Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 47 of 103
Found at i:17617863 original size:15 final size:15
Alignment explanation
Indices: 17617839--17617871 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17617829 AACACAACAC
17617839 TTTTCTTGCTCTTGAT
1 TTTTCTTGCTCTTG-T
17617855 TTTTC-TGCTCTTGT
1 TTTTCTTGCTCTTGT
17617869 TTT
1 TTT
17617872 GTTTTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.03, C:0.18, G:0.12, T:0.67
Consensus pattern (15 bp):
TTTTCTTGCTCTTGT
Found at i:17618432 original size:78 final size:78
Alignment explanation
Indices: 17618333--17618533 Score: 348
Period size: 78 Copynumber: 2.6 Consensus size: 78
17618323 CATTTTGAAA
* * *
17618333 ATTTACATATTGGCACCATTATACCTTTATGTATAATAGGAATGCCACATGCCCACTTATCACAT
1 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACAT
*
17618398 GGACCTTGATGGT
66 GAACCTTGATGGT
* *
17618411 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGTCACATGTCCACCTATCACAT
1 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACAT
17618476 GAACCTTGATGGT
66 GAACCTTGATGGT
17618489 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGC
1 ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGC
17618534 AGCATACCCA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 116 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (78 bp):
ATTTACATATTGGCATCATTATACCTTAATGTATAATAGGAATGCCACATGCCCACCTATCACAT
GAACCTTGATGGT
Found at i:17621318 original size:30 final size:30
Alignment explanation
Indices: 17621247--17621310 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
17621237 AACCATTAAT
* *
17621247 TATAAAAAATTATTTGATTTAAAATAAAAA
1 TATAAAAATTTATTTGATTAAAAATAAAAA
*
17621277 TATAAAAATTTATTTGATTAAAAATAAAAG
1 TATAAAAATTTATTTGATTAAAAATAAAAA
17621307 TATA
1 TATA
17621311 TGTATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (30 bp):
TATAAAAATTTATTTGATTAAAAATAAAAA
Found at i:17621354 original size:29 final size:30
Alignment explanation
Indices: 17621256--17621354 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
17621246 TTATAAAAAA
* * *
17621256 TTATTTGATTTAAAATAAAA-ATATAAAAAT
1 TTATTTGAATAAAAATAAAAGA-ATAAGAAT
* * * *
17621286 TTATTTGATTAAAAATAAAAGTATATGTAT
1 TTATTTGAATAAAAATAAAAGAATAAGAAT
* * *
17621316 TTAATAGAAT-ACAATAAAAGAATAAGAAT
1 TTATTTGAATAAAAATAAAAGAATAAGAAT
17621345 TTATTTGAAT
1 TTATTTGAAT
17621355 TTTTTTAATA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
29 23 0.43
30 31 0.57
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (30 bp):
TTATTTGAATAAAAATAAAAGAATAAGAAT
Found at i:17621960 original size:1 final size:1
Alignment explanation
Indices: 17621954--17621996 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
17621944 ACTCATAAGG
* ***
17621954 TTTTTTTTTTTTTTTTTTTTTTGTTTAGNTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17621997 GGTTATAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:17623555 original size:21 final size:21
Alignment explanation
Indices: 17623509--17623555 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
17623499 TCCATGGGGT
* *
17623509 TGCAGGTGAAATTCTCTCTGG
1 TGCAGGTGAAAATCTCTCAGG
*
17623530 AGCAGGTGAATAATCT-TCAGG
1 TGCAGGTGAA-AATCTCTCAGG
17623551 TGCAG
1 TGCAG
17623556 CTGCACCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (21 bp):
TGCAGGTGAAAATCTCTCAGG
Found at i:17640409 original size:14 final size:13
Alignment explanation
Indices: 17640381--17640405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17640371 AAAAATTAAG
17640381 AACAAAATTTTTA
1 AACAAAATTTTTA
17640394 AACAAAATTTTT
1 AACAAAATTTTT
17640406 TAAAAAGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AACAAAATTTTTA
Found at i:17654635 original size:43 final size:43
Alignment explanation
Indices: 17654574--17654667 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
17654564 TTTTGTGTGA
* * *
17654574 TGATGATGACCCAGCTATGTGCG-GTGTGGGAGTGCACATGAGT
1 TGATGATGACCCAACTATGTGCGAGTG-GGAAGTGCACATGAGC
*
17654617 TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCATATGAGC
1 TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
*
17654660 CGATGATG
1 TGATGATG
17654668 GTGGGATGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 42 0.93
44 3 0.07
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.24
Consensus pattern (43 bp):
TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
Found at i:17654713 original size:2 final size:2
Alignment explanation
Indices: 17654706--17654782 Score: 84
Period size: 2 Copynumber: 39.0 Consensus size: 2
17654696 ACATACATAC
* *
17654706 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
17654747 GT GT GT NT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17654783 GTGTGTTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
1 1 0.01
2 68 0.99
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17655111 original size:21 final size:21
Alignment explanation
Indices: 17655087--17655132 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
17655077 TGCAACTTCC
*
17655087 TTCTCGCTGCAGCAAGAATCT
1 TTCTCGCTGCAGCAAGAAACT
* *
17655108 TTCTTGCTGCAGCGAGAAACT
1 TTCTCGCTGCAGCAAGAAACT
17655129 TTCT
1 TTCT
17655133 GTTTTGGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCTCGCTGCAGCAAGAAACT
Found at i:17658000 original size:28 final size:28
Alignment explanation
Indices: 17657928--17658037 Score: 150
Period size: 28 Copynumber: 3.9 Consensus size: 28
17657918 GAAAGACGAG
* * *
17657928 AGGTTATG-TATGATCCTTGGAAAGTCAA
1 AGGTTATGCT-TGATCCTTGAAAAGGCTA
*
17657956 AGAAGTTCTGCTTGATCCTTGAAAAGGCTA
1 AG--GTTATGCTTGATCCTTGAAAAGGCTA
17657986 AGGTTATGCTTGATCCTTGAAAAGGCTA
1 AGGTTATGCTTGATCCTTGAAAAGGCTA
17658014 AGGTTATGCTTGATCCTTGAAAAG
1 AGGTTATGCTTGATCCTTGAAAAG
17658038 TAGTGATTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
28 51 0.69
30 22 0.30
31 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
AGGTTATGCTTGATCCTTGAAAAGGCTA
Found at i:17658000 original size:58 final size:56
Alignment explanation
Indices: 17657928--17658037 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 56
17657918 GAAAGACGAG
* * *
17657928 AGGTTATGTATGATCCTTGGAAAGTCAAAGAAGTTCTGCTTGATCCTTGAAAAGGCTA
1 AGGTTATGTATGATCCTTGAAAAGGCAAAG--GTTATGCTTGATCCTTGAAAAGGCTA
*
17657986 AGGTTATGCT-TGATCCTTGAAAAGGCTAAGGTTATGCTTGATCCTTGAAAAG
1 AGGTTATG-TATGATCCTTGAAAAGGCAAAGGTTATGCTTGATCCTTGAAAAG
17658038 TAGTGATTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
56 21 0.45
58 25 0.53
59 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (56 bp):
AGGTTATGTATGATCCTTGAAAAGGCAAAGGTTATGCTTGATCCTTGAAAAGGCTA
Found at i:17658898 original size:81 final size:81
Alignment explanation
Indices: 17658796--17658958 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
17658786 TCTTAAGCAG
*
17658796 TGGTCAAATGCAAAAAAGGTAATGTCTAGTTGTAATTTTCAATGGGGAAGCATTAAAAATACCCA
1 TGGTCAAAAGCAAAAAAGGTAATGTCTAGTTGTAATTTTCAATGGGGAAGCATTAAAAATACCCA
17658861 AAGGCAACTAATATGA
66 AAGGCAACTAATATGA
*
17658877 TGGTCAAAAGCAAAAAAGGTAATGTTTAGTTGTAATTTTCAATGGGGAAGCATTAAAAATACCCA
1 TGGTCAAAAGCAAAAAAGGTAATGTCTAGTTGTAATTTTCAATGGGGAAGCATTAAAAATACCCA
17658942 AAGGCAACTAATATGA
66 AAGGCAACTAATATGA
17658958 T
1 T
17658959 TCCAAATATA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (81 bp):
TGGTCAAAAGCAAAAAAGGTAATGTCTAGTTGTAATTTTCAATGGGGAAGCATTAAAAATACCCA
AAGGCAACTAATATGA
Found at i:17660120 original size:2 final size:2
Alignment explanation
Indices: 17660113--17660150 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
17660103 TCTTTCTAGA
17660113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17660151 GTATGTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17660155 original size:4 final size:4
Alignment explanation
Indices: 17660148--17660179 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
17660138 TATATATATA
*
17660148 TATG TATG TATG TATC TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
17660180 ATAAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:17660167 original size:16 final size:16
Alignment explanation
Indices: 17660148--17660178 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17660138 TATATATATA
17660148 TATGTATGTATGTATC
1 TATGTATGTATGTATC
17660164 TATGTATGTATGTAT
1 TATGTATGTATGTAT
17660179 GATAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (16 bp):
TATGTATGTATGTATC
Found at i:17666863 original size:71 final size:71
Alignment explanation
Indices: 17666747--17666911 Score: 303
Period size: 71 Copynumber: 2.3 Consensus size: 71
17666737 CATAACCGTG
* *
17666747 CGTGTGCACAATGTGGGGGGATGCACATACCGGTGATGACGGTGGTGAGGGAGATGAATGGTGAT
1 CGTGTGCACGATGTGGGGGGATGCACATACCGGTGATGACAGTGGTGAGGGAGATGAATGGTGAT
17666812 ATTGCC
66 ATTGCC
17666818 CGTGTGCACGATGTGGGGGGATGCACATACCGGTGATGACAGTGGTGAGGGAGATGAATGGTGAT
1 CGTGTGCACGATGTGGGGGGATGCACATACCGGTGATGACAGTGGTGAGGGAGATGAATGGTGAT
17666883 ATTGCC
66 ATTGCC
*
17666889 CGTGTGCATGATGTGGGGGGATG
1 CGTGTGCACGATGTGGGGGGATG
17666912 TACACGATGG
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.23
Consensus pattern (71 bp):
