Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 58 of 126
Found at i:16982701 original size:10 final size:10
Alignment explanation
Indices: 16982662--16982707 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
16982652 TAAAAAAGGG
16982662 AAAGAAAGAAA
1 AAAG-AAGAAA
16982673 AAAGAA-AAA
1 AAAGAAGAAA
16982682 GAAA-AAGAAA
1 -AAAGAAGAAA
*
16982692 AGAGAAGAAA
1 AAAGAAGAAA
16982702 AAAGAA
1 AAAGAA
16982708 AAAGGAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 7 0.23
10 19 0.63
11 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAA
Found at i:16983727 original size:50 final size:49
Alignment explanation
Indices: 16983668--16983984 Score: 183
Period size: 50 Copynumber: 6.4 Consensus size: 49
16983658 AATAAAGGGA
* *
16983668 AAGGTTGAGGCCGCAACAACAAACCCGTTACCATAGAAGATGTGATGGG
1 AAGGTTGAGGCCGCAACGACAAACCCGGTACCATAGAAGATGTGATGGG
* ** * * * *
16983717 AAGGATTGAGGCTGCAACGGTGAATCCAGGTACCAT-GAAGATATGAAGGG
1 AAGG-TTGAGGCCGCAAC-GACAAACCCGGTACCATAGAAGATGTGATGGG
* * * * * * *
16983767 AAAGGTTGAGGCTGCAATGGCTAACCCGGTACCTTAGAAGATGTAATGGA
1 -AAGGTTGAGGCCGCAACGACAAACCCGGTACCATAGAAGATGTGATGGG
* * * * * *
16983817 AAGGATTGAGGCCGCAACGGCGAATCCGGTGCCAT-GAAGATATGAAGGG
1 AAGG-TTGAGGCCGCAACGACAAACCCGGTACCATAGAAGATGTGATGGG
* * * ** * * *
16983866 AAAGGTTGAGGCTGTAACGACGAACTTGATACCTTAAAAAGATGTGATGGG
1 -AAGGTTGAGGCCGCAACGACAAACCCGGTACCAT-AGAAGATGTGATGGG
* * * ** * *
16983917 AAGGATTGAGGCCGCAGCGAAAAATCTTGTACCAT-GGAGATATTGA-GGG
1 AAGG-TTGAGGCCGCAACGACAAACCCGGTACCATAGAAGAT-GTGATGGG
*
16983966 AAAGGTTGAAGCCGCAACG
1 -AAGGTTGAGGCCGCAACG
16983985 GCGAACCTTA
Statistics
Matches: 200, Mismatches: 57, Indels: 22
0.72 0.20 0.08
Matches are distributed among these distances:
49 69 0.34
50 85 0.43
51 46 0.23
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (49 bp):
AAGGTTGAGGCCGCAACGACAAACCCGGTACCATAGAAGATGTGATGGG
Found at i:16983793 original size:100 final size:100
Alignment explanation
Indices: 16983558--16984040 Score: 462
Period size: 100 Copynumber: 4.9 Consensus size: 100
16983548 GGAAACATAG
* * * ** *
16983558 AGATATGAAGGGAAAAGTTGAGGCCGCAACAGCGAACCCAATACCTTAGAAGACATGATGGGAAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAG
* * * *
16983623 GATCGAGGCCG-TACTGGCGGATCTA-GTACCATGGA
66 GATTGAGGCCGCAAC-GGCGAATCCAGGTACCAT-GA
** * * *
16983658 A-ATA--AAGGGAAAGGTTGAGGCCGCAACAACAAACCCGTTACCATAGAAGATGTGATGGGAAG
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAG
* *
16983720 GATTGAGGCTGCAACGGTGAATCCAGGTACCATGA
66 GATTGAGGCCGCAACGGCGAATCCAGGTACCATGA
* * * * * *
16983755 AGATATGAAGGGAAAGGTTGAGGCTGCAATGGCTAACCCGGTACCTTAGAAGATGTAATGGAAAG
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAG
*
16983820 GATTGAGGCCGCAACGGCGAATCC-GGTGCCATGA
66 GATTGAGGCCGCAACGGCGAATCCAGGTACCATGA
* * * ** *
16983854 AGATATGAAGGGAAAGGTTGAGGCTGTAACGACGAACTTGATACCTTAAAAAGATGTGATGGGAA
1 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTT-AGAAGATGTGATGGGAA
* *** ** *
16983919 GGATTGAGGCCGCAGCGAAAAAT-CTTGTACCATGG
65 GGATTGAGGCCGCAACGGCGAATCCAGGTACCATGA
* ** * *
16983954 AGATATTG-AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAG-AGATATGAAGGGAA
1 AGATA-TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
* * *
16984017 AGAGTGAGGCCGCAACGGTGAATC
65 GGATTGAGGCCGCAACGGCGAATC
16984041 TCATACCCTG
Statistics
Matches: 315, Mismatches: 59, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
97 68 0.22
98 41 0.13
99 54 0.17
100 150 0.48
101 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (100 bp):
AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAAG
GATTGAGGCCGCAACGGCGAATCCAGGTACCATGA
Found at i:16984047 original size:49 final size:49
Alignment explanation
Indices: 16983953--16984047 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
16983943 TTGTACCATG
*
16983953 GAGATATTGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTA
1 GAGATATTGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTCATACCTTA
* * *
16984002 GAGATA-TGAAGGGAAAGAG-TGAGGCCGCAACGGTGAATCTCATACC
1 GAGATATTG-AGGGAAAG-GTTGAAGCCGCAACGGCGAACCTCATACC
16984048 CTGAAGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 2 0.05
49 37 0.93
50 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (49 bp):
GAGATATTGAGGGAAAGGTTGAAGCCGCAACGGCGAACCTCATACCTTA
Found at i:16984289 original size:41 final size:42
Alignment explanation
Indices: 16984183--16984443 Score: 367
Period size: 42 Copynumber: 6.4 Consensus size: 42
16984173 AAGCTACACA
16984183 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
* *
16984225 CCAATCTCTTACCCCGATCATGGGGTAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
*
16984267 CCAATC-CTTACCCCGATCATGGGGCAAATTAAAGACATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
*
16984308 CCAATCTCTTA-CCCGATTATGGGGCAAATTGAAG-C--CAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
* * *
16984346 CCAATCTTTTACCCCGATCATAGGGCAGATTGAAGACATCAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
* * *
16984388 CCAATCTTTTACCCCGATCATGGGGTAGATTG-A-A-ATCCAT
1 CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT-CAT
16984428 CCAATCTCTTACCCCG
1 CCAATCTCTTACCCCG
16984444 TGAGTGTGTC
Statistics
Matches: 199, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
38 13 0.07
39 22 0.11
40 21 0.11
41 60 0.30
42 83 0.42
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (42 bp):
CCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACATCAT
Found at i:16985685 original size:3 final size:3
Alignment explanation
Indices: 16985677--16985702 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16985667 TATATTTATA
16985677 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
16985703 AATGAAATAG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:16986497 original size:29 final size:30
Alignment explanation
Indices: 16986449--16986509 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
16986439 TTATTTTTTG
16986449 TTAAAATTCAACCCTCTTATTTTTGTTCCTT
1 TTAAAATT-AACCCTCTTATTTTTGTTCCTT
* *
16986480 TTAAAATT-ACCCTTTTATTTTTGTTTCTT
1 TTAAAATTAACCCTCTTATTTTTGTTCCTT
16986509 T
1 T
16986510 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.57
Consensus pattern (30 bp):
TTAAAATTAACCCTCTTATTTTTGTTCCTT
Found at i:16988146 original size:27 final size:27
Alignment explanation
Indices: 16988089--16988164 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
16988079 TTAGATTAGT
* **
16988089 CCACAACCCTCTGTGAATTGAGACTGT
1 CCACGACCCTCTGTGAATTGAGACTAC
*
16988116 CCACGACCCTCTGTGAATTGGGACTAC
1 CCACGACCCTCTGTGAATTGAGACTAC
*
16988143 CCACGGCCCTCTAG-GAATTGAG
1 CCACGACCCTCT-GTGAATTGAG
16988165 GGGCTAACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
CCACGACCCTCTGTGAATTGAGACTAC
Found at i:16988357 original size:16 final size:16
Alignment explanation
Indices: 16988332--16988375 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
16988322 GATCCATTTC
16988332 AATT-TCATTTCATAT
1 AATTCTCATTTCATAT
16988347 AATTCTCATTTCATAT
1 AATTCTCATTTCATAT
*
16988363 AATTCTTATTTCA
1 AATTCTCATTTCA
16988376 ATTTTGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTCTCATTTCATAT
Found at i:16989410 original size:18 final size:18
Alignment explanation
Indices: 16989359--16989411 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 18
16989349 TGCTTTATAA
16989359 TATTAATTAATAAAAATTAT
1 TATT-ATTAATAAAAA-TAT
16989379 TACTTATT-AT---AATAT
1 TA-TTATTAATAAAAATAT
16989394 TATTATTAATAAAAATAT
1 TATTATTAATAAAAATAT
16989412 CATTTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 2 0.07
18 5 0.18
19 2 0.07
20 5 0.18
21 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTATTAATAAAAATAT
Found at i:17001945 original size:41 final size:38
Alignment explanation
Indices: 17001845--17001948 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
17001835 TTTGAAGCAA
* *
17001845 TAAAGTGACACCCAGTGTCTCATC-AGCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
17001882 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
17001920 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
17001949 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 20 0.39
38 11 0.22
40 2 0.04
41 18 0.35
