGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
*
17750557 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAACATCCCATGTAAGACCATGTCT
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAATCACGAG-AGATCCCATGTAAGACCATGTCT
17750621 AGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
65 AGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
*
17750658 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACGAGAATATCCCATGTAAGACCATGTCT
1 TAAGACCATGTCTGGGACATGGCATGGGCACCAATCACGAG-AGATCCCATGTAAGACCATGTCT
* *
17750722 GGGACATGGCTTTGGCA
65 AGGACATGGCGTTGGCA
17750739 TGTTATTATC
Statistics
Matches: 265, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
99 1 0.00
100 51 0.19
101 138 0.52
105 2 0.01
106 41 0.15
107 1 0.00
111 2 0.01
112 29 0.11
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (101 bp):
TAAGACCATGTCTGGGACATGGCATGGGCACCAATCACGAGAGATCCCATGTAAGACCATGTCTA
GGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTA
Found at i:17754319 original size:23 final size:23
Alignment explanation
Indices: 17754284--17754335 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
17754274 GCCTTTGACT
* *
17754284 GAACGATAATGTATTTCATTCTC
1 GAACGACAATGTATTTCATTCCC
* *
17754307 GAACGACAGTGTATTTTATTCCC
1 GAACGACAATGTATTTCATTCCC
17754330 GAACGA
1 GAACGA
17754336 GTAGTCCCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (23 bp):
GAACGACAATGTATTTCATTCCC
Found at i:17775362 original size:31 final size:30
Alignment explanation
Indices: 17775324--17775430 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 30
17775314 TTAGGAAGTC
*
17775324 CTTATTTGAGCACTTTCAAAAAGGTCTGGCT
1 CTTATTTGAGCACTTTC-AAAAGGTTTGGCT
* *
17775355 CTTATTTGAGCACTTCCCAAAAGTTTTGGC-
1 CTTATTTGAGCACTT-TCAAAAGGTTTGGCT
* *
17775385 CATTACTTGAGCACTTT-GAAAGGTTTGGCT
1 C-TTATTTGAGCACTTTCAAAAGGTTTGGCT
17775415 -TTCATTTGAGCACTTT
1 CTT-ATTTGAGCACTTT
17775431 TGTAAAGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.03
29 22 0.34
30 1 0.02
31 38 0.59
32 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
CTTATTTGAGCACTTTCAAAAGGTTTGGCT
Found at i:17775413 original size:29 final size:31
Alignment explanation
Indices: 17775374--17775440 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 31
17775364 GCACTTCCCA
*
17775374 AAAGTTTTGGCCATT-ACTTGAGCAC-TTTG-
1 AAAGGTTTGG-CATTCACTTGAGCACTTTTGT
* *
17775403 AAAGGTTTGGCTTTCATTTGAGCACTTTTGT
1 AAAGGTTTGGCATTCACTTGAGCACTTTTGT
17775434 AAAGGTT
1 AAAGGTT
17775441 AAGCCCTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 3 0.09
29 18 0.56
30 4 0.12
31 7 0.22
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (31 bp):
AAAGGTTTGGCATTCACTTGAGCACTTTTGT
Done.