CGTGTGCACGATGTGGGGGGATGCACATACCGGTGATGACAGTGGTGAGGGAGATGAATGGTGAT
ATTGCC
Found at i:17667347 original size:40 final size:39
Alignment explanation
Indices: 17667264--17667362 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
17667254 GAGTTCTCAC
* *
17667264 TGCAGTGAGAAACTTTCTG-TTTTGCCACTTAAATTTCA
1 TGCAGCGAGAAACTTTCTGTTTTTGCCACATAAATTTCA
** *
17667302 TTGCAGCGATTAACTTTCTGTTTTTGCCTCATAAATATTGC-
1 -TGCAGCGAGAAACTTTCTGTTTTTGCCACATAAAT-TT-CA
17667343 TGCAGCGAGAAACTTTCTGT
1 TGCAGCGAGAAACTTTCTGT
17667363 CCAGCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
39 16 0.32
40 31 0.62
41 2 0.04
42 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.39
Consensus pattern (39 bp):
TGCAGCGAGAAACTTTCTGTTTTTGCCACATAAATTTCA
Found at i:17668425 original size:42 final size:42
Alignment explanation
Indices: 17668321--17668426 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
17668311 ATTAAGATAT
* * *
17668321 AGATGGATCAAAAAAGCCATCGATAGATATAAATTAGGGTTC
1 AGATGAATCAAAAAAGCCATTGATAAATATAAATTAGGGTTC
17668363 AGATGAATCAAAAAAGCCATTGATAAATATAAATTAGGGTTC
1 AGATGAATCAAAAAAGCCATTGATAAATATAAATTAGGGTTC
17668405 AGATGAATCAAAAAAGCCATTG
1 AGATGAATCAAAAAAGCCATTG
17668427 GCAGAACAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (42 bp):
AGATGAATCAAAAAAGCCATTGATAAATATAAATTAGGGTTC
Found at i:17668616 original size:25 final size:23
Alignment explanation
Indices: 17668571--17668616 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
17668561 CTTAACCAGT
17668571 TAAAGAAGAAAAGAATCATTTGG
1 TAAAGAAGAAAAGAATCATTTGG
17668594 TAAAG-AGAAGAAGAGATCTATTT
1 TAAAGAAGAA-AAGA-ATC-ATTT
17668617 ATTTGAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 3 0.15
25 4 0.20
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (23 bp):
TAAAGAAGAAAAGAATCATTTGG
Found at i:17674382 original size:43 final size:43
Alignment explanation
Indices: 17674312--17674430 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
17674302 GTAATTATAT
* **
17674312 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGTCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
* *
17674355 TGACCCGGTTATGTGCGAGTAGGGAGTGCACATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* * *
17674398 TGACCCAGCCATGTACGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
17674431 GAGTTGGTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.02
43 64 0.98
ACGTcount: A:0.24, C:0.20, G:0.36, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:17674440 original size:43 final size:43
Alignment explanation
Indices: 17674322--17674443 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
17674312 TGACTCGGCT
* **
17674322 ATGTGCGAGTAGGGAGTGCGCATAAGTCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGTCG-GTGATGACCCAGCC
* **
17674365 ATGTGCGAGTAGGGAGTGCACATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGTCGGTGATGACCCAGCC
* * *
17674408 ATGTACGAGTAGGGAGTGCGCATGAGTTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGTCGGTGATGA
17674444 TGATGATGTG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGTCGGTGATGACCCAGCC
Found at i:17674470 original size:23 final size:23
Alignment explanation
Indices: 17674440--17674499 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
17674430 TGAGTTGGTG
* * *
17674440 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
17674463 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
17674486 ATGATAATGATGGG
1 ATGATGATGATGGG
17674500 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:17680916 original size:185 final size:185
Alignment explanation
Indices: 17680604--17680971 Score: 664
Period size: 185 Copynumber: 2.0 Consensus size: 185
17680594 GATAACTGTT
**
17680604 TTGGTATGATCATACCTCTCTCTTAACCTTGTCCACAAGATCTCAAGGTCTCGAACGAATAAATA
1 TTGGTATGATCATACCTCTCTCTTAACCTCATCCACAAGATCTCAAGGTCTCGAACGAATAAATA
* *
17680669 TTGAGTCTTCGAACTCATGCAAATGATGGTGAATAGAGATCAGTGCATTCGCCTTATCTTTGCCA
66 TTGAGTCTTCGAACTCATGCAAATGATAGTGAATAGAGATCAGTGCATTCACCTTATCTTTGCCA
*
17680734 TTTGCTTTCCCATCTATAATAATTGCATTAGCAAGGCCTTACCTTTGGAGATGTC
131 TTTGCTTTCCCATCTATAATAATTGCATTAGCAAGACCTTACCTTTGGAGATGTC
* *
17680789 TTGGTATGATCATACCTCTCTCTTAACCTCATCCACAAGATCTCATGGTCTCGAACGGATAAATA
1 TTGGTATGATCATACCTCTCTCTTAACCTCATCCACAAGATCTCAAGGTCTCGAACGAATAAATA
17680854 TTGAGTCTTCGAACTCATGCAAATGATAGTGAATAGAGATCAGTGCATTCACCTTATCTTTGCCA
66 TTGAGTCTTCGAACTCATGCAAATGATAGTGAATAGAGATCAGTGCATTCACCTTATCTTTGCCA
*
17680919 TTTGCTTTCCCATCTATAATCATTGCATTAGCAAGACCTTACCTTTGGAGATG
131 TTTGCTTTCCCATCTATAATAATTGCATTAGCAAGACCTTACCTTTGGAGATG
17680972 CATATCCACA
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
185 175 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (185 bp):
TTGGTATGATCATACCTCTCTCTTAACCTCATCCACAAGATCTCAAGGTCTCGAACGAATAAATA
TTGAGTCTTCGAACTCATGCAAATGATAGTGAATAGAGATCAGTGCATTCACCTTATCTTTGCCA
TTTGCTTTCCCATCTATAATAATTGCATTAGCAAGACCTTACCTTTGGAGATGTC
Found at i:17707916 original size:43 final size:43
Alignment explanation
Indices: 17707860--17707978 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
17707850 GTAATTATAT
* * * *
17707860 TGACTCGGCTATGTGTGAGTAGGGAGTGAGCATAGGCC-GATGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAG-TGA
* * *
17707903 TGACCCGGTTATGTGCGAGTAGAGAGTGCGCATAATCCAGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGA
* *
17707946 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
17707979 GAACTGGTGA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGA
Found at i:17708016 original size:23 final size:23
Alignment explanation
Indices: 17707986--17708041 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
17707976 CATGAACTGG
17707986 TGATGATGAGACGGTGTGCATGA
1 TGATGATGAGACGGTGTGCATGA
* *
17708009 TGATGATGGGATGGTGTGCATGA
1 TGATGATGAGACGGTGTGCATGA
17708032 TGATGATGAG
1 TGATGATGAG
17708042 TATATGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.05, G:0.41, T:0.29
Consensus pattern (23 bp):
TGATGATGAGACGGTGTGCATGA
Found at i:17712438 original size:37 final size:37
Alignment explanation
Indices: 17712362--17712438 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
17712352 ACATACATCG
*
17712362 TCATCATGTGTGCACTCCCTACTCGCACACTCTATCA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCTAACA
* *
17712399 TCATCATGTGTTCACTCCCTACTCGGACACT-TCAACA
1 TCATCATGTGTGCACTCCCTACTCGCACACTCT-AACA
17712436 TCA
1 TCA
17712439 CCACCCAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.23, C:0.36, G:0.10, T:0.30
Consensus pattern (37 bp):
TCATCATGTGTGCACTCCCTACTCGCACACTCTAACA
Found at i:17714262 original size:73 final size:72
Alignment explanation
Indices: 17714106--17714267 Score: 179
Period size: 73 Copynumber: 2.2 Consensus size: 72
17714096 AACAGAGAAG
* * *
17714106 ACTTAGTCGACCAAGAAGTAAGTTAGTCGACTAAGAGCCTACTACCAAAAATCTGGACTTCAAGA
1 ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCCTACTACCAAAAATCTGGAC-TCAAGA
17714171 CAGAAACA
65 CAGAAACA
* *
17714179 ACTTAATCGACTAAGAAGGAAGTTAGTTAACTAAGAG-CTCACTACCAAAAA-CTGGGA-TCAGA
1 ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCCT-ACTACCAAAAATCT-GGACTC--A
* *
17714241 AGATAGAGACA
62 AGACAGAAACA
17714252 A-TGTAGTCGACTAAGA
1 ACT-TAGTCGACTAAGA
17714268 GCACAATTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
71 2 0.03
72 5 0.07
73 69 0.91
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.20
Consensus pattern (72 bp):
ACTTAGTCGACTAAGAAGGAAGTTAGTCAACTAAGAGCCTACTACCAAAAATCTGGACTCAAGAC
AGAAACA
Found at i:17714278 original size:20 final size:20
Alignment explanation
Indices: 17714245--17714287 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17714235 ATCAGAAGAT
*
17714245 AGAGACAATGTAGTCGACTA
1 AGAGACAATGTAGTCGACCA
17714265 AGAGCACAAT-TAGTCGACCA
1 AGAG-ACAATGTAGTCGACCA
17714285 AGA
1 AGA
17714288 TCATTTTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (20 bp):
AGAGACAATGTAGTCGACCA
Found at i:17723292 original size:73 final size:73
Alignment explanation
Indices: 17723210--17723377 Score: 196
Period size: 73 Copynumber: 2.3 Consensus size: 73
17723200 AGTCGACCAA
* * * * *
17723210 GAAGTAAGTTAGTCTACTAAGAGCTTACTGCCAAAAATTTGAACTT-TAAGACAGAAACAACTTA
1 GAAGGAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATTGGAA-TTAGAAGACAGAAACAACTTA
17723274 ATCAACTAG
65 ATCAACTAG
* * * *
17723283 GAAGGAAGTTAGTCGACTAAGAGCTCACTGTCAAAAATTGGGATTAGAAGACAGAGACAACTTAG
1 GAAGGAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATTGGAATTAGAAGACAGAAACAACTTAA
*
17723348 TCAACTAA
66 TCAACTAG
* *
17723356 G-AGCGCAGTTAGTCGACCAAGA
1 GAAG-GAAGTTAGTCGACTAAGA
17723378 TCATTCTGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
72 4 0.05
73 77 0.95
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (73 bp):
GAAGGAAGTTAGTCGACTAAGAGCTCACTGCCAAAAATTGGAATTAGAAGACAGAAACAACTTAA
TCAACTAG
Found at i:17726622 original size:108 final size:107
Alignment explanation
Indices: 17726433--17726647 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 107
17726423 TGTATACTAT
*
17726433 GTCATAAATGGTACCATTGTGTGACAAATGTAACCGTGCATGAGCTGGGTGAGATGTGGTGTCCG