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:17002076 original size:6 final size:6
Alignment explanation
Indices: 17002051--17002089 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
17002041 ACAATTCATA
* * *
17002051 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
17002090 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:17003850 original size:42 final size:42
Alignment explanation
Indices: 17003783--17003869 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 42
17003773 CAATTGTACT
** *
17003783 CTATCACTGTTCCAAATCCGATTCAAGCATGCGGATGCTACA
1 CTATCACTGTTCCAAATCCGATTCAAAAACGCGGATGCTACA
* * * * *
17003825 CTATTACTGTTTCAACTCCGGTTCAAAAACGCGGATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAAAACGCGGATGCTACA
17003867 CTA
1 CTA
17003870 ACACCACCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CTATCACTGTTCCAAATCCGATTCAAAAACGCGGATGCTACA
Found at i:17026400 original size:101 final size:102
Alignment explanation
Indices: 17026224--17026427 Score: 401
Period size: 101 Copynumber: 2.0 Consensus size: 102
17026214 ATATTAAATT
17026224 AAAATATAACAAGAAAAATATAAAAATTAAACAACATTAAAAGGTAATTAGAAATATTCTTACCA
1 AAAATATAACAAGAAAAATATAAAAATTAAACAACATTAAAAGGTAATTAGAAATATTCTTACCA
17026289 TTTGCAATTGATCAACGGAAATGAGGTTCTTATCATG
66 TTTGCAATTGATCAACGGAAATGAGGTTCTTATCATG
17026326 AAAATATAACAAG-AAAATATAAAAATTAAACAACATTAAAAGGTAATTAGAAATATTCTTACCA
1 AAAATATAACAAGAAAAATATAAAAATTAAACAACATTAAAAGGTAATTAGAAATATTCTTACCA
17026390 TTTGCAATTGATCAACGGAAATGAGGTTCTTATCATG
66 TTTGCAATTGATCAACGGAAATGAGGTTCTTATCATG
17026427 A
1 A
17026428 CGGATTAGAG
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 89 0.87
102 13 0.13
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (102 bp):
AAAATATAACAAGAAAAATATAAAAATTAAACAACATTAAAAGGTAATTAGAAATATTCTTACCA
TTTGCAATTGATCAACGGAAATGAGGTTCTTATCATG
Found at i:17027343 original size:38 final size:38
Alignment explanation
Indices: 17027285--17027441 Score: 201
Period size: 38 Copynumber: 4.2 Consensus size: 38
17027275 TAGAAAGCAT
* * * *
17027285 AAATAATTTTATTTCTTATTTTGCACATTAAAAATGTC
1 AAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
* *
17027323 AAATCATTTTCTTTCCTATTTTGCTCATTAAAAATATT
1 AAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
* * *
17027361 AAATCATTGTTTTTTCCTATTTTACACATT-AAAATTTC
1 AAATCATT-TTCTTTCCTATTTTGCACATTAAAAATATC
*
17027399 AAATCATTTTCTTT-CTATTTTGCACATTAAAAATCTC
1 AAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
17027436 AAATCA
1 AAATCA
17027442 CTAAATGGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
36 13 0.13
37 18 0.17
38 54 0.52
39 18 0.17
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.47
Consensus pattern (38 bp):
AAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
Found at i:17027440 original size:75 final size:77
Alignment explanation
Indices: 17027296--17027441 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 77
17027286 AATAATTTTA
* * * *
17027296 TTTCTTATTTTGCACATTAAAAATGTCAAATCATTTTCTTTCCTATTTTGCTCATTAAAAATATT
1 TTTCCTATTTTACACATTAAAAATGTCAAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
17027361 AAATCATTGTTT
66 AAATCATTGTTT
* *
17027373 TTTCCTATTTTACACATT-AAAATTTCAAATCATTTTCTTT-CTATTTTGCACATTAAAAATCTC
1 TTTCCTATTTTACACATTAAAAATGTCAAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
17027436 AAATCA
66 AAATCA
17027442 CTAAATGGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 26 0.41
76 21 0.33
77 16 0.25
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.47
Consensus pattern (77 bp):
TTTCCTATTTTACACATTAAAAATGTCAAATCATTTTCTTTCCTATTTTGCACATTAAAAATATC
AAATCATTGTTT
Found at i:17027833 original size:24 final size:24
Alignment explanation
Indices: 17027786--17027833 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17027776 ATGCATTTGA
* *
17027786 GATTTTATTTTTTATTATTTAATT
1 GATTTTATTTTATATTATTAAATT
17027810 GATTTTATTTTATATCTA-TAAATT
1 GATTTTATTTTATAT-TATTAAATT
17027834 TTTATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
GATTTTATTTTATATTATTAAATT
Found at i:17029627 original size:15 final size:16
Alignment explanation
Indices: 17029592--17029626 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
17029582 TAAAAGTAAA
17029592 ATTTTATCATTTTAAT
1 ATTTTATCATTTTAAT
17029608 ATTTTAT-ATTTTAAT
1 ATTTTATCATTTTAAT
17029623 -TTTT
1 ATTTT
17029627 TTGAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 8 0.42
16 7 0.37
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATCATTTTAAT
Found at i:17030315 original size:17 final size:18
Alignment explanation
Indices: 17030293--17030334 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
17030283 GAATAAATTT
*
17030293 TTAATTAAATAATGT-AA
1 TTAATTAAAAAATGTAAA
*
17030310 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAATGTAAA
17030328 TTAATTA
1 TTAATTA
17030335 CAACTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAATTAAAAAATGTAAA
Found at i:17032390 original size:17 final size:17
Alignment explanation
Indices: 17032357--17032389 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17032347 TATCCCCAAA
*
17032357 AAAATATTATTAATTTT
1 AAAATAATATTAATTTT
17032374 AAAATAATATT-ATTTT
1 AAAATAATATTAATTTT
17032390 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATAATATTAATTTT
Found at i:17036176 original size:19 final size:20
Alignment explanation
Indices: 17036149--17036189 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17036139 GATCTTATAA
*
17036149 CCGCCTCAT-CCCACCCGCC
1 CCGCATCATCCCCACCCGCC
17036168 CCGCATCATCCCCACCCGCC
1 CCGCATCATCCCCACCCGCC
17036188 CC
1 CC
17036190 ACATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.12, C:0.68, G:0.10, T:0.10
Consensus pattern (20 bp):
CCGCATCATCCCCACCCGCC
Found at i:17036221 original size:17 final size:17
Alignment explanation
Indices: 17036199--17036235 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17036189 CACATAATAT
17036199 AATAAACATATT-TAAAA
1 AATAAACAT-TTATAAAA
17036216 AATAAACATTTATAAAA
1 AATAAACATTTATAAAA
17036233 AAT
1 AAT
17036236 TTATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAACATTTATAAAA
Found at i:17036340 original size:21 final size:21
Alignment explanation
Indices: 17036308--17036348 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17036298 TCTTGTAGAT
17036308 AAATTTTTATT-AATTTAATA
1 AAATTTTTATTAAATTTAATA
17036328 AAATTTATTATTAAATTTAAT
1 AAATTT-TTATTAAATTTAAT
17036349 CTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTTATTAAATTTAATA
Found at i:17036359 original size:21 final size:20
Alignment explanation
Indices: 17036308--17036359 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
17036298 TCTTGTAGAT
*
17036308 AAATTTTTATTAATTTAATA
1 AAATATTTATTAATTTAATA
* *
17036328 AAATTTATTATTAAATTTAATC
1 AAATAT-TTATT-AATTTAATA
*
17036350 TAATATTTAT
1 AAATATTTAT
17036360 CTTAATTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 9 0.33
22 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATTTATTAATTTAATA
Found at i:17037178 original size:20 final size:20
Alignment explanation
Indices: 17037153--17037197 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
17037143 TGATTAGAAG
17037153 GTTTCTAAACATATATTAAA
1 GTTTCTAAACATATATTAAA
* *
17037173 GTTTCTAAACATATCTTGAA
1 GTTTCTAAACATATATTAAA
17037193 GTTTC
1 GTTTC
17037198 GTTAAGGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (20 bp):
GTTTCTAAACATATATTAAA
Found at i:17040273 original size:20 final size:20
Alignment explanation
Indices: 17040248--17040314 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
17040238 ACATTCATTT
17040248 AAACCAAACCCATTTAAACC
1 AAACCAAACCCATTTAAACC
17040268 AAACCAAACCCATTTAAACC
1 AAACCAAACCCATTTAAACC
* *
17040288 TAACCAAACCCATTTGAACC
1 AAACCAAACCCATTTAAACC
17040308 AAACCAA
1 AAACCAA
17040315 TTGAACCAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.15
Consensus pattern (20 bp):
AAACCAAACCCATTTAAACC
Found at i:17040292 original size:15 final size:15
Alignment explanation
Indices: 17040243--17040272 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17040233 AACCCACATT
17040243 CATTTAAACCAAACC
1 CATTTAAACCAAACC
17040258 CATTTAAACCAAACC
1 CATTTAAACCAAACC