1 GTCATAAATGGTACCATTGTGTGACAAATGTAACCGTGCATGAGCTGGGTGAGATGTGGTGTCCA
*
17726498 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAG
66 GCTATGTGCACAATGTGGTGGGATGCACATGAGCTGGGTGAG
17726540 NGTCATAAATGGTACCATTGTGTGACAAATGTAACCGTGCATGAGCTGGGTGAGATGTGGTGTCC
1 -GTCATAAATGGTACCATTGTGTGACAAATGTAACCGTGCATGAGCTGGGTGAGATGTGGTGTCC
17726605 AGCTATGTGCACAATGTGGTGGGATGCACATGAGCTGGGTGAG
65 AGCTATGTGCACAATGTGGTGGGATGCACATGAGCTGGGTGAG
17726648 ATATGGTGTC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.26
Consensus pattern (107 bp):
GTCATAAATGGTACCATTGTGTGACAAATGTAACCGTGCATGAGCTGGGTGAGATGTGGTGTCCA
GCTATGTGCACAATGTGGTGGGATGCACATGAGCTGGGTGAG
Found at i:17726637 original size:54 final size:54
Alignment explanation
Indices: 17726471--17726704 Score: 221
Period size: 54 Copynumber: 4.3 Consensus size: 54
17726461 TGTAACCGTG
* * *
17726471 CATGAGCTGGGTGAGATGTGGTGTCCGGCTATGTGCACGATGTGGTGGGATGCA
1 CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACAATGTGGTGGGATGCA
* * * ****
17726525 CATGAGCTGGGTGAGNGTCATAAATGGT-ACCA-TTGTGTG-ACAAATGT-AACCG-TG--
1 CATGAGCTGGGTGA--G--AT--ATGGTGTCCAGCTATGTGCAC-AATGTGGTGGGATGCA
*
17726579 CATGAGCTGGGTGAGATGTGGTGTCCAGCTATGTGCACAATGTGGTGGGATGCA
1 CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACAATGTGGTGGGATGCA
* *
17726633 CATGAGCTGGGTGAGATATGGTGTCCGGCTATGTGCACGATGTGGTGGGATGCA
1 CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACAATGTGGTGGGATGCA
* *
17726687 CATAAGCTAGGTGAGATA
1 CATGAGCTGGGTGAGATA
17726705 AAATGTTTTC
Statistics
Matches: 143, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
48 4 0.03
49 3 0.02
50 12 0.08
51 3 0.02
52 3 0.02
54 95 0.66
56 3 0.02
57 3 0.02
58 11 0.08
59 2 0.01
60 4 0.03
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (54 bp):
CATGAGCTGGGTGAGATATGGTGTCCAGCTATGTGCACAATGTGGTGGGATGCA
Found at i:17727901 original size:28 final size:29
Alignment explanation
Indices: 17727864--17727919 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
17727854 TTATCAAAAA
** * *
17727864 AAATTGAAAAGGGAGAAAGCAAAAAAATT
1 AAATTGAAAAAAGAAAAAGAAAAAAAATT
17727893 AAATT-AAAAAAGAAAAAGAAAAAAAAT
1 AAATTGAAAAAAGAAAAAGAAAAAAAAT
17727920 AAGGATCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (29 bp):
AAATTGAAAAAAGAAAAAGAAAAAAAATT
Found at i:17730284 original size:11 final size:11
Alignment explanation
Indices: 17730265--17730295 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
17730255 TTGTCGACCT
*
17730265 CAAATCTAAAG
1 CAAACCTAAAG
17730276 CAAACCTAAAG
1 CAAACCTAAAG
17730287 CAAACCTAA
1 CAAACCTAA
17730296 TCCAATATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.26, G:0.06, T:0.13
Consensus pattern (11 bp):
CAAACCTAAAG
Found at i:17745084 original size:20 final size:20
Alignment explanation
Indices: 17745056--17745093 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
17745046 TTTCTAGAAA
*
17745056 GAATTTATTGATACATTTGG
1 GAATGTATTGATACATTTGG
17745076 GAATGTATTGATACATTT
1 GAATGTATTGATACATTT
17745094 TATACAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
GAATGTATTGATACATTTGG
Found at i:17748849 original size:39 final size:39
Alignment explanation
Indices: 17748756--17748893 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
17748746 TTAACTCAGC
* * *
17748756 TCATGTGCACTCCCACACCGCACATAGC-TA-AT-ATCC
1 TCATGTGCACTCCCACACCACACATGGCATATATCATCA
17748792 TCATGTGCACTCCCACACCACACATGGCATATATCATCA
1 TCATGTGCACTCCCACACCACACATGGCATATATCATCA
* * *
17748831 TCATTTGCTCTCCCACACCGCACATGGCATATATCATCGA
1 TCATGTGCACTCCCACACCACACATGGCATATATCATC-A
* * *
17748871 -CGTGTGCTCTCCCACACAACACA
1 TCATGTGCACTCCCACACCACACA
17748894 CTATCGGCAC
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
36 26 0.30
37 2 0.02
38 2 0.02
39 57 0.65
40 1 0.01
ACGTcount: A:0.28, C:0.38, G:0.12, T:0.23
Consensus pattern (39 bp):
TCATGTGCACTCCCACACCACACATGGCATATATCATCA
Found at i:17749821 original size:20 final size:21
Alignment explanation
Indices: 17749780--17749822 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
17749770 ATGAAGAATC
**
17749780 AAGAGAAGAAAGAAAAGGGAA
1 AAGAGAAGAAAGAAAAAAGAA
17749801 AAGA-AAGAAAGAAAAAAGAA
1 AAGAGAAGAAAGAAAAAAGAA
17749821 AA
1 AA
17749823 TAGATCAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAGAAGAAAGAAAAAAGAA
Found at i:17757700 original size:28 final size:29
Alignment explanation
Indices: 17757668--17757755 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 29
17757658 TGACAACTTC
17757668 AACATTTTTGTCTTAATTTAGACAAGA-A
1 AACATTTTTGTCTTAATTTAGACAAGATA
* *
17757696 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATTTTTGTCTTAATTTAGACAAGATA
* *
17757725 AGATATTTGTTTGTCTTAATTACAGACAAGA
1 A-ACA-TT-TTTGTCTTAATT-TAGACAAGA
17757756 GTTGTCTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 25 0.51
29 2 0.04
30 2 0.04
31 1 0.02
32 11 0.22
33 8 0.16
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (29 bp):
AACATTTTTGTCTTAATTTAGACAAGATA
Found at i:17761483 original size:21 final size:21
Alignment explanation
Indices: 17761457--17761498 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17761447 TTGTTTGATG
17761457 AAAG-TTTGATGGAGATTGGAT
1 AAAGTTTTGATGG-GATTGGAT
*
17761478 AAAGTTTTGATGGGTTTGGAT
1 AAAGTTTTGATGGGATTGGAT
17761499 GGAAGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (21 bp):
AAAGTTTTGATGGGATTGGAT
Found at i:17761869 original size:8 final size:7
Alignment explanation
Indices: 17761822--17761867 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
17761812 GCCATATCTA
17761822 TTATTTT
1 TTATTTT
17761829 TTATTTT
1 TTATTTT
17761836 TTATTTT
1 TTATTTT
* *
17761843 AGATATATT
1 --TTATTTT
17761852 TTATTTT
1 TTATTTT
17761859 TTATTTT
1 TTATTTT
17761866 TT
1 TT
17761868 TAAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 28 0.85
9 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (7 bp):
TTATTTT
Found at i:17773777 original size:21 final size:21
Alignment explanation
Indices: 17773752--17773792 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17773742 CAAAAATAAT
17773752 GCCATCATTCAAAATCAAGCA
1 GCCATCATTCAAAATCAAGCA
* *
17773773 GCCATCATTCCAAGTCAAGC
1 GCCATCATTCAAAATCAAGC
17773793 GGTTGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.20
Consensus pattern (21 bp):
GCCATCATTCAAAATCAAGCA
Found at i:17777709 original size:68 final size:68
Alignment explanation
Indices: 17777547--17777862 Score: 338
Period size: 68 Copynumber: 4.7 Consensus size: 68
17777537 GCATGTTGGT
* * * * * * *
17777547 ATGATGAATGCCATAAGATTATGTGTATGATGTAAATTCCATATACCATATGAGAAGATCAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCACATGAGATGATTAAGTA
17777612 TGC
66 TGC
* * ** * *
17777615 ATGATGT-ATACTAT-ACG-ATGGCGTATATGATGTAAATTCCATATACCATATGAGGTGATTAA
1 ATGAT-TAATGCCATGA-GAAT-ATGTATATGATGTAAATTCCATATACCACATGAGATGATTAA
17777677 GTATGC
63 GTATGC
* ** *
17777683 ATGATTAATGCCATGAGAATATGTATATGATGTATATTCCATATACTGCATGAGGTGATTAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCACATGAGATGATTAAGTA
*
17777748 CGC
66 TGC
* * * *
17777751 ATGATTAAGGCCATGAGAATATGTATATGATGTATATTCCATATACTACATGAGATGATTAAGCA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCACATGAGATGATTAAGTA
*
17777816 AGC
66 TGC
* *
17777819 AT-A--AATGCCATGAGATTATGTATATGATGTAAATTTCATATACC
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACC
17777863 TTATAAGATA
Statistics
Matches: 213, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
65 36 0.17
67 4 0.02
68 170 0.80
69 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (68 bp):
ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCACATGAGATGATTAAGTA
TGC
Found at i:17778035 original size:31 final size:31
Alignment explanation
Indices: 17778000--17778070 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
17777990 ATCATAAAAT
*
17778000 GCCCAAGGTACAATGCGGATACACGTTGCCA
1 GCCCAAGGTACAATGCGGATACACATTGCCA
* * ** *
17778031 GCCCAAGGTGCAATGGGGATGTACATTGTCA
1 GCCCAAGGTACAATGCGGATACACATTGCCA
17778062 GCCCAAGGT
1 GCCCAAGGT
17778071 TGATGGGCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.18
Consensus pattern (31 bp):
GCCCAAGGTACAATGCGGATACACATTGCCA
Found at i:17780284 original size:42 final size:42
Alignment explanation
Indices: 17780229--17780400 Score: 229
Period size: 42 Copynumber: 4.1 Consensus size: 42
17780219 TGTGATAATT
* * * * *
17780229 ATGACCTAGCTATGTGCGTGTGGGAATGCACATGAGTTGATA
1 ATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTGATG
17780271 ATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTGATG
1 ATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTGATG
* *
17780313 ATGACCCAACTATGTGTG-GTGTGGAGTGTACATGAGCTGATG
1 ATGACCCAACTATGTGCGTGTG-GGAGTGCACATGAGCTGATG
* * *
17780355 ATTACCCAGCTATGTGCGAGTGGGGAGTGCACATGAGCTGATG
1 ATGACCCAACTATGTGCGTGT-GGGAGTGCACATGAGCTGATG
17780398 ATG
1 ATG
17780401 GTGGGATGGT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 3 0.03
42 88 0.77
43 23 0.20
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.26
Consensus pattern (42 bp):
ATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTGATG
Found at i:17787013 original size:19 final size:20
Alignment explanation
Indices: 17786991--17787029 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17786981 ATATTATTTT
17786991 AATATTATTATA-TCTAAAA
1 AATATTATTATATTCTAAAA
*
17787010 AATATTATTTTATTCTAAAA
1 AATATTATTATATTCTAAAA
17787030 TTTTCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTATTATATTCTAAAA
Found at i:17787141 original size:11 final size:11
Alignment explanation
Indices: 17787125--17787149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17787115 TTTAATAAAA
17787125 TATTATTATTT
1 TATTATTATTT
17787136 TATTATTATTT
1 TATTATTATTT
17787147 TAT
1 TAT
17787150 CACATAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:17798017 original size:28 final size:29
Alignment explanation
Indices: 17797976--17798035 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
17797966 GTCTATGGGC
*
17797976 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
17798004 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
17798034 AA
1 AA
17798036 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:17802555 original size:3 final size:3
Alignment explanation
Indices: 17802547--17802605 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
17802537 CGTATATACC
* * * * *
17802547 CAT CAT CAT CAT C-T CAC CAA C-C CAT CAT CAT CAT CAC CAG C-T CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
17802592 CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CA
17802606 CCAGCTCATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.25
Consensus pattern (3 bp):
CAT
Found at i:17802599 original size:23 final size:23
Alignment explanation
Indices: 17802547--17802614 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
17802537 CGTATATACC
*
17802547 CATCATCATCATC-TCACCAAC-
1 CATCATCATCATCATCACCAGCT
17802568 C--CATCATCATCATCACCAGCT
1 CATCATCATCATCATCACCAGCT
17802589 CATCATCATCATCATCACCAGCT
1 CATCATCATCATCATCACCAGCT
17802612 CAT
1 CAT
17802615 GCGCACTCCC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 10 0.24
20 7 0.17
21 2 0.05
23 23 0.55
ACGTcount: A:0.31, C:0.41, G:0.03, T:0.25
Consensus pattern (23 bp):
CATCATCATCATCATCACCAGCT
Found at i:17802614 original size:20 final size:20
Alignment explanation
Indices: 17802549--17802602 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
17802539 TATATACCCA
17802549 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAAC
* *
17802568 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAAC
17802588 TCATCATCATCATCA
1 TCATCATCATCATCA
17802603 TCACCAGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.31, C:0.41, G:0.02, T:0.26
Consensus pattern (20 bp):
TCATCATCATCATCACCAAC
Found at i:17802647 original size:43 final size:43
Alignment explanation
Indices: 17802600--17802731 Score: 167
Period size: 43 Copynumber: 3.1 Consensus size: 43
17802590 ATCATCATCA
* * ** *
17802600 TCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
*
17802643 TCATCACCGGATTATGCGCACTCCCTACTCGCACATAACCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
* * *
17802686 TCATC-CTCGGCTTATGCACACTCCCTACTCGCACATAGCCGAG
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
17802729 TCA
1 TCA
17802732 ACATAATTAC
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 77 0.99
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.22
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAACCGGG
Found at i:17806402 original size:19 final size:20
Alignment explanation
Indices: 17806375--17806420 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
17806365 AGGAGACAAG
*
17806375 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
17806394 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
17806413 ATAATATT
1 ATAATATT
17806421 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:17808254 original size:13 final size:13
Alignment explanation
Indices: 17808236--17808260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17808226 AGAGAAATTG
17808236 TGATTTTATAAAA
1 TGATTTTATAAAA
17808249 TGATTTTATAAA
1 TGATTTTATAAA
17808261 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:17818917 original size:35 final size:35
Alignment explanation
Indices: 17818849--17818918 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
17818839 AGAAGTAAAG
*
17818849 TTTTTATTTAATTTTTTCTATTTATATTATTATTT
1 TTTTTATTTAATTTTTTCTAATTATATTATTATTT
* * *
17818884 TTTTTATTTATTTTTTTTTCAATTCTATT-TTATTT
1 TTTTTATTTAATTTTTTCT-AATTATATTATTATTT
17818919 GCTCATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTTTATTTAATTTTTTCTAATTATATTATTATTT
Found at i:17832757 original size:43 final size:43
Alignment explanation
Indices: 17832699--17832858 Score: 239
Period size: 43 Copynumber: 3.7 Consensus size: 43
17832689 ACTCTCCCTC
17832699 AGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACAT
* * * **
17832742 AGCTAGGTCTTCATCAGCTCATGTTCACTCTTACACCGCACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACAT
* *
17832785 GGCTGGGTCATCATTAGCTCATGTGCACTCCAACACCGCACAT
1 AGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACAT
* *
17832828 CGCTGGGTAATCATCAGCTCATGTGCACTCC
1 AGCTGGGTCATCATCAGCTCATGTGCACTCC
17832859 TACAGCTCAT
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (43 bp):
AGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACAT
Found at i:17832845 original size:86 final size:86
Alignment explanation
Indices: 17832700--17832862 Score: 263
Period size: 86 Copynumber: 1.9 Consensus size: 86
17832690 CTCTCCCTCA
**
17832700 GCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTCTTCATCAGCTCATG
1 GCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTAATCATCAGCTCATG
* *
17832765 TTCACTCTTACACCGCACATG
66 TGCACTCCTACACCGCACATG
* * *
17832786 GCTGGGTCATCATTAGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATCAGCTCATG
1 GCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTAATCATCAGCTCATG
17832851 TGCACTCCTACA
66 TGCACTCCTACA
17832863 GCTCATGTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.25
Consensus pattern (86 bp):
GCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTAATCATCAGCTCATG
TGCACTCCTACACCGCACATG
Found at i:17832866 original size:19 final size:19
Alignment explanation
Indices: 17832842--17832881 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17832832 GGGTAATCAT
17832842 CAGCTCATGTGCACTCCTA
1 CAGCTCATGTGCACTCCTA
17832861 CAGCTCATGTGCACTCCTA
1 CAGCTCATGTGCACTCCTA
17832880 CA
1 CA
17832882 CTGCACATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.25
Consensus pattern (19 bp):
CAGCTCATGTGCACTCCTA
Found at i:17832897 original size:62 final size:62
Alignment explanation
Indices: 17832800--17832924 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
17832790 GGTCATCATT
17832800 AGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATCAGCTCATGTGCACTCCTAC
1 AGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATCAGCTCATGTGCACTCCTAC
* * * * * *
17832862 AGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCTTAC
1 AGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATCAGCTCATGTGCACTCCTAC
17832924 A
1 A
17832925 TCGCACATAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (62 bp):
AGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATCAGCTCATGTGCACTCCTAC
Found at i:17832931 original size:43 final size:42
Alignment explanation
Indices: 17832862--17832991 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 42
17832852 GCACTCCTAC
* *
17832862 AGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCATCATT
1 AGCTCATGTGCACTCTTACAC-GCACATAGCTGGGTCATCATT
*
17832905 AGCTCATGTGCACTCTTACATCGCACATAGCTGGGTCATCATC
1 AGCTCATGTGCACTCTTACA-CGCACATAGCTGGGTCATCATT
* *
17832948 AGCTCATGTGCACTCTTACACCGCACATAGTTGGGTCATAATT
1 AGCTCATGTGCACTCTTACA-CGCACATAGCTGGGTCATCATT
17832991 A
1 A
17832992 TCACACAATA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 78 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (42 bp):
AGCTCATGTGCACTCTTACACGCACATAGCTGGGTCATCATT
Found at i:17832938 original size:105 final size:105
Alignment explanation
Indices: 17832756--17832967 Score: 343
Period size: 105 Copynumber: 2.0 Consensus size: 105
17832746 AGGTCTTCAT
* *
17832756 CAGCTCATGTTCACTCTTACACCGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCCAACAC
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCCAACAC
*
17832821 CGCACATCGCTGGGTAATCATCAGCTCATGTGCACTCCTA
66 CGCACATAGCTGGGTAATCATCAGCTCATGTGCACTCCTA
* ** *
17832861 CAGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCTTACAT
1 CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCCAACAC
* *
17832926 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCTTA
66 CGCACATAGCTGGGTAATCATCAGCTCATGTGCACTCCTA
17832966 CA
1 CA
17832968 CCGCACATAG
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (105 bp):
CAGCTCATGTGCACTCCTACACCGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCCAACAC
CGCACATAGCTGGGTAATCATCAGCTCATGTGCACTCCTA
Found at i:17832983 original size:148 final size:148