17040273 AAACCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:17040320 original size:14 final size:15
Alignment explanation
Indices: 17040289--17040323 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17040279 ATTTAAACCT
*
17040289 AACCAAACCCATTTG
1 AACCAAACCCAATTG
17040304 AACCAAA-CCAATTG
1 AACCAAACCCAATTG
17040318 AACCAA
1 AACCAA
17040324 GTCCAACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.49, C:0.31, G:0.06, T:0.14
Consensus pattern (15 bp):
AACCAAACCCAATTG
Found at i:17040398 original size:27 final size:27
Alignment explanation
Indices: 17040365--17040425 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
17040355 GGCGTTGACC
*
17040365 GACCGTTGACTTTGAATGTTGACCATT
1 GACCGTTGACTTTGAATGTTGACCACT
* *
17040392 GATCGTTGACTTTGATTGTTGACCACT
1 GACCGTTGACTTTGAATGTTGACCACT
17040419 GACCGTT
1 GACCGTT
17040426 CCGATTGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (27 bp):
GACCGTTGACTTTGAATGTTGACCACT
Found at i:17040453 original size:13 final size:13
Alignment explanation
Indices: 17040365--17040456 Score: 55
Period size: 13 Copynumber: 7.0 Consensus size: 13
17040355 GGCGTTGACC
17040365 GACCGTTGACTTT
1 GACCGTTGACTTT
** *
17040378 GAATGTTGACCATT
1 GACCGTTGA-CTTT
*
17040392 GATCGTTGACTTT
1 GACCGTTGACTTT
** **
17040405 GATTGTTGACCACT
1 GACCGTTGA-CTTT
17040419 GACCGTTCCGA--TT
1 GACCGTT--GACTTT
17040432 GACCG-TGACTTT
1 GACCGTTGACTTT
17040444 GACCGTTGACTTT
1 GACCGTTGACTTT
17040457 TTCAAAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
10 2 0.03
12 8 0.13
13 31 0.52
14 17 0.28
16 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (13 bp):
GACCGTTGACTTT
Found at i:17041507 original size:3 final size:3
Alignment explanation
Indices: 17041499--17041529 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17041489 TAGAATATTC
17041499 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17041530 TTGGGATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17047525 original size:20 final size:20
Alignment explanation
Indices: 17047471--17047557 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
17047461 CCCATCAAGC
17047471 CCAAATCCCATTTAAACCAAA
1 CCAAA-CCCATTTAAACCAAA
* **
17047492 CCCACATTCATTTAAACCAAA
1 -CCAAACCCATTTAAACCAAA
*
17047513 CCAAACCCATTTAAACCTAA
1 CCAAACCCATTTAAACCAAA
*
17047533 CCAAAAACCCATTTGAACC-AA
1 CC--AAACCCATTTAAACCAAA
17047554 CCAA
1 CCAA
17047558 TTGAACCAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 2 0.04
20 18 0.33
21 17 0.31
22 18 0.33
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.18
Consensus pattern (20 bp):
CCAAACCCATTTAAACCAAA
Found at i:17047623 original size:20 final size:21
Alignment explanation
Indices: 17047598--17047637 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
17047588 ACCATTGACC
*
17047598 GCGTTGACCGGT-GTTGACTG
1 GCGTTGACCGATCGTTGACTG
17047618 GCGTTGACCGATCGTTGACT
1 GCGTTGACCGATCGTTGACT
17047638 TTGAATGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.12, C:0.23, G:0.35, T:0.30
Consensus pattern (21 bp):
GCGTTGACCGATCGTTGACTG
Found at i:17047654 original size:7 final size:7
Alignment explanation
Indices: 17047644--17047697 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
17047634 GACTTTGAAT
17047644 GTTGACC
1 GTTGACC
17047651 GTTGACC
1 GTTGACC
17047658 GTTGACC
1 GTTGACC
**
17047665 ACTGACC
1 GTTGACC
17047672 GTTGA-C
1 GTTGACC
* *
17047678 TTTGATC
1 GTTGACC
*
17047685 ATTGACC
1 GTTGACC
17047692 GTTGAC
1 GTTGAC
17047698 TTTTTTTGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (7 bp):
GTTGACC
Found at i:17047655 original size:20 final size:20
Alignment explanation
Indices: 17047630--17047700 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
17047620 GTTGACCGAT
*
17047630 CGTTGACTTTGAATGTTGAC
1 CGTTGACTTTGAATATTGAC
* ** *
17047650 CGTTGACCGTTGACCACTGAC
1 CGTTGA-CTTTGAATATTGAC
17047671 CGTTGACTTTG-ATCATTGAC
1 CGTTGACTTTGAAT-ATTGAC
17047691 CGTTGACTTT
1 CGTTGACTTT
17047701 TTTTGAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGACTTTGAATATTGAC
Found at i:17048749 original size:3 final size:3
Alignment explanation
Indices: 17048741--17048785 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17048731 TAGAATATTC
17048741 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17048786 GGGATGTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:17049974 original size:25 final size:25
Alignment explanation
Indices: 17049934--17050000 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
17049924 TTTCTCGAAG
*
17049934 TTTTACTAGGGAAAAATAGTCAAAA
1 TTTTACTAGGGTAAAATAGTCAAAA
*
17049959 -TTTACTGAGGGTAAAATCGTCAAAA
1 TTTTACT-AGGGTAAAATAGTCAAAA
17049984 TTTTACTAGGGTAAAAT
1 TTTTACTAGGGTAAAAT
17050001 TGGGATGAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 6 0.16
25 26 0.68
26 6 0.16
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (25 bp):
TTTTACTAGGGTAAAATAGTCAAAA
Found at i:17059333 original size:18 final size:18
Alignment explanation
Indices: 17059298--17059472 Score: 181
Period size: 18 Copynumber: 9.6 Consensus size: 18
17059288 AAGGAATAGT
* * *
17059298 ATACTGGTTCATTTGAGC
1 ATACTGGCTCGTTGGAGC
*
17059316 ATACTAGCTCGTTGGAGC
1 ATACTGGCTCGTTGGAGC
*
17059334 ATACTGGCTCGTTTGAGC
1 ATACTGGCTCGTTGGAGC
* * *
17059352 ATACTGTCTCATTTGAGC
1 ATACTGGCTCGTTGGAGC
*
17059370 ATATTGGCTCGTTGGAGC
1 ATACTGGCTCGTTGGAGC
* *
17059388 ATACTGGCTCCTTTGAGC
1 ATACTGGCTCGTTGGAGC
* *
17059406 ATATTGGCTTGTTGGAGC
1 ATACTGGCTCGTTGGAGC
*
17059424 ATACTGGCTCGTTAGAGC
1 ATACTGGCTCGTTGGAGC
*
17059442 AATACTGGCTCG-TGAGAGTG
1 -ATACTGGCTCGTTG-GAG-C
17059462 ATACTGGCTCG
1 ATACTGGCTCG
17059473 AAAGAGCGAT
Statistics
Matches: 130, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
18 105 0.81
19 25 0.19
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (18 bp):
ATACTGGCTCGTTGGAGC
Found at i:17059380 original size:54 final size:54
Alignment explanation
Indices: 17059298--17059454 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
17059288 AAGGAATAGT
*
17059298 ATACTGGT-TCATTTGAGCATACTAGCTCGTTGGAGCATACTGGCTCGTTTGAGC
1 ATACT-GTCTCATTTGAGCATACTGGCTCGTTGGAGCATACTGGCTCGTTTGAGC
* *
17059352 ATACTGTCTCATTTGAGCATATTGGCTCGTTGGAGCATACTGGCTCCTTTGAGC
1 ATACTGTCTCATTTGAGCATACTGGCTCGTTGGAGCATACTGGCTCGTTTGAGC
* * ** * *
17059406 ATATTGGCTTGTTGGAGCATACTGGCTCGTTAGAGCAATACTGGCTCGT
1 ATACTGTCTCATTTGAGCATACTGGCTCGTTGGAGC-ATACTGGCTCGT
17059455 GAGAGTGATA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
53 2 0.02
54 77 0.86
55 11 0.12
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (54 bp):
ATACTGTCTCATTTGAGCATACTGGCTCGTTGGAGCATACTGGCTCGTTTGAGC
Found at i:17059499 original size:19 final size:19
Alignment explanation
Indices: 17059312--17059500 Score: 104
Period size: 18 Copynumber: 10.3 Consensus size: 19
17059302 TGGTTCATTT
* **
17059312 GAGC-ATACTAGCTCGTTG
1 GAGCGATACTGGCTCGTAA
**
17059330 GAGC-ATACTGGCTCGTTT
1 GAGCGATACTGGCTCGTAA
* * **
17059348 GAGC-ATACTGTCTCATTT
1 GAGCGATACTGGCTCGTAA
* **
17059366 GAGC-ATATTGGCTCGTTG
1 GAGCGATACTGGCTCGTAA
* **
17059384 GAGC-ATACTGGCTCCTTT
1 GAGCGATACTGGCTCGTAA
* * **
17059402 GAGC-ATATTGGCTTGTTG
1 GAGCGATACTGGCTCGTAA
*
17059420 GAGC-ATACTGGCTCGTTA
1 GAGCGATACTGGCTCGTAA
* *
17059438 GAGCAATACTGGCTCGTGA
1 GAGCGATACTGGCTCGTAA
* *
17059457 GAGTGATACTGGCTCGAAA
1 GAGCGATACTGGCTCGTAA
*
17059476 GAGCGATACTAGCTCGTAA
1 GAGCGATACTGGCTCGTAA
17059495 GAGCGA
1 GAGCGA
17059501 CATATTGTAC
Statistics
Matches: 144, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
18 94 0.65
19 50 0.35
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (19 bp):
GAGCGATACTGGCTCGTAA
Found at i:17061682 original size:26 final size:26
Alignment explanation
Indices: 17061646--17061707 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
17061636 TGAGTTATCG
*
17061646 ACTCGCCTTGCGAGCAGGACTCGCAA
1 ACTCGCCTTGCGAGCAGGACTCACAA
* *
17061672 ACTCGCGTTGCGAGCAGGACTCACGA
1 ACTCGCCTTGCGAGCAGGACTCACAA
17061698 ACTCGCCTTG
1 ACTCGCCTTG
17061708 GACGTGAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.18
Consensus pattern (26 bp):
ACTCGCCTTGCGAGCAGGACTCACAA
Found at i:17065667 original size:24 final size:24
Alignment explanation