Alignment explanation
Indices: 17832713--17832983 Score: 416
Period size: 148 Copynumber: 1.8 Consensus size: 148
17832703 GGGTCATCAT
* *
17832713 CAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTCTTCATCAGCTCATGTTCACTCTTACAC
1 CAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCTTACAC
* * *
17832778 CGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCCAACACCGCACATCGCTGGGTAATCATC
66 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGGGTAATCATC
17832843 AGCTCATGTGCACTCCTA
131 AGCTCATGTGCACTCCTA
* * * * * *
17832861 CAGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCATCATTAGCTCATGTGCACTCTTACAT
1 CAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCTTACAC
** *
17832926 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCTTACACCGCACATAGTTGGGT
66 CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGGGT
17832984 CATAATTATC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 109 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (148 bp):
CAGCTCATGTGCACTCCAACACCGCACATAGCTAGGTCATCATCAGCTCATGTGCACTCTTACAC
CGCACATAGCTGGGTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGGGTAATCATC
AGCTCATGTGCACTCCTA
Found at i:17835295 original size:20 final size:20
Alignment explanation
Indices: 17835270--17835310 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17835260 ATCAAATCTC
17835270 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATATAAATCA
17835290 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATATAAATCA
17835310 A
1 A
17835311 CAAGGCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTCATTTCATATAAATCA
Found at i:17842569 original size:43 final size:43
Alignment explanation
Indices: 17842505--17842681 Score: 275
Period size: 43 Copynumber: 4.1 Consensus size: 43
17842495 CCTCAGTTGA
*
17842505 GTCATCATCAGCTCATGTGCACTCCTACACCGCACAT-GACTGG
1 GTCATCATCAGCTCATGTGCACTCCAACACCGCACATAG-CTGG
* *
17842548 GTCATCATCAGCTCATATGCACTCCAACACCGCACATAGCTGA
1 GTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGG
** *
17842591 GTCATCATCAGCTCATGTGCACTCTTACACCGCACATGGCTGG
1 GTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGG
*
17842634 GTCATCATCAGCTCATGTGCACTCCAACACTGCACATAGCTGG
1 GTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGG
17842677 GTCAT
1 GTCAT
17842682 AATTATCACA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
43 120 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCATCATCAGCTCATGTGCACTCCAACACCGCACATAGCTGG
Found at i:17842647 original size:86 final size:86
Alignment explanation
Indices: 17842502--17842681 Score: 315
Period size: 86 Copynumber: 2.1 Consensus size: 86
17842492 CTCCCTCAGT
17842502 TGAGTCATCATCAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCATCATCAGCTCATATG
1 TGAGTCATCATCAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCATCATCAGCTCATATG
17842567 CACTCCAACACCGCACATAGC
66 CACTCCAACACCGCACATAGC
* * *
17842588 TGAGTCATCATCAGCTCATGTGCACTCTTACACCGCACATGGCTGGGTCATCATCAGCTCATGTG
1 TGAGTCATCATCAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCATCATCAGCTCATATG
*
17842653 CACTCCAACACTGCACATAGC
66 CACTCCAACACCGCACATAGC
*
17842674 TGGGTCAT
1 TGAGTCAT
17842682 AATTATCACA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (86 bp):
TGAGTCATCATCAGCTCATGTGCACTCCTACACCGCACATGACTGGGTCATCATCAGCTCATATG
CACTCCAACACCGCACATAGC
Found at i:17844166 original size:15 final size:15
Alignment explanation
Indices: 17844146--17844184 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17844136 TTGAAATAAA
*
17844146 ACTTTCCTTTTTAAG
1 ACTTTCCATTTTAAG
*
17844161 ACTTTCCATTTTAAT
1 ACTTTCCATTTTAAG
*
17844176 TCTTTCCAT
1 ACTTTCCAT
17844185 AATTAAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (15 bp):
ACTTTCCATTTTAAG
Found at i:17844551 original size:77 final size:76
Alignment explanation
Indices: 17844443--17844606 Score: 258
Period size: 77 Copynumber: 2.1 Consensus size: 76
17844433 ATGAATTCTC
** *
17844443 AAATTAAAATACTATCCTTAATTTTCAGAATTTTTTTTAAAGTAGGAAACAATTTCCTATTCTTT
1 AAATTAAAATACTATCCTTAATTTTCAGAATTACTGTTAAAGTAGGAAACAATTTCCTATT-TTT
17844508 ATGAATCACCCA
65 ATGAATCACCCA
* *
17844520 AAATTAAAATTCTATTCTTAATTTT-AGGAATTACTGTTAAAGTAGGAAACAATTTCCTATTTTT
1 AAATTAAAATACTATCCTTAATTTTCA-GAATTACTGTTAAAGTAGGAAACAATTTCCTATTTTT
17844584 ATGAATCACCCA
65 ATGAATCACCCA
17844596 AAATTAAAATA
1 AAATTAAAATA
17844607 AATGGCATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
76 26 0.32
77 54 0.68
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.39
Consensus pattern (76 bp):
AAATTAAAATACTATCCTTAATTTTCAGAATTACTGTTAAAGTAGGAAACAATTTCCTATTTTTA
TGAATCACCCA
Found at i:17850825 original size:3 final size:3
Alignment explanation
Indices: 17850817--17850884 Score: 77
Period size: 3 Copynumber: 22.3 Consensus size: 3
17850807 ATACTAACTC
**
17850817 AAT AAT AAT AAT AAT CTT CCAA- AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT --AAT AAT AAT AAT AAT AAT AAT AAT AAT
17850863 AAT AAT GAA- AAT AAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT AAT A
17850885 TATCATTCAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 4 0.07
3 50 0.89
4 2 0.04
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17852791 original size:13 final size:13
Alignment explanation
Indices: 17852773--17852797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17852763 TTCCAGAAAA
17852773 TTTATAAAATCAT
1 TTTATAAAATCAT
17852786 TTTATAAAATCA
1 TTTATAAAATCA
17852798 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17853974 original size:28 final size:27
Alignment explanation
Indices: 17853938--17853990 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17853928 ATATCCTGGT
*
17853938 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
17853965 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
17853991 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:17854058 original size:20 final size:20
Alignment explanation
Indices: 17854035--17854080 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
17854025 CTTCTAAACC
17854035 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
17854055 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
17854075 TCAAAT
1 TCAAAT
17854081 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:17864685 original size:13 final size:13
Alignment explanation
Indices: 17864667--17864691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17864657 TTCCAGAAAA
17864667 TTTATAAAATCAT
1 TTTATAAAATCAT
17864680 TTTATAAAATCA
1 TTTATAAAATCA
17864692 CAAGTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:17865957 original size:19 final size:19
Alignment explanation
Indices: 17865933--17865970 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17865923 ACTTCTAAAC
* *
17865933 CTCAAATCATACTTCAATA
1 CTCAAACCATACTCCAATA
17865952 CTCAAACCATACTCCAATA
1 CTCAAACCATACTCCAATA
17865971 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAACCATACTCCAATA
Found at i:17870982 original size:19 final size:19
Alignment explanation
Indices: 17870958--17870995 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17870948 ACTTCTAAAC
* *
17870958 CTCAAATCATACTTCAATA
1 CTCAAACCATACTCCAATA
17870977 CTCAAACCATACTCCAATA
1 CTCAAACCATACTCCAATA
17870996 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAACCATACTCCAATA
Found at i:17878177 original size:19 final size:19
Alignment explanation
Indices: 17878153--17878190 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17878143 ACTTCTAAAC
17878153 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
17878172 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
17878191 AGTTAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:17890042 original size:203 final size:203
Alignment explanation
Indices: 17889646--17890047 Score: 536
Period size: 203 Copynumber: 2.0 Consensus size: 203
17889636 CTTTAATGGG
* *
17889646 GAGGCTTCTAAGGTTTATTATTTATATAATTGGCTAGGTCCACTCTTCACTTCTAATGAATGGTC
1 GAGGCTTCTAAGGTTTATTATTTATATAATTGGCTAGGTCCACACTTCACTTCTAACGAATGGTC
** * * * *
17889711 TTTGCCCATTATGAGCTACCGAAAAAGGAGAAGAACGAAAAGGAAGATCTAGCCTCTACCAGTAG
66 TTTGCCCACCATGAGCAACCAAAAAAAGAGAAGAACGAAAAGGAAGATCTAGCCTCTACCAATAG
* * *
17889776 TTCTCTAATATTCTGTAACTAGAAATAACCACCTTAACGAATCAAACAAATACTCATACATGGAT
131 TTCTCTAATATTCTGTAACTAGAAATAACCACCCTAACAAATCAAACAAATACTCACACATGGAT
17889841 CTAGTGGA
196 CTAGTGGA
* * * *
17889849 GAGGCTTTTAGGGTTTATTATTTATATAATTGGCTAGGTTCACACTTTACTTCTAACGAATGGTC
1 GAGGCTTCTAAGGTTTATTATTTATATAATTGGCTAGGTCCACACTTCACTTCTAACGAATGGTC
* * * *
17889914 TTTGCCTACCGTGAGCAACCAAAAAAAGAGAAGAACGAAAAGGAAGATCTAGCTTTTACCAATAG
66 TTTGCCCACCATGAGCAACCAAAAAAAGAGAAGAACGAAAAGGAAGATCTAGCCTCTACCAATAG
** *** * * **
17889979 TTCTCTGGTAGTT-TGTAACTAGAAATGGTCACCCTAACAAATTAAATAGGTACTCACACATGGA
131 TTCTCTAATA-TTCTGTAACTAGAAATAACCACCCTAACAAATCAAACAAATACTCACACATGGA
17890043 TCTAG
195 TCTAG
17890048 GAATTAAAAA
Statistics
Matches: 170, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
203 168 0.99
204 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (203 bp):
GAGGCTTCTAAGGTTTATTATTTATATAATTGGCTAGGTCCACACTTCACTTCTAACGAATGGTC
TTTGCCCACCATGAGCAACCAAAAAAAGAGAAGAACGAAAAGGAAGATCTAGCCTCTACCAATAG
TTCTCTAATATTCTGTAACTAGAAATAACCACCCTAACAAATCAAACAAATACTCACACATGGAT
CTAGTGGA
Found at i:17892921 original size:6 final size:6
Alignment explanation
Indices: 17892907--17892966 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
17892897 CCTAACACCC
* ** ** *
17892907 CGCCTA CGCCCA CGCCCA CGCCCA CATCCA CATCCA CGCCCG CGCCCA
1 CGCCCA CGCCCA CGCCCA CGCCCA CGCCCA CGCCCA CGCCCA CGCCCA
17892955 CGCCCA CGCCCA
1 CGCCCA CGCCCA
17892967 GTGCTTCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.18, C:0.62, G:0.15, T:0.05
Consensus pattern (6 bp):
CGCCCA
Found at i:17895199 original size:17 final size:17
Alignment explanation
Indices: 17895177--17895222 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 17
17895167 AATTTATTAT
17895177 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
17895194 ATTAAAAAATTATATAAAA
1 ATT-AAAAA-TATATAAAA
*
17895213 ATAAAAAATA
1 ATTAAAAATA
17895223 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:17895207 original size:19 final size:18
Alignment explanation
Indices: 17895180--17895221 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
17895170 TTATTATATT
17895180 AAAAA-TATATAAAAATTA
1 AAAAATTATATAAAAA-TA
17895198 AAAAATTATATAAAAATA
1 AAAAATTATATAAAAATA
17895216 AAAAAT
1 AAAAAT
17895222 AATTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTATATAAAAATA
Found at i:17895226 original size:21 final size:19
Alignment explanation
Indices: 17895180--17895220 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
17895170 TTATTATATT
*
17895180 AAAAA-TATATAAAAATTA
1 AAAAATTATATAAAAATAA
17895198 AAAAATTATATAAAAATAA
1 AAAAATTATATAAAAATAA
17895217 AAAA
1 AAAA
17895221 TAATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTATATAAAAATAA
Found at i:17906056 original size:16 final size:16
Alignment explanation
Indices: 17906019--17906061 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
17906009 TTATAATATT
17906019 TAATTTA-TAATTTAA
1 TAATTTATTAATTTAA
* *
17906034 AATATTTATTATTTTAA
1 TA-ATTTATTAATTTAA
17906051 TAATTTATTAA
1 TAATTTATTAA
17906062 AAATAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.05
16 13 0.59
17 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTTATTAATTTAA
Found at i:17906094 original size:23 final size:21
Alignment explanation
Indices: 17906044--17906095 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
17906034 AATATTTATT
17906044 ATTTTAAT-AATTTATTAAAA
1 ATTTTAATAAATTTATTAAAA
** *
17906064 ATAGTAATAAATTGTTATTTAAA
1 ATTTTAATAAA-T-TTATTAAAA
17906087 ATTTTAATA
1 ATTTTAATA
17906096 TGATTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 6 0.25
21 2 0.08
22 1 0.04
23 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTTTAATAAATTTATTAAAA
Found at i:17906127 original size:26 final size:25
Alignment explanation
Indices: 17906087--17906192 Score: 74
Period size: 26 Copynumber: 4.1 Consensus size: 25
17906077 GTTATTTAAA
* *
17906087 ATTTTAATATGATTATTTAT-TTTT
1 ATTTAAATATTATTATTTATATTTT
*
17906111 ATTTTAGAATATTATTAATCTATATTTT
1 A-TTTA-AATATTATT-ATTTATATTTT
* **
17906139 ATTTAAATATTAATAATTTATAATTAA
1 ATTTAAATATT-ATTATTTAT-ATTTT
*
17906166 ATATT-AATATCATTATTT-TATTTT
1 AT-TTAAATATTATTATTTATATTTT
17906190 ATT
1 ATT
17906193 CTTTATTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
23 1 0.02
24 6 0.09
25 4 0.06
26 25 0.39
27 21 0.33
28 7 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTAAATATTATTATTTATATTTT
Found at i:17906258 original size:22 final size:22
Alignment explanation
Indices: 17906204--17906251 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
17906194 TTTATTTTTN
*
17906204 TAATTATTTATAATTTAAATAT
1 TAATAATTTATAATTTAAATAT
17906226 TAATAATTTATAA-TTAAATAT
1 TAATAATTTATAATTTAAATAT
17906247 TAATA
1 TAATA
17906252 TCATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATAATTTATAATTTAAATAT
Found at i:17906290 original size:77 final size:77
Alignment explanation
Indices: 17906139--17906290 Score: 211
Period size: 77 Copynumber: 2.0 Consensus size: 77
17906129 TCTATATTTT
** * *
17906139 ATTTAAATATTAATAATTTATAATTAAATATTAATATCATTATTTTATTTTATTCTTTATTTTTN
1 ATTTAAATATTAATAATTTATAATTAAATATTAATATCATTATTTTATTTTATTCTTTAAATATA
*
17906204 TAATTATTTATA
66 TAATAATTTATA
17906216 ATTTAAATATTAATAATTTATAATTAAATATTAATATCATTATTTTATTTTTTATT-TTTAAA-A
1 ATTTAAATATTAATAATTTATAATTAAATATTAATATCATTATTTTA--TTTTATTCTTTAAATA
17906279 TATTAA-AATTTA
64 TA-TAATAATTTA
17906291 ATTTAATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
77 53 0.79
78 7 0.10
79 7 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (77 bp):
ATTTAAATATTAATAATTTATAATTAAATATTAATATCATTATTTTATTTTATTCTTTAAATATA
TAATAATTTATA
Found at i:17906309 original size:47 final size:47
Alignment explanation
Indices: 17906258--17906362 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 47
17906248 AATATCATTA
* **
17906258 TTTTATTTTTTATTTTTAAAATATTAAAATT-TAATTTAATTTTAAAT
1 TTTTATTTTTTATTTTTAAAATA-TAAAATTAAAATTTAATTAAAAAT
** * * *
17906305 TTTTAAATATTATTTTTATAATATATAATTAAAATTTAATTAAAAAT
1 TTTTATTTTTTATTTTTAAAATATAAAATTAAAATTTAATTAAAAAT
*
17906352 TTTAATTTTTT
1 TTTTATTTTTT
17906363 TTATAATATA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
46 6 0.13
47 39 0.87
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (47 bp):
TTTTATTTTTTATTTTTAAAATATAAAATTAAAATTTAATTAAAAAT
Found at i:17906375 original size:43 final size:47
Alignment explanation
Indices: 17906267--17906381 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 47
17906257 ATTTTATTTT
* * * * *
17906267 TTATTTTTAAAATATTAAAATT-TAATTTAATTTTAAATTTTTAAATA
1 TTATTTTTATAATA-TATAATTAAAATTTAATTTAAAAATTTTAAATA
17906314 TTATTTTTATAATATATAATTAAAATTTAA-TTAAAAATTTT-AAT-
1 TTATTTTTATAATATATAATTAAAATTTAATTTAAAAATTTTAAATA
17906358 TT-TTTTTATAATATATAATTAAAA
1 TTATTTTTATAATATATAATTAAAA
17906382 ACTTAAAACC
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
43 22 0.35
44 2 0.03
45 3 0.05
46 15 0.24
47 20 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (47 bp):
TTATTTTTATAATATATAATTAAAATTTAATTTAAAAATTTTAAATA
Found at i:17919529 original size:103 final size:103
Alignment explanation
Indices: 17919346--17919577 Score: 317
Period size: 103 Copynumber: 2.3 Consensus size: 103
17919336 TGGCCACAGA
* *
17919346 AGAG-TGGGCGTTGC-GATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGCAAGCAGGGTGCT
1 AGAGTTGGGCGTTGCAG-TGCCAAAAAGATAAGGTAGCCGTACATGGGCCAGCAAGCAAGGTGCT
***
17919409 CAGTGCCAAAGAAGCAAGGTTACGGTGCCAAGGCATCAG
65 CAACACCAAAGAAGCAAGGTTACGGTGCCAAGGCATCAG
* *
17919448 AGAGTTGGGCGTTGCAGTGCCAAGAAGATGAGGTAGCCGTACATGGAG-CAGCAAGCAAGGTGCT
1 AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGG-GCCAGCAAGCAAGGTGCT
* **
17919512 TAACACCAAAGAAGCAAGGTTGTGGTGCCAAGGCATCAG
65 CAACACCAAAGAAGCAAGGTTACGGTGCCAAGGCATCAG
* *
17919551 AGAGTTGGGCGTTACAGCGCCAAAAAG
1 AGAGTTGGGCGTTGCAGTGCCAAAAAG
17919578 TGTAGGGCAT
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
102 4 0.04
103 108 0.95
104 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (103 bp):
AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGGGCCAGCAAGCAAGGTGCTC
AACACCAAAGAAGCAAGGTTACGGTGCCAAGGCATCAG
Found at i:17919651 original size:151 final size:152
Alignment explanation
Indices: 17919448--17919728 Score: 424
Period size: 151 Copynumber: 1.9 Consensus size: 152
17919438 AAGGCATCAG
* * *
17919448 AGAGTTGGGCGTTGCAGTGCCAAGAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTT
1 AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTC
* *
17919513 AACACCAAAGAAGCAAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAG
66 AACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAG
17919578 TGTAGGGCATTGTGGCCACAGA
131 TGTAGGGCATTGTGGCCACAGA
*
17919600 AGAG-TGGGCGTTGC-GATGCCAAAAAGATAAGGTAGTCGTACATGG-GCCAGCAAGCAAGGTGC
1 AGAGTTGGGCGTTGCAG-TGCCAAAAAGATAAGGTAGCCGTACATGGAG-CAGCAAGCAAGGTGC
*** * *
17919662 TCAGTGCCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAGAGAGTTGGGCGTTGCAGTGCCAAAA
64 TCAACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAA
17919727 AG
129 AG
17919729 ATGAGGTAGC
Statistics
Matches: 116, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
150 2 0.02
151 110 0.95
152 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.17
Consensus pattern (152 bp):
AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTC
AACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAG
TGTAGGGCATTGTGGCCACAGA
Found at i:17919727 original size:103 final size:103
Alignment explanation
Indices: 17919600--17919831 Score: 335
Period size: 103 Copynumber: 2.3 Consensus size: 103
17919590 TGGCCACAGA
*
17919600 AGAG-TGGGCGTTGC-GATGCCAAAAAGATAAGGTAGTCGTACATGG-GCCAGCAAGCAAGGTGC
1 AGAGTTGGGCGTTGCAG-TGCCAAAAAGATAAGGTAGCCGTACATGGAG-CAGCAAGCAAGGTGC
***
17919662 TCAGTGCCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAG
64 TCAACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAG
* *
17919702 AGAGTTGGGCGTTGCAGTGCCAAAAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTT
1 AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTC
* *
17919767 AACACCAAAGAAGCAAGGTTGTGGTGCCAAGGCATCAG
66 AACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAG
* *
17919805 AGAGTTGGGCGTTACAGCGCCAAAAAG
1 AGAGTTGGGCGTTGCAGTGCCAAAAAG
17919832 TGAAGGGCAT
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
102 4 0.03
103 111 0.95
104 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (103 bp):
AGAGTTGGGCGTTGCAGTGCCAAAAAGATAAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTC
AACACCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAG
Found at i:17919781 original size:254 final size:254
Alignment explanation
Indices: 17919332--17919841 Score: 975
Period size: 254 Copynumber: 2.0 Consensus size: 254
17919322 CAAGTAGGCA
17919332 ATTGTGGCCACAGAAGAGTGGGCGTTGCGATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGC
1 ATTGTGGCCACAGAAGAGTGGGCGTTGCGATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGC
* *
17919397 AAGCAGGGTGCTCAGTGCCAAAGAAGCAAGGTTACGGTGCCAAGGCATCAGAGAGTTGGGCGTTG
66 AAGCAAGGTGCTCAGTGCCAAAGAAGCAAGGTTACGATGCCAAGGCATCAGAGAGTTGGGCGTTG
*
17919462 CAGTGCCAAGAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTTAACACCAAAGAAGC
131 CAGTGCCAAAAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTTAACACCAAAGAAGC
*
17919527 AAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAGTGTAGGGC
196 AAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAGTGAAGGGC
17919586 ATTGTGGCCACAGAAGAGTGGGCGTTGCGATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGC
1 ATTGTGGCCACAGAAGAGTGGGCGTTGCGATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGC
*
17919651 AAGCAAGGTGCTCAGTGCCAAAGAAGCAAGGTTGCGATGCCAAGGCATCAGAGAGTTGGGCGTTG
66 AAGCAAGGTGCTCAGTGCCAAAGAAGCAAGGTTACGATGCCAAGGCATCAGAGAGTTGGGCGTTG
17919716 CAGTGCCAAAAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTTAACACCAAAGAAGC
131 CAGTGCCAAAAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTTAACACCAAAGAAGC
17919781 AAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAGTGAAGGGC
196 AAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAGTGAAGGGC
17919840 AT
1 AT
17919842 GATGCTAGCA
Statistics
Matches: 251, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
254 251 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (254 bp):
ATTGTGGCCACAGAAGAGTGGGCGTTGCGATGCCAAAAAGATAAGGTAGTCGTACATGGGCCAGC
AAGCAAGGTGCTCAGTGCCAAAGAAGCAAGGTTACGATGCCAAGGCATCAGAGAGTTGGGCGTTG
CAGTGCCAAAAAGATGAGGTAGCCGTACATGGAGCAGCAAGCAAGGTGCTTAACACCAAAGAAGC
AAGGTTGTGGTGCCAAGGCATCAGAGAGTTGGGCGTTACAGCGCCAAAAAGTGAAGGGC
Found at i:17920450 original size:2 final size:2
Alignment explanation
Indices: 17920443--17920482 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
17920433 TAAACATTAN
17920443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17920483 TAAAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17921703 original size:68 final size:68
Alignment explanation
Indices: 17921594--17921852 Score: 234
Period size: 68 Copynumber: 3.8 Consensus size: 68
17921584 GCTTACTTAT
* * * * * * * *
17921594 CTCATAAGGTACATGAAAAATATATCATACACATAATCTCATGGCATTCATCATGCTTTCTCAAT
1 CTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
17921659 CAA
66 CAA
* * * * * *
17921662 CTCATGTAGTATATGGAATATATATCATATACATAATCTCATAGCATTTATCATGCATACTGAAT
1 CTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
*
17921727 CAC
66 CAA
* * * ** * *
17921730 CTCATATGGTATATGGAGTTTACATCATATACACAATCT--TGTAATATACGTCATGCATACTTA
1 CTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCAT-T-CATCATGCATACTCA
*
17921793 ATCAT
64 ATCAA
* * * *
17921798 CTCATATGGCATATGGAATTTACATCATATACTTAAATCTTATGGCATTCATCAT
1 CTCATATGGTATATGGAATATACATCATATACAT-AATCTCATGGCATTCATCAT
17921853 ACCAAACATG
Statistics
Matches: 153, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
66 3 0.02
67 1 0.01
68 134 0.88
69 10 0.07
70 1 0.01
71 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (68 bp):
CTCATATGGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTCAAT
CAA
Found at i:17923253 original size:16 final size:17
Alignment explanation
Indices: 17923221--17923258 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17923211 GGATTCAATA
17923221 AAAATATCAAAAAAATC
1 AAAATATCAAAAAAATC
* *
17923238 GAAATAT-AAAAGAATC
1 AAAATATCAAAAAAATC
17923254 AAAAT
1 AAAAT
17923259 TTAATTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAATATCAAAAAAATC
Found at i:17926382 original size:17 final size:16
Alignment explanation
Indices: 17926354--17926393 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
17926344 TTTTATGATA
*
17926354 TTTTATTTTAAGTTTAG
1 TTTTA-TTTAAGTTAAG
17926371 TTATTATTTAAGTTAAG
1 TT-TTATTTAAGTTAAG
17926388 TTTTAT
1 TTTTAT
17926394 GTTCTTGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 14 0.67
18 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (16 bp):
TTTTATTTAAGTTAAG
Found at i:17937386 original size:21 final size:21
Alignment explanation
Indices: 17937344--17937386 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17937334 CTTGTACCGG
*
17937344 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
17937365 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
17937386 T
1 T
17937387 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:17941468 original size:57 final size:57
Alignment explanation
Indices: 17941366--17941482 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
17941356 AAGGTCTCAT
* *
17941366 CTTTGCATGCATAGCATTTATTAAATCACATAAAATAAATATATCACATGCATACTA
1 CTTTGCATGCATAACATTTATTAAATCACATAAAATAAATATATCACATGCAAACTA
* *
17941423 CTTTGCATTGCATAACATTTATTAAATTACAT-AAATAAATCTATCACATGCAAACTA
1 CTTTGCA-TGCATAACATTTATTAAATCACATAAAATAAATATATCACATGCAAACTA
17941480 CTT
1 CTT
17941483 CGGATGATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 33 0.60
58 22 0.40
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (57 bp):
CTTTGCATGCATAACATTTATTAAATCACATAAAATAAATATATCACATGCAAACTA
Found at i:17951247 original size:13 final size:13
Alignment explanation
Indices: 17951229--17951253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17951219 GGAGAAATTG
17951229 TGATTTTATAAAA
1 TGATTTTATAAAA
17951242 TGATTTTATAAA
1 TGATTTTATAAA
17951254 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:17955058 original size:22 final size:22
Alignment explanation
Indices: 17955011--17955059 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17955001 TAGCACCTTT
** * *
17955011 TCTTCAGTTTTCCAGTAGCTTT
1 TCTTCAGTTTTCCAACAACTTC
17955033 TCTTCAGTTTTCCAACAACTTC
1 TCTTCAGTTTTCCAACAACTTC
17955055 TCTTC
1 TCTTC
17955060 TTCTTCTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.08, T:0.47
Consensus pattern (22 bp):
TCTTCAGTTTTCCAACAACTTC
Found at i:17957603 original size:40 final size:38
Alignment explanation
Indices: 17957541--17957643 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
17957531 ACCCGGCTCA
* * *
17957541 TGTACATCTCCCCACATTGTGCACATAGC-CTGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACA-AGCAAT--GCCATCG
* * *
17957581 TGTGCATCCCCCCACATCGTGCACAATCAATGCTATCG
1 TGTACATCCCCCCACATCGTGCACAAGCAATGCCATCG
17957619 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
17957644 CGAGCACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
38 30 0.55
39 2 0.04
40 23 0.42
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.23
Consensus pattern (38 bp):
TGTACATCCCCCCACATCGTGCACAAGCAATGCCATCG
Found at i:17957768 original size:2 final size:2
Alignment explanation
Indices: 17957761--17957790 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17957751 CATGCATAAC
17957761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17957791 CATCATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17960841 original size:38 final size:39
Alignment explanation
Indices: 17960752--17960857 Score: 135
Period size: 38 Copynumber: 2.7 Consensus size: 39
17960742 CACACCCGGC
* *
17960752 TCATGTACATCCCCCCATATCGTGCACATAGCCGGCACCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAGG-ACCA
* *
17960792 TCATGTGCATCCCCCCACATCGTGCACA-ATCAGTG-CCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCAG-GACCA
*
17960830 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
17960858 CAGGCACTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 29 0.49
39 3 0.05
40 27 0.46
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.21
Consensus pattern (39 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCAGGACCA
Found at i:17960850 original size:19 final size:19
Alignment explanation
Indices: 17960755--17960853 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
17960745 ACCCGGCTCA
*
17960755 TGTACATCCCCCCATATCG
1 TGTACATCCCCCCACATCG
* * ** *
17960774 TGCACATAGCCGGCACCATCA
1 TGTACAT-CCCCCCA-CATCG
*
17960795 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