Indices: 17065618--17065669 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
17065608 TAATGTGTTT
* *
17065618 TAAATTACATAATATATATATATA
1 TAAATAACATAATATAAATATATA
17065642 TAAATAACATAATATAAA-ATATTA
1 TAAATAACATAATATAAATATA-TA
17065666 TAAA
1 TAAA
17065670 CTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAATAACATAATATAAATATATA
Found at i:17065851 original size:19 final size:19
Alignment explanation
Indices: 17065829--17065889 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
17065819 TGAGCAGACT
*
17065829 TTCAAATTTACTTGAATAA
1 TTCAAATTTACTTGAACAA
*
17065848 TTC-AA-TT-CCTGAACAA
1 TTCAAATTTACTTGAACAA
17065864 CTTTCAAATTTACTTGAACAA
1 --TTCAAATTTACTTGAACAA
17065885 TTCAA
1 TTCAA
17065890 TTCCTGAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 5 0.15
19 10 0.29
20 2 0.06
21 8 0.24
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (19 bp):
TTCAAATTTACTTGAACAA
Found at i:17065869 original size:18 final size:16
Alignment explanation
Indices: 17065841--17065897 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
17065831 CAAATTTACT
*
17065841 TGAATAATTCAATTCC
1 TGAACAATTCAATTCC
*
17065857 TGAACAACTTTCAAATTTACT
1 TGAACAA--TTC-AA-TT-CC
17065878 TGAACAATTCAATTCC
1 TGAACAATTCAATTCC
17065894 TGAA
1 TGAA
17065898 TAAATCTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
16 11 0.33
17 2 0.06
18 5 0.15
19 5 0.15
20 2 0.06
21 8 0.24
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (16 bp):
TGAACAATTCAATTCC
Found at i:17065876 original size:37 final size:37
Alignment explanation
Indices: 17065826--17065897 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
17065816 TTTTGAGCAG
*
17065826 ACTTTCAAATTTACTTGAATAATTCAATTCCTGAACA
1 ACTTTCAAATTTACTTGAACAATTCAATTCCTGAACA
17065863 ACTTTCAAATTTACTTGAACAATTCAATTCCTGAA
1 ACTTTCAAATTTACTTGAACAATTCAATTCCTGAA
17065898 TAAATCTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (37 bp):
ACTTTCAAATTTACTTGAACAATTCAATTCCTGAACA
Found at i:17067384 original size:73 final size:73
Alignment explanation
Indices: 17067292--17067435 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
17067282 AAATACACGA
* *
17067292 GATTATAGGACACCCATGATGTAAGTGTTAAAAAAAACTTATGTAAAGAATTTGATATTAAAACC
1 GATTATAGCACACCCATGATGTAAGTGATAAAAAAAACTTATGTAAAGAATTTGATATTAAAACC
17067357 AAATAAAG
66 AAATAAAG
*
17067365 GATTATAGCACACTCATGATGTAAGTGATAAAAAAAACTTATGTAAAGAATTTGATATTAAAACC
1 GATTATAGCACACCCATGATGTAAGTGATAAAAAAAACTTATGTAAAGAATTTGATATTAAAACC
17067430 AAATAA
66 AAATAA
17067436 GTCTTTTATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.28
Consensus pattern (73 bp):
GATTATAGCACACCCATGATGTAAGTGATAAAAAAAACTTATGTAAAGAATTTGATATTAAAACC
AAATAAAG
Found at i:17067859 original size:10 final size:10
Alignment explanation
Indices: 17067840--17067890 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
17067830 GGCTTAATTG
17067840 AATT-TTAAA
1 AATTATTAAA
17067849 AATTATTAAA
1 AATTATTAAA
*
17067859 AATGTA-TACA
1 AAT-TATTAAA
17067869 AATTATATAAA
1 AATTAT-TAAA
*
17067880 AGTTATTAAA
1 AATTATTAAA
17067890 A
1 A
17067891 TGAAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 6 0.17
10 19 0.54
11 10 0.29
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AATTATTAAA
Found at i:17072317 original size:20 final size:20
Alignment explanation
Indices: 17072292--17072337 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
17072282 GCATGATTTG
*
17072292 AATTAAGAGTAAATAG-GCTT
1 AATTAAGAGTAAA-AGAGATT
*
17072312 AATTAAGATTAAAAGAGATT
1 AATTAAGAGTAAAAGAGATT
17072332 AATTAA
1 AATTAA
17072338 AGCTTAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.30
Consensus pattern (20 bp):
AATTAAGAGTAAAAGAGATT
Found at i:17074206 original size:21 final size:20
Alignment explanation
Indices: 17074165--17074216 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
17074155 GGAGTTTTTA
17074165 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAG-AAGACTT
17074186 GTATCGGTAGAA-AAGTCACTT
1 GTATCGGTAGAAGAAG--ACTT
*
17074207 GTATAGGTAG
1 GTATCGGTAG
17074217 GAGTCTACGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
21 25 0.89
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (20 bp):
GTATCGGTAGAAGAAGACTT
Found at i:17077697 original size:21 final size:21
Alignment explanation
Indices: 17077673--17077728 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
17077663 TATAAGTAAG
* *
17077673 ACTTATATGGGTAGAAGAGTC
1 ACTTATATCGGTAGAACAGTC
* * *
17077694 ACTTCTATCGGTATAACTGTC
1 ACTTATATCGGTAGAACAGTC
*
17077715 ACTTATATCAGTAG
1 ACTTATATCGGTAG
17077729 GAGTCTGCAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (21 bp):
ACTTATATCGGTAGAACAGTC
Found at i:17080190 original size:41 final size:41
Alignment explanation
Indices: 17080075--17080316 Score: 224
Period size: 41 Copynumber: 5.9 Consensus size: 41
17080065 ATATTTGGTG
* * *
17080075 TATGAA-AAGGAAGACTCATGTCTCGGGTTGAGCATGAGA-
1 TATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
* * * *
17080114 AATCGTAAAAATGGAAGACTCATGAT-TCG-GAATGAGCATAAGAT
1 TAT-G-AATAA-GGAAGACTCATG-TCTCGAG-ATGAGAATGAGAT
*
17080158 TATGAATAAGGAAGACTCATATCTCGAGATGAGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
* * * *
17080199 TACGATTAAGGGAGACTCATGTCTCGAGATGGGAATGAGAT
1 TATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
* *
17080240 TATGATTAAGGAAGACTCATGTCTCGAGATGAGAATGAGAA
1 TATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
** * * *
17080281 TATGGTTAAAGGAAGACTTATGACTCGATA-GAGAAT
1 TATGAAT-AAGGAAGACTCATGTCTCGAGATGAGAAT
17080317 AAGGTTGTTT
Statistics
Matches: 172, Mismatches: 21, Indels: 18
0.82 0.10 0.09
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 112 0.65
42 27 0.16
43 26 0.15
44 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (41 bp):
TATGAATAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
Found at i:17086995 original size:22 final size:22
Alignment explanation
Indices: 17086966--17087013 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17086956 GGTAAGACAA
*
17086966 AATT-GAAACAAATTTGCTTTT
1 AATTAGAAACAAATTTGCTTTC
*
17086987 AATTAGAAATAAATTTGCTTTC
1 AATTAGAAACAAATTTGCTTTC
17087009 AATTA
1 AATTA
17087014 AAATTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
AATTAGAAACAAATTTGCTTTC
Found at i:17102139 original size:16 final size:16
Alignment explanation
Indices: 17102106--17102135 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17102096 TTGTAGTAAA
17102106 AAATATAAGAGGAGAG
1 AAATATAAGAGGAGAG
17102122 AAATATAA-AGGAGA
1 AAATATAAGAGGAGA
17102136 AGAAGAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (16 bp):
AAATATAAGAGGAGAG
Found at i:17102750 original size:34 final size:36
Alignment explanation
Indices: 17102707--17102775 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
17102697 TTAATAATTT
17102707 ACCTTTC-TTT-CTATTTTTTCAATCCAAGAAGACA
1 ACCTTTCTTTTACTATTTTTTCAATCCAAGAAGACA
*
17102741 ACCTTTCTTTTATTATTTTTTCAATCCAAGAAGAC
1 ACCTTTCTTTTACTATTTTTTCAATCCAAGAAGAC
17102776 GAAGCGAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 7 0.22
35 3 0.09
36 22 0.69
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (36 bp):
ACCTTTCTTTTACTATTTTTTCAATCCAAGAAGACA
Found at i:17121109 original size:40 final size:40
Alignment explanation
Indices: 17120998--17121123 Score: 139
Period size: 40 Copynumber: 3.1 Consensus size: 40
17120988 GTGGAAAGAA
* * * **
17120998 TCAAGCTACAACTTAGTC-GGCTATGAGCCAATGTTAAAGT
1 TCAAGCTACAGCTTAG-CAGGCTATAAGTCGGTGTTAAAGT
*
17121038 TCAAGCTACAGCTTAGCAGGTTATAAGTCGGTGTTAAAGT
1 TCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGTTAAAGT
* * *
17121078 TCAAGCTACGGCTTAGTAGGCTATGAA-TCGGTGTTAAAAT
1 TCAAGCTACAGCTTAGCAGGCTAT-AAGTCGGTGTTAAAGT
17121118 TCAAGC
1 TCAAGC
17121124 CAAGTCATGG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 71 0.96
41 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (40 bp):
TCAAGCTACAGCTTAGCAGGCTATAAGTCGGTGTTAAAGT
Found at i:17124730 original size:24 final size:24
Alignment explanation
Indices: 17124699--17124773 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
17124689 AGTTTGACTC
*
17124699 AAACAAATAAACATAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