17960814 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
17960833 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
17960852 TG
1 TG
17960854 CACACAGGCA
Statistics
Matches: 53, Mismatches: 23, Indels: 8
0.63 0.27 0.10
Matches are distributed among these distances:
18 4 0.08
19 29 0.55
20 12 0.23
21 8 0.15
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.21
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:17963311 original size:32 final size:32
Alignment explanation
Indices: 17963225--17963366 Score: 133
Period size: 35 Copynumber: 4.2 Consensus size: 32
17963215 AATGGTTTTT
*
17963225 AAACCCAAAGTAGTTTTTCAAAGGCTCAACCA
1 AAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
* **
17963257 CAACCTTTCATAA-TGGTTTTTCATGGGCTCAACCA
1 AAACC---CA-AAGTGGTTTTTCAAAGGCTCAACCA
17963292 AAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
1 AAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
* * ** *
17963324 CAACCTACAATAATGGTTTTTCATGGGATCAACCA
1 AAACC--CAA-AGTGGTTTTTCAAAGGCTCAACCA
17963359 AAACCCAA
1 AAACCCAA
17963367 CACCTAACTC
Statistics
Matches: 89, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
31 2 0.02
32 30 0.34
33 3 0.03
34 3 0.03
35 49 0.55
36 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
AAACCCAAAGTGGTTTTTCAAAGGCTCAACCA
Found at i:17963337 original size:67 final size:67
Alignment explanation
Indices: 17963225--17963366 Score: 241
Period size: 67 Copynumber: 2.1 Consensus size: 67
17963215 AATGGTTTTT
* *
17963225 AAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTTCATAATGGTTTTTCATGGGCTCAAC
1 AAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTACATAATGGTTTTTCATGGGATCAAC
17963290 CA
66 CA
*
17963292 AAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC-TACAATAATGGTTTTTCATGGGATCAA
1 AAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTAC-ATAATGGTTTTTCATGGGATCAA
17963356 CCA
65 CCA
17963359 AAACCCAA
1 AAACCCAA
17963367 CACCTAACTC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 2 0.03
67 69 0.97
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (67 bp):
AAACCCAAAGTAGTTTTTCAAAGGCTCAACCACAACCTTACATAATGGTTTTTCATGGGATCAAC
CA
Found at i:17965261 original size:2 final size:2
Alignment explanation
Indices: 17965256--17965330 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
17965246 TATATAGCAA
17965256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
17965298 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17965331 AACACATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17966385 original size:20 final size:20
Alignment explanation
Indices: 17966360--17966399 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17966350 GGAAGAAGAA
17966360 GAAGAAGCTGCTGGAAGTTT
1 GAAGAAGCTGCTGGAAGTTT
*
17966380 GAAGAAGCTGTTGGAAGTTT
1 GAAGAAGCTGCTGGAAGTTT
17966400 TGATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.35, T:0.28
Consensus pattern (20 bp):
GAAGAAGCTGCTGGAAGTTT
Found at i:17968436 original size:2 final size:2
Alignment explanation
Indices: 17968429--17968476 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
17968419 TTTGATATCG
17968429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17968471 AT AT AT
1 AT AT AT
17968477 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17968508 original size:2 final size:2
Alignment explanation
Indices: 17968501--17968548 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
17968491 NNNNNNNNNN
17968501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17968543 AT AT AT
1 AT AT AT
17968549 GAAAATCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17972872 original size:5 final size:5
Alignment explanation
Indices: 17972864--17972891 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
17972854 TAATGCAATG
17972864 AGTTT AGTTT AGTTT AGTTT AGTTT AGT
1 AGTTT AGTTT AGTTT AGTTT AGTTT AGT
17972892 AATTAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (5 bp):
AGTTT
Found at i:17979405 original size:24 final size:25
Alignment explanation
Indices: 17979362--17979411 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
17979352 GTTGTATTTA
*
17979362 TATTAAATGTTTACATTTGGATTAT
1 TATTAAATGTTTACATTTGGAATAT
*
17979387 TATTAGATGTTTACA-TTGGAATAT
1 TATTAAATGTTTACATTTGGAATAT
17979411 T
1 T
17979412 TTTTATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (25 bp):
TATTAAATGTTTACATTTGGAATAT
Found at i:17982945 original size:19 final size:18
Alignment explanation
Indices: 17982929--17982963 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17982919 TCAAAAATCT
17982929 CGAAACTTGCTAAAAATA
1 CGAAACTTGCTAAAAATA
*
17982947 NGAAACTTGCTAAAAAT
1 CGAAACTTGCTAAAAAT
17982964 GTAGTAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.23
Consensus pattern (18 bp):
CGAAACTTGCTAAAAATA
Found at i:17985749 original size:19 final size:19
Alignment explanation
Indices: 17985725--17985770 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
17985715 TTAATATTTT
17985725 AATATTATTTTATT-AATAA
1 AATATTATTTTATTCAA-AA
17985744 AATATTATTTTATTCAAAA
1 AATATTATTTTATTCAAAA
*
17985763 AATTTTAT
1 AATATTAT
17985771 CTTGTCTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTATTTTATTCAAAA
Found at i:17990846 original size:11 final size:11
Alignment explanation
Indices: 17990830--17990855 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17990820 TTCGCAAGTG
17990830 ATAAAATAATA
1 ATAAAATAATA
17990841 ATAAAATAATA
1 ATAAAATAATA
17990852 ATAA
1 ATAA
17990856 TTTTATCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:17991401 original size:20 final size:20
Alignment explanation
Indices: 17991356--17991393 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
17991346 TTTTGGCCCC
17991356 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
17991376 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
17991394 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:17992807 original size:13 final size:13
Alignment explanation
Indices: 17992789--17992813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17992779 AGAGAAATTG
17992789 TGATTTTATAAAA
1 TGATTTTATAAAA
17992802 TGATTTTATAAA
1 TGATTTTATAAA
17992814 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18000284 original size:28 final size:29
Alignment explanation
Indices: 18000243--18000302 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
18000233 GTCTATGGGC
*
18000243 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
18000271 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
18000301 AA
1 AA
18000303 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:18005789 original size:19 final size:19
Alignment explanation
Indices: 18005762--18005799 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18005752 CCATTTAACT
*
18005762 TATTAGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
*
18005781 TATTGGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
18005800 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:18007197 original size:13 final size:13
Alignment explanation
Indices: 18007179--18007203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18007169 AGAGAAATTG
18007179 TGATTTTATAAAA
1 TGATTTTATAAAA
18007192 TGATTTTATAAA
1 TGATTTTATAAA
18007204 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18009868 original size:36 final size:35
Alignment explanation
Indices: 18009765--18009964 Score: 224
Period size: 36 Copynumber: 5.6 Consensus size: 35
18009755 CGTGAGTGTA
* * * ***
18009765 CGGTGTGGGAGTGCACATGACGGTGATGGTGGTGTG
1 CGGTGTGGGAGTGCACATGATGAT-ATTGCCATGTG
18009801 CGGTGTGGGAGTGCACACGTTGATGATATATGCCATGTG
1 CGGTGTGGGAGTGCACA---TGATGATAT-TGCCATGTG
*
18009840 CGGTGTGGGAGTGCACATGATGATATATGCCATGTA
1 CGGTGTGGGAGTGCACATGATGATAT-TGCCATGTG
*
18009876 TGGTGTGGGAGTGCACATGAT-AT-TTGCCATGTG
1 CGGTGTGGGAGTGCACATGATGATATTGCCATGTG
* * *
18009909 CGGTGTAGGAGTGCACATGAGGATATTAGCTATGTG
1 CGGTGTGGGAGTGCACATGATGATATT-GCCATGTG
18009945 CGGTGTGGGAGTGCACATGA
1 CGGTGTGGGAGTGCACATGA
18009965 GTGGAGTTGA
Statistics
Matches: 143, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
33 26 0.18
34 3 0.02
35 4 0.03
36 81 0.57
38 2 0.01
39 27 0.19
ACGTcount: A:0.20, C:0.13, G:0.39, T:0.28
Consensus pattern (35 bp):
CGGTGTGGGAGTGCACATGATGATATTGCCATGTG
Found at i:18009911 original size:69 final size:69
Alignment explanation
Indices: 18009823--18009964 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
18009813 GCACACGTTG
* * *
18009823 ATGATATATGCCATGTGCGGTGTGGGAGTGCACATGATGATA-TATGCCATGTATGGTGTGGGAG
1 ATGATATATGCCATGTGCGGTGTAGGAGTGCACATGAGGATATTA-GCCATGTACGGTGTGGGAG
18009887 TGCAC
65 TGCAC
* * *
18009892 ATGATATTTGCCATGTGCGGTGTAGGAGTGCACATGAGGATATTAGCTATGTGCGGTGTGGGAGT
1 ATGATATATGCCATGTGCGGTGTAGGAGTGCACATGAGGATATTAGCCATGTACGGTGTGGGAGT
18009957 GCAC
66 GCAC
18009961 ATGA
1 ATGA
18009965 GTGGAGTTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 64 0.97
70 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (69 bp):
ATGATATATGCCATGTGCGGTGTAGGAGTGCACATGAGGATATTAGCCATGTACGGTGTGGGAGT
GCAC
Done.