17124723 AAATAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
17124747 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
17124771 AAA
1 AAA
17124774 GATTATTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:17126647 original size:27 final size:27
Alignment explanation
Indices: 17126616--17126705 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
17126606 ACACGCTAAA
17126616 AAATGGAAGCCTTTGTGGCGATCAATG
1 AAATGGAAGCCTTTGTGGCGATCAATG
*
17126643 AAATGGAAGCCTTTGTGGTGATCAATG
1 AAATGGAAGCCTTTGTGGCGATCAATG
* * * *
17126670 AAATGGAAGCCTTTATGCCAATCTATG
1 AAATGGAAGCCTTTGTGGCGATCAATG
17126697 AAATGGAAG
1 AAATGGAAG
17126706 ATGAAGGAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCGATCAATG
Found at i:17132342 original size:31 final size:31
Alignment explanation
Indices: 17132307--17132368 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17132297 TCTTCCTTCT
17132307 TCACTTCTCTTATCCTTACTTATTACTCACC
1 TCACTTCTCTTATCCTTACTTATTACTCACC
17132338 TCACTTCTCTTATCCTTACTTATTACTCACC
1 TCACTTCTCTTATCCTTACTTATTACTCACC
17132369 CAAACCTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.45
Consensus pattern (31 bp):
TCACTTCTCTTATCCTTACTTATTACTCACC
Found at i:17133707 original size:73 final size:73
Alignment explanation
Indices: 17133502--17133709 Score: 236
Period size: 73 Copynumber: 2.8 Consensus size: 73
17133492 AATAGGACTG
* * * * * * * *
17133502 AGACCATAGCTGAAAGATGCTATGCCATCCTTTGATAGTCTGTCGGGACAATAAACACGAGGTTA
1 AGACCATAGCTGGAAGACGCTATGGCAT-CATAGATAGTCCGTCGGGACAATAAACATGGGGTTA
* *
17133567 TATTGAGTA
65 TATTAACTA
* * * ** * * *
17133576 AGACCATAACTTGAAGACGTTATGGCATCATAGATAGTCCGTCGATATAGTAACCATGGGGTTAT
1 AGACCATAGCTGGAAGACGCTATGGCATCATAGATAGTCCGTCGGGACAATAAACATGGGGTTAT
17133641 ATTAACTA
66 ATTAACTA
*
17133649 AGACCATAGCTGGAAGACGCTATGGCATCATAGATAGTCCGTCGGGGCAATAAACATGGGG
1 AGACCATAGCTGGAAGACGCTATGGCATCATAGATAGTCCGTCGGGACAATAAACATGGGG
17133710 ACCACGAGGT
Statistics
Matches: 107, Mismatches: 27, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
73 85 0.79
74 22 0.21
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (73 bp):
AGACCATAGCTGGAAGACGCTATGGCATCATAGATAGTCCGTCGGGACAATAAACATGGGGTTAT
ATTAACTA
Found at i:17147040 original size:36 final size:37
Alignment explanation
Indices: 17146978--17147052 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 37
17146968 TCTCTATTTT
*
17146978 AATTGAACTTCATTGCTTTATTGGTATTTAAAGATAC
1 AATTGAACTTAATTGCTTTATTGGTATTTAAAGATAC
**
17147015 AATTGAACTTAA-TG-TCTTATTGGTATTTTTAGATAC
1 AATTGAACTTAATTGCT-TTATTGGTATTTAAAGATAC
17147051 AA
1 AA
17147053 GTGATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 1 0.03
36 22 0.65
37 11 0.32
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.44
Consensus pattern (37 bp):
AATTGAACTTAATTGCTTTATTGGTATTTAAAGATAC
Found at i:17147585 original size:20 final size:21
Alignment explanation
Indices: 17147527--17147587 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
17147517 TTTTGAAACA
* *
17147527 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAACCAAGTCAAAATG
*
17147549 ATTTTAAACAAAG-CAAAATG
1 ATTTTAAACCAAGTCAAAATG
*
17147569 A-TTTCAACCAAGTCAAAAT
1 ATTTTAAACCAAGTCAAAAT
17147588 CAATTTAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 9 0.27
20 13 0.39
21 6 0.18
22 5 0.15
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (21 bp):
ATTTTAAACCAAGTCAAAATG
Found at i:17158941 original size:51 final size:50
Alignment explanation
Indices: 17158846--17159059 Score: 234
Period size: 52 Copynumber: 4.2 Consensus size: 50
17158836 TTTGCGTTTG
*
17158846 ATACTCACAATGACACAG-AGTCATCGGACCTCTAATCTG-AAATGGATTCAT
1 ATACTCACAATGACAC-GTAGTCATCGGACCT-TAATCCGTAAA-GGATTCAT
* * * * *
17158897 ATACTCACAATGACACGTAGTCATTGGACTCTTAACCCGCAATGGAATCAT
1 ATACTCACAATGACACGTAGTCATCGGAC-CTTAATCCGTAAAGGATTCAT
* * *
17158948 ATACTTACGATGACACGTAGTCATCGGACCATTTAATCCGTAAAGAATTCAT
1 ATACTCACAATGACACGTAGTCATCGGACC--TTAATCCGTAAAGGATTCAT
* * *
17159000 ATACTCACGATGAGATGTAGTCATCGGACCACTTAATCCGTAAAGGATTCAT
1 ATACTCACAATGACACGTAGTCATCGGA-C-CTTAATCCGTAAAGGATTCAT
17159052 ATACTCAC
1 ATACTCAC
17159060 CATTTGCTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.01
51 64 0.46
52 71 0.51
53 1 0.01
54 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (50 bp):
ATACTCACAATGACACGTAGTCATCGGACCTTAATCCGTAAAGGATTCAT
Found at i:17160660 original size:13 final size:13
Alignment explanation
Indices: 17160642--17160668 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17160632 TGTTGAGCTT
17160642 AGGCGCAGATGGC
1 AGGCGCAGATGGC
17160655 AGGCGCAGATGGC
1 AGGCGCAGATGGC
17160668 A
1 A
17160669 ATGGAATCTC
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:0.26, C:0.22, G:0.44, T:0.07
Consensus pattern (13 bp):
AGGCGCAGATGGC
Found at i:17170030 original size:19 final size:19
Alignment explanation
Indices: 17169986--17170026 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
17169976 AGGTTAAATG
17169986 TCAATGTACTGAAAGAAAA
1 TCAATGTACTGAAAGAAAA
17170005 TCAATGT-CTGAAAGAAAA
1 TCAATGTACTGAAAGAAAA
17170023 TCAA
1 TCAA
17170027 ATGTGTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (19 bp):
TCAATGTACTGAAAGAAAA
Found at i:17172302 original size:3 final size:3
Alignment explanation
Indices: 17172294--17172329 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
17172284 TTTCTTTGTG
17172294 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
17172330 GTCTTTACGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:17172665 original size:22 final size:21
Alignment explanation
Indices: 17172640--17172688 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
17172630 CTCGGCAGGG
17172640 TCCTTCTCTTCAT-TTCTCTTCT
1 TCCTTCTCTTCATCTTC-CTT-T
*
17172662 TCCTTCTCTTCTTCTTCCTTT
1 TCCTTCTCTTCATCTTCCTTT
17172683 TCCTTC
1 TCCTTC
17172689 AACTGGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (21 bp):
TCCTTCTCTTCATCTTCCTTT
Found at i:17172670 original size:12 final size:12
Alignment explanation
Indices: 17172640--17172688 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 12
17172630 CTCGGCAGGG
*
17172640 TCCTTCTCTTCA
1 TCCTTCTCTTCT
17172652 T--TTCTCTTCT
1 TCCTTCTCTTCT
17172662 TCCTTCTCTTCT
1 TCCTTCTCTTCT
17172674 T-CTTC-CTT-T
1 TCCTTCTCTTCT
17172683 TCCTTC
1 TCCTTC
17172689 AACTGGTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
9 2 0.06
10 16 0.48
11 4 0.12
12 11 0.33
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (12 bp):
TCCTTCTCTTCT
Found at i:17174546 original size:20 final size:21
Alignment explanation
Indices: 17174521--17174559 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17174511 GCAAGGAATT
17174521 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
17174541 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
17174560 TAGAAAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:17178265 original size:14 final size:14
Alignment explanation
Indices: 17178246--17178291 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
17178236 ACAACTGGGT
17178246 ATCTACACAAGAGC
1 ATCTACACAAGAGC
17178260 ATCT--ACAAGAG-
1 ATCTACACAAGAGC
* *
17178271 GTCTGCACAAGAGC
1 ATCTACACAAGAGC
17178285 ATCTACA
1 ATCTACA
17178292 AGAGGTATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 7 0.27
14 9 0.35
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (14 bp):
ATCTACACAAGAGC
Found at i:17178269 original size:12 final size:12
Alignment explanation
Indices: 17178252--17178295 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
17178242 GGGTATCTAC
17178252 ACAAGAGCATCT
1 ACAAGAGCATCT
*
17178264 ACAAGAG-GTCT
1 ACAAGAGCATCT
17178275 GCACAAGAGCATCT
1 --ACAAGAGCATCT
17178289 ACAAGAG
1 ACAAGAG
17178296 GTATGTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 14 0.52
13 7 0.26
14 3 0.11
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (12 bp):
ACAAGAGCATCT
Found at i:17180595 original size:13 final size:14
Alignment explanation
Indices: 17180577--17180606 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17180567 GTCAATGCAA
17180577 TCAGAG-TTAAATG
1 TCAGAGTTTAAATG
17180590 TCAGAGTTTAAATG
1 TCAGAGTTTAAATG
17180604 TCA
1 TCA
17180607 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (14 bp):
TCAGAGTTTAAATG
Found at i:17184888 original size:18 final size:19
Alignment explanation
Indices: 17184855--17184891 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
17184845 TTCACATACA
*
17184855 ATATTGATAGTGCTTCAAT
1 ATATTGATACTGCTTCAAT
17184874 ATATTGAT-CTGCTTCAAT
1 ATATTGATACTGCTTCAAT
17184892 TACATCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (19 bp):
ATATTGATACTGCTTCAAT
Found at i:17195095 original size:24 final size:24
Alignment explanation
Indices: 17195063--17195113 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
17195053 AACCAACTAG
17195063 TAATGAGTTAGAAAATATAAAAAC
1 TAATGAGTTAGAAAATATAAAAAC
17195087 TAATGAGTTAGAAAATATAAAAAC
1 TAATGAGTTAGAAAATATAAAAAC
17195111 TAA
1 TAA
17195114 GTATGAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (24 bp):
TAATGAGTTAGAAAATATAAAAAC
Found at i:17196084 original size:17 final size:17
Alignment explanation
Indices: 17196062--17196101 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17196052 GAAATGCAAT
* *
17196062 GACAATATAGATGTAGC
1 GACAATAAAAATGTAGC
*
17196079 GACAATAAAAATGTAGG
1 GACAATAAAAATGTAGC
17196096 GACAAT
1 GACAAT
17196102 TATACACAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (17 bp):
GACAATAAAAATGTAGC
Found at i:17200510 original size:38 final size:37
Alignment explanation
Indices: 17200468--17200554 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 37
17200458 TGCATGAGCA
*
17200468 CTTCAGATTGCAGCCAAAACTGTAGCT-ACATAAATATT
1 CTTCA-ATTGCAGCCAAAACTATAGCTGA-ATAAATATT
* * *
17200506 CTTCAAATTGCATCCAAAACTATTGCTGAATAAGTATT
1 CTTC-AATTGCAGCCAAAACTATAGCTGAATAAATATT
17200544 CTTCAATTGCA
1 CTTCAATTGCA
17200555 CCCAGGAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 7 0.16
38 34 0.79
39 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (37 bp):
CTTCAATTGCAGCCAAAACTATAGCTGAATAAATATT
Found at i:17212601 original size:35 final size:35
Alignment explanation
Indices: 17212558--17212624 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
17212548 TATCTAAGAT
17212558 GGGTAGATAATTCGTGCATCTAACCATTTGATATG
1 GGGTAGATAATTCGTGCATCTAACCATTTGATATG
17212593 GGGTAGATAATTCGTGCATCTAACCATTTGAT
1 GGGTAGATAATTCGTGCATCTAACCATTTGAT
17212625 CACTTCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (35 bp):
GGGTAGATAATTCGTGCATCTAACCATTTGATATG
Found at i:17223117 original size:13 final size:12
Alignment explanation
Indices: 17223095--17223129 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
17223085 GTTCAATAAG
17223095 AAAAAGAAAAGA
1 AAAAAGAAAAGA
17223107 AAAAGAGAAAAGAA
1 AAAA-AGAAAAG-A
17223121 AAAAAGAAA
1 AAAAAGAAA
17223130 TATTGCTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 12 0.57
14 5 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:17251679 original size:4 final size:4
Alignment explanation
Indices: 17251670--17251699 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
17251660 ATACTAAAAA
17251670 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
17251700 TCAAATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:17255470 original size:20 final size:18
Alignment explanation
Indices: 17255447--17255486 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17255437 TTCATTCTTG
17255447 TTTTATTATTTTCTTGTTGC
1 TTTTATTATTTT-TT-TTGC
*
17255467 TTTTCTTATTTTTTTTGC
1 TTTTATTATTTTTTTTGC
17255485 TT
1 TT
17255487 GAGGACAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTTATTATTTTTTTTGC
Found at i:17255905 original size:41 final size:41
Alignment explanation
Indices: 17255848--17255925 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
17255838 CTTCGTCGCG
* *
17255848 ACATAGAAATGTCTATGTTGCAACTAACCCCCTATGTCATA
1 ACATAGAAATGGCTATGTTGCAACAAACCCCCTATGTCATA
* *
17255889 ACATAGGAATGGCTATGTTGCGACAAACCCCCTATGT
1 ACATAGAAATGGCTATGTTGCAACAAACCCCCTATGT
17255926 TGGACCAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
ACATAGAAATGGCTATGTTGCAACAAACCCCCTATGTCATA
Found at i:17257423 original size:19 final size:20
Alignment explanation
Indices: 17257390--17257428 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17257380 TATATCTGAT
17257390 TTTTTATTTTATTT-ATTTA
1 TTTTTATTTTATTTAATTTA
17257409 TTTTTATTTGT-TTTAATTTA
1 TTTTTATTT-TATTTAATTTA
17257429 AATTTATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTATTTAATTTA
Found at i:17262399 original size:69 final size:69
Alignment explanation
Indices: 17262288--17262417 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
17262278 CAATTTGCTG
*
17262288 AGTATTAATTTTGCAATTCCTGATTTGCCTAAACAGTCCAAGTGGAGACGATAACTCTTACATTT
1 AGTATTAATTTTGCAATTCCTAATTTGCCTAAACAGTCCAAGTGGAGACGATAACTCTTACATTT
17262353 TCTA
66 TCTA
17262357 AGTATTAATTTTGCAATTCCTAATTTGCCTAAACAGTCCAAGTGGAGACGATAACTCTTAC
1 AGTATTAATTTTGCAATTCCTAATTTGCCTAAACAGTCCAAGTGGAGACGATAACTCTTAC
17262418 TTACTACTTT
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:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (69 bp):
AGTATTAATTTTGCAATTCCTAATTTGCCTAAACAGTCCAAGTGGAGACGATAACTCTTACATTT
TCTA
Found at i:17271771 original size:26 final size:26
Alignment explanation
Indices: 17271725--17272010 Score: 320
Period size: 26 Copynumber: 11.0 Consensus size: 26
17271715 CTATACAATA
* * * * *
17271725 CACCGGCACGAAGCCTACTATTTAAT
1 CACCGGCTCAAAGCCTGCTATATATT
* * *
17271751 CACCAGCTCAAAGTCTGCTATCTATT
1 CACCGGCTCAAAGCCTGCTATATATT
** * * *
17271777 CACCAACTCGAGGCCTGCTATTTATT
1 CACCGGCTCAAAGCCTGCTATATATT
** *
17271803 CACCGGCTTGAAGCCTGCTACATATT
1 CACCGGCTCAAAGCCTGCTATATATT
*
17271829 CACCGGCTCAAGGCCTGCTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
*** *
17271855 CACTAACTCAAAGCCTGCTAAATATT
1 CACCGGCTCAAAGCCTGCTATATATT
*
17271881 CACCGGCTCAAGGCCTGCTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
*
17271907 CACCGGCTCAAAGCCGGCTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
* *
17271933 CACCGGCTCAAGGCTTGCTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
* *
17271959 CACCGACTCAAAGCCTACTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
*
17271985 CACCGGCTCAAGGCCTGCTATATATT
1 CACCGGCTCAAAGCCTGCTATATATT
17272011 TGTTTACGGT
Statistics
Matches: 216, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 216 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (26 bp):
CACCGGCTCAAAGCCTGCTATATATT
Found at i:17271821 original size:52 final size:52
Alignment explanation
Indices: 17271750--17272010 Score: 360
Period size: 52 Copynumber: 5.0 Consensus size: 52
17271740 TACTATTTAA
* * * ** * *
17271750 TCACCAGCTCAAAGTCTGCTATCTATTCACCAACTCGAGGCCTGCTATTTAT
1 TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
** *
17271802 TCACCGGCTTGAAGCCTGCTACATATTCACCGGCTCAAGGCCTGCTATATAT
1 TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
*** *
17271854 TCACTAACTCAAAGCCTGCTAAATATTCACCGGCTCAAGGCCTGCTATATAT
1 TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
* *
17271906 TCACCGGCTCAAAGCCGGCTATATATTCACCGGCTCAAGGCTTGCTATATAT
1 TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
* *
17271958 TCACCGACTCAAAGCCTACTATATATTCACCGGCTCAAGGCCTGCTATATAT
1 TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
17272010 T
1 T
17272011 TGTTTACGGT
Statistics
Matches: 183, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 183 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (52 bp):
TCACCGGCTCAAAGCCTGCTATATATTCACCGGCTCAAGGCCTGCTATATAT
Found at i:17277956 original size:37 final size:38
Alignment explanation
Indices: 17277863--17277956 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 38
17277853 ATTTTCGGAA
*
17277863 TGCACCTA-AGACTGTCTCTGCACAAATATTCTTCAAAT
1 TGCACCTAGA-ACTGTCGCTGCACAAATATTCTTCAAAT
* * * *
17277901 TGCATCTAGAACTATCGCTGCATAAGTATTCTTC-AAT
1 TGCACCTAGAACTGTCGCTGCACAAATATTCTTCAAAT
17277938 TGCACCTAGGAAC-GTCGCT
1 TGCACCTA-GAACTGTCGCT
17277957 ACATGAACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
37 15 0.32
38 31 0.66
39 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (38 bp):
TGCACCTAGAACTGTCGCTGCACAAATATTCTTCAAAT
Found at i:17277987 original size:26 final size:26
Alignment explanation
Indices: 17277951--17278003 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17277941 ACCTAGGAAC
17277951 GTCGCTACATGAACATGTACAGAATT
1 GTCGCTACATGAACATGTACAGAATT
* * *
17277977 GTCGCTGCATGAACGTGTCCAGAATT
1 GTCGCTACATGAACATGTACAGAATT
17278003 G
1 G
17278004 CGTCTAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (26 bp):
GTCGCTACATGAACATGTACAGAATT
Found at i:17281217 original size:17 final size:17
Alignment explanation
Indices: 17281197--17281237 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17281187 TAATTGTCCC
*
17281197 TGCATTTATATTGCCAT
1 TGCATTTACATTGCCAT
* *
17281214 TGCATCTACATTGTCAT
1 TGCATTTACATTGCCAT
17281231 TGCATTT
1 TGCATTT
17281238 CCATATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (17 bp):
TGCATTTACATTGCCAT
Found at i:17286166 original size:21 final size:21
Alignment explanation
Indices: 17286142--17286182 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17286132 ATATAAATAT
* *
17286142 TTTTCTTTTTCTTTTTTTTTC
1 TTTTCTTCTTCATTTTTTTTC
*
17286163 TTTTGTTCTTCATTTTTTTT
1 TTTTCTTCTTCATTTTTTTT
17286183 AACAAGTGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTTCTTCTTCATTTTTTTTC
Found at i:17294523 original size:21 final size:21
Alignment explanation
Indices: 17294498--17294576 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
17294488 TAGTGAAGAC
17294498 TTCTACTAATACAAGTGACAG
1 TTCTACTAATACAAGTGACAG
17294519 TTCTACTAATACAAGTGACAG
1 TTCTACTAATACAAGTGACAG
* **
17294540 TTCTACTGATACAAGTGACTC
1 TTCTACTAATACAAGTGACAG
* *
17294561 ATCTACCAATACAAGT
1 TTCTACTAATACAAGT
17294577 CTTACTTCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (21 bp):
TTCTACTAATACAAGTGACAG
Found at i:17294586 original size:42 final size:42
Alignment explanation
Indices: 17294496--17294587 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
17294486 AATAGTGAAG
** * *
17294496 ACTTCTACTAATACAAGTGACAGTTCTACTAATACAAGTGAC
1 ACTTCTACTAATACAAGTGACACATCTACCAATACAAGTCAC
* * * **
17294538 AGTTCTACTGATACAAGTGACTCATCTACCAATACAAGTCTT
1 ACTTCTACTAATACAAGTGACACATCTACCAATACAAGTCAC
17294580 ACTTCTAC
1 ACTTCTAC
17294588 CGGTACTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (42 bp):
ACTTCTACTAATACAAGTGACACATCTACCAATACAAGTCAC
Found at i:17295351 original size:24 final size:25
Alignment explanation
Indices: 17295290--17295359 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
17295280 TTCCCAATTT
17295290 TTAGCTCTTACGAGCCCA-AACCAAA
1 TTAGCTCTTACGAGCCCAGAA-CAAA
* **
17295315 TTAGCTCTCACGAGCCCAGAA-AGG
1 TTAGCTCTTACGAGCCCAGAACAAA
*
17295339 TTAGCTCTTACGAGCTCAGAA
1 TTAGCTCTTACGAGCCCAGAA
17295360 TAGTTAGATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.51
25 17 0.44
26 2 0.05
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (25 bp):
TTAGCTCTTACGAGCCCAGAACAAA
Found at i:17301832 original size:47 final size:47
Alignment explanation
Indices: 17301763--17301857 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
17301753 AAGCATTGGC
17301763 AAGCTGTAAAGCATATATTAAGGTATCTTAAAAGAACCAGGGGTTAT
1 AAGCTGTAAAGCATATATTAAGGTATCTTAAAAGAACCAGGGGTTAT
17301810 AAGCTGTAAAGCATATATTAAGGTATCTTAAAAGAACCAGGGGTTAT
1 AAGCTGTAAAGCATATATTAAGGTATCTTAAAAGAACCAGGGGTTAT
17301857 A
1 A
17301858 TGTTTGTGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (47 bp):
AAGCTGTAAAGCATATATTAAGGTATCTTAAAAGAACCAGGGGTTAT
Found at i:17304381 original size:20 final size:20
Alignment explanation
Indices: 17304356--17304394 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
17304346 ATTCTAATTT
17304356 TTCCCTAAATTTATTTTCCA
1 TTCCCTAAATTTATTTTCCA
17304376 TTCCCTAAATTTATTTTCC
1 TTCCCTAAATTTATTTTCC
17304395 TCTGCGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCCCTAAATTTATTTTCCA
Found at i:17306535 original size:17 final size:17
Alignment explanation
Indices: 17306513--17306547 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17306503 TGCCAAGCCC
17306513 TCTGTGTTATTTTTGTT
1 TCTGTGTTATTTTTGTT
17306530 TCTGTGTTATTTTTGTT
1 TCTGTGTTATTTTTGTT
17306547 T
1 T
17306548 TTCTTACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.71
Consensus pattern (17 bp):
TCTGTGTTATTTTTGTT
Found at i:17306801 original size:13 final size:14
Alignment explanation
Indices: 17306783--17306811 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17306773 ACATCAATAA
17306783 ATAATAT-TTTTTT
1 ATAATATATTTTTT
17306796 ATAATATATTTTTT
1 ATAATATATTTTTT
17306810 AT
1 AT
17306812 GTTTCTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATAATATATTTTTT
Found at i:17307672 original size:18 final size:17
Alignment explanation
Indices: 17307632--17307672 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
17307622 TGTTTAACAT
17307632 TACTTTTGATTCAAAAA
1 TACTTTTGATTCAAAAA
*
17307649 TA-TTTTTATATCAAAAA
1 TACTTTTGAT-TCAAAAA
17307666 TACTTTT
1 TACTTTT
17307673 AAAAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (17 bp):
TACTTTTGATTCAAAAA
Found at i:17310345 original size:40 final size:40
Alignment explanation
Indices: 17310253--17310388 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
17310243 GAATTGACTG
* * *
17310253 GACACTGTAAATACTGCGATATTACTACTGAACTGGCAGT
1 GACACTGTAAACACTGCGATATTACAACTGAACTAGCAGT
* * * *
17310293 GATACTGTAAACACTGTGATATTACAATTGAACTAGCGGT
1 GACACTGTAAACACTGCGATATTACAACTGAACTAGCAGT
* * *
17310333 GACACT-TCAAACACTAC-AGTA-TACAACTGGATTAGCAGT
1 GACACTGT-AAACACTGCGA-TATTACAACTGAACTAGCAGT
17310372 GACACTGTAAACACTGC
1 GACACTGTAAACACTGC
17310389 TAGATCACTA
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 30 0.38
40 48 0.62
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (40 bp):
GACACTGTAAACACTGCGATATTACAACTGAACTAGCAGT
Found at i:17314870 original size:11 final size:11
Alignment explanation
Indices: 17314856--17314880 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17314846 AAAAAGAGGG
17314856 AAAACAGATTC
1 AAAACAGATTC
17314867 AAAACAGATTC
1 AAAACAGATTC
17314878 AAA
1 AAA
17314881 TTCTTTTTAA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (11 bp):
AAAACAGATTC
Found at i:17315053 original size:19 final size:19
Alignment explanation
Indices: 17315029--17315066 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
17315019 CTTAAAAATT
17315029 TTTAAAA-AATAAAAACAAA
1 TTTAAAAGAA-AAAAACAAA
17315048 TTTAAAAGAAAAAAACAAA
1 TTTAAAAGAAAAAAACAAA
17315067 GAGCCGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (19 bp):
TTTAAAAGAAAAAAACAAA
Found at i:17315826 original size:60 final size:59
Alignment explanation
Indices: 17315724--17315897 Score: 197
Period size: 60 Copynumber: 2.9 Consensus size: 59
17315714 AAAAAGCCCT
* * * **
17315724 CAAACTTTTCCAGAATTGCATTTGACCCTCGAACCTCTCCAAAATTACATTTTAGCCTC
1 CAAACTCTTCCAGAATTGCATTTTAACCTCGAATTTCTCCAAAATTACATTTTAGCCTC
* * * *
17315783 CGAGCTCTTTCAGAATTGCATTTTAACCTTCGAATTTCTCCAAAATTAGATTTTAGCCTC
1 CAAACTCTTCCAGAATTGCATTTTAACC-TCGAATTTCTCCAAAATTACATTTTAGCCTC
* * * *
17315843 CAAACTCTTCCAAAATTACATTTTAACCTCTAAACTTT-TCTAAAATTACATTTTA
1 CAAACTCTTCCAGAATTGCATTTTAACCTC-GAA-TTTCTCCAAAATTACATTTTA
17315898 ACCCCTAAAC
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 24 0.25
60 68 0.72
61 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (59 bp):
CAAACTCTTCCAGAATTGCATTTTAACCTCGAATTTCTCCAAAATTACATTTTAGCCTC
Found at i:17315836 original size:30 final size:31
Alignment explanation
Indices: 17315761--17315957 Score: 142
Period size: 30 Copynumber: 6.5 Consensus size: 31
17315751 CTCGAACCTC
* * *
17315761 TCCAAAATTACATTTTAGCC-TCCGAGCTCT
1 TCCAAAATTACATTTTAACCTTCCAAACTCT
* * * * **
17315791 TTCAGAATTGCATTTTAACCTTCGAATTTC-
1 TCCAAAATTACATTTTAACCTTCCAAACTCT
* *
17315821 TCCAAAATTAGATTTTAGCC-TCCAAACTCT
1 TCCAAAATTACATTTTAACCTTCCAAACTCT
* *
17315851 TCCAAAATTACATTTTAACC-TCTAAACTTT
1 TCCAAAATTACATTTTAACCTTCCAAACTCT
* *
17315881 TCTAAAATTACATTTTAACC--CCTAAACTTTT
1 TCCAAAATTACATTTTAACCTTCC-AAAC-TCT
* *
17315912 TCCAAAATCACATTTTGACC--CCTAAACT-T
1 TCCAAAATTACATTTTAACCTTCC-AAACTCT
17315941 TCCCAAAATTACATTTT
1 T-CCAAAATTACATTTT
17315958 GATCCTAAAT
Statistics
Matches: 136, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.07
30 95 0.70
31 32 0.24
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (31 bp):
TCCAAAATTACATTTTAACCTTCCAAACTCT
Found at i:17315908 original size:60 final size:60
Alignment explanation
Indices: 17315761--17315957 Score: 211
Period size: 60 Copynumber: 3.3 Consensus size: 60
17315751 CTCGAACCTC
* * * * * *
17315761 TCCAAAATTACATTTTAGCCTCCGAGCTCTTTCAGAATTGCATTTTAACCT-TCGAA-TTT
1 TCCAAAATTACATTTTAGCCTCCAAACTCTTCCAAAATTACATTTTAACCTCT-AAACTTT
*
17315820 CTCCAAAATTAGATTTTAGCCTCCAAACTCTTCCAAAATTACATTTTAACCTCTAAACTTT
1 -TCCAAAATTACATTTTAGCCTCCAAACTCTTCCAAAATTACATTTTAACCTCTAAACTTT
* * * * * *
17315881 TCTAAAATTACATTTTAACC-CCTAAACTTTTTCCAAAATCACATTTTGACCCCTAAACTTT
1 TCCAAAATTACATTTTAGCCTCC-AAAC-TCTTCCAAAATTACATTTTAACCTCTAAACTTT
*
17315942 CCCAAAATTACATTTT
1 TCCAAAATTACATTTT
17315958 GATCCTAAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
59 2 0.02
60 68 0.58
61 47 0.40
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (60 bp):
TCCAAAATTACATTTTAGCCTCCAAACTCTTCCAAAATTACATTTTAACCTCTAAACTTT
Found at i:17315919 original size:31 final size:30
Alignment explanation
Indices: 17315821--17315957 Score: 177
Period size: 30 Copynumber: 4.5 Consensus size: 30
17315811 TTCGAATTTC
* * *
17315821 TCCAAAATTAGATTTTAGCCTCC-AAACTCT
1 TCCAAAATTACATTTTAACC-CCTAAACTTT
*
17315851 TCCAAAATTACATTTTAACCTCTAAACTTT
1 TCCAAAATTACATTTTAACCCCTAAACTTT
*
17315881 TCTAAAATTACATTTTAACCCCTAAACTTTT
1 TCCAAAATTACATTTTAACCCCTAAAC-TTT
* *
17315912 TCCAAAATCACATTTTGACCCCTAAACTTT
1 TCCAAAATTACATTTTAACCCCTAAACTTT
*
17315942 CCCAAAATTACATTTT
1 TCCAAAATTACATTTT
17315958 GATCCTAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 1 0.01
30 66 0.70
31 27 0.29
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTAACCCCTAAACTTT
Found at i:17325378 original size:21 final size:19
Alignment explanation
Indices: 17325352--17325404 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
17325342 GGAGTTTTTG
17325352 GTATCGGTAGATGCATGACTT
1 GTATCGGTAGAT-CAT-ACTT
*
17325373 GTATCGATAGAAATCATACTT
1 GTATCGGTAG--ATCATACTT
17325394 GTATCGGTAGA
1 GTATCGGTAGA
17325405 GCTAGCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
21 22 0.79
22 3 0.11
23 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (19 bp):
GTATCGGTAGATCATACTT
Found at i:17332779 original size:12 final size:12
Alignment explanation
Indices: 17332762--17332814 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
17332752 CAGGTTCAGT
17332762 TTCTTCCTTCTC
1 TTCTTCCTTCTC
17332774 TTCTTCCTTTCCTTC
1 TTCTTCC-TT-C-TC
* *
17332789 TTCTTCTTTTTC
1 TTCTTCCTTCTC
*
17332801 TTCATCCTTCTC
1 TTCTTCCTTCTC
17332813 TT
1 TT
17332815 GATCACCCCC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
12 20 0.61
13 2 0.06
14 3 0.09
15 8 0.24
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (12 bp):
TTCTTCCTTCTC
Found at i:17342179 original size:85 final size:81
Alignment explanation
Indices: 17342040--17342195 Score: 231
Period size: 85 Copynumber: 1.9 Consensus size: 81
17342030 CCCATCTTTT
* *
17342040 TGATGAGATACAGAGAAGTGAAAGCAATAAAGAGGTCATCTTCTTGATGAGATACAGAGAAGTAG
1 TGATGAGATACAAAGAAGTGAAAGCAATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAG
17342105 ACCAAATTCGTCTTCC
66 ACCAAATTCGTCTTCC
* * *
17342121 TGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAAAGAAGT-G---AAAGCAATAAAGAGGTCATCTTCCTGATGAGATACAGAGAA
17342186 GTAGACCAAA
62 GTAGACCAAA
17342196 CCAATGAAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 18 0.27
82 1 0.02
85 47 0.71
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (81 bp):
TGATGAGATACAAAGAAGTGAAAGCAATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAG
ACCAAATTCGTCTTCC
Found at i:17342186 original size:48 final size:48
Alignment explanation
Indices: 17342115--17342206 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
17342105 ACCAAATTCG
* ** *
17342115 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAAAGAAGTAGACCAAACCAATGAAGCGGTCA
*
17342163 TCTTCCTGATGAGATACAGAGAAGTAGACCAAACCAATGAAGCG
1 TCTTCCTGATGAGATACAAAGAAGTAGACCAAACCAATGAAGCG
17342207 AAGTGTAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAGAAGTAGACCAAACCAATGAAGCGGTCA
Found at i:17342730 original size:53 final size:53
Alignment explanation
Indices: 17342650--17342756 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
17342640 ACGAGAGGGG
17342650 TACCTGTAGTAGGCCCAACTTGACCGGGCCCGTTCCAAAACCAAATTTACATT
1 TACCTGTAGTAGGCCCAACTTGACCGGGCCCGTTCCAAAACCAAATTTACATT
*
17342703 TACCTGTAGTAGGCCCAATTTGACCGGGCCCGTTCCAAAACCAAATTTACATT
1 TACCTGTAGTAGGCCCAACTTGACCGGGCCCGTTCCAAAACCAAATTTACATT
17342756 T
1 T
17342757 TAACCCCAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (53 bp):
TACCTGTAGTAGGCCCAACTTGACCGGGCCCGTTCCAAAACCAAATTTACATT
Found at i:17342858 original size:30 final size:30
Alignment explanation
Indices: 17342824--17343030 Score: 156
Period size: 30 Copynumber: 6.9 Consensus size: 30
17342814 TTTAGCCTCC
* *
17342824 AAACTCTTCCAAAATTTCATTTTGACCCCT
1 AAACTTTTCCAAAATTACATTTTGACCCCT
* * *
17342854 AAACTTTTCCAAAATCACA-TTTAACCTCT
1 AAACTTTTCCAAAATTACATTTTGACCCCT
* * *
17342883 GAAA-TTTTCTAAAATTATATTTTAACCCCCT
1 -AAACTTTTCCAAAATTACATTTTGA-CCCCT
* * *
17342914 GAACATTTT-CAAAATCACATTTTGACCCCC
1 AAAC-TTTTCCAAAATTACATTTTGACCCCT
* * *
17342944 AAACTTTTCTAAAATTACATCTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTGACCCCT
* * * *
17342974 AAATTTTTCTAAACTTACGTTTTGACCCC-
1 AAACTTTTCCAAAATTACATTTTGACCCCT
*
17343003 AAA-TTCTCCAAAACTT-CATTTTCGACCC
1 AAACTTTTCCAAAA-TTACATTTT-GACCC
17343031 TTTTTTTTTT
Statistics
Matches: 139, Mismatches: 30, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
28 12 0.09
29 34 0.24
30 73 0.53
31 16 0.12
32 4 0.03
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTGACCCCT
Found at i:17342898 original size:90 final size:91
Alignment explanation
Indices: 17342808--17342986 Score: 213
Period size: 90 Copynumber: 2.0 Consensus size: 91
17342798 TTCTTCAAAT
* * ** *
17342808 TTATATTTTAGCCTCC-AAAC-TCTTCCAAAATTTCATTTTGACCCCTAAACTTTTCCAAAATCA
1 TTATATTTTAACCCCCTAAACAT-TTCCAAAATCACATTTTGACCCCCAAACTTTTCCAAAATCA
17342871 CAT-TTAACCTCTGAAA-TTTTCTAAAA
65 CATCTTAACC-CTGAAATTTTTCTAAAA
* * * *
17342897 TTATATTTTAACCCCCTGAACATTTTCAAAATCACATTTTGACCCCCAAACTTTTCTAAAATTAC
1 TTATATTTTAACCCCCTAAACATTTCCAAAATCACATTTTGACCCCCAAACTTTTCCAAAATCAC
* *
17342962 ATCTTGACCCTTAAATTTTTCTAAA
66 ATCTTAACCCTGAAATTTTTCTAAA
17342987 CTTACGTTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
89 14 0.19
90 46 0.61
91 15 0.20
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.39
Consensus pattern (91 bp):
TTATATTTTAACCCCCTAAACATTTCCAAAATCACATTTTGACCCCCAAACTTTTCCAAAATCAC
ATCTTAACCCTGAAATTTTTCTAAAA
Found at i:17342928 original size:31 final size:32
Alignment explanation
Indices: 17342834--17342963 Score: 114
Period size: 29 Copynumber: 4.3 Consensus size: 32
17342824 AAACTCTTCC
* * * *
17342834 AAAATTTCATTTTGA-CCCCTAAAC-TTTTCC
1 AAAATTACATTTTAACCCCCTGAACATTTTCT
* *
17342864 AAAATCACA-TTTAA-CCTCTGAA-ATTTTCT
1 AAAATTACATTTTAACCCCCTGAACATTTTCT
*
17342893 AAAATTATATTTTAACCCCCTGAACATTTTC-
1 AAAATTACATTTTAACCCCCTGAACATTTTCT
* * *
17342924 AAAATCACATTTTGACCCCC-AAAC-TTTTCT
1 AAAATTACATTTTAACCCCCTGAACATTTTCT
17342954 AAAATTACAT
1 AAAATTACAT
17342964 CTTGACCCTT
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
29 27 0.33
30 24 0.30
31 24 0.30
32 6 0.07
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.37
Consensus pattern (32 bp):
AAAATTACATTTTAACCCCCTGAACATTTTCT
Found at i:17345999 original size:13 final size:13
Alignment explanation
Indices: 17345981--17346006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17345971 AGATTGAAGC
17345981 ATCTTACCCCAAT
1 ATCTTACCCCAAT
17345994 ATCTTACCCCAAT
1 ATCTTACCCCAAT
17346007 TACAGGGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (13 bp):
ATCTTACCCCAAT
Found at i:17346357 original size:48 final size:48
Alignment explanation
Indices: 17346286--17346377 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
17346276 ACCAAATTCG
* * * **
17346286 TCTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCA
1 TCTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCGGTCA
17346334 TCTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCG
1 TCTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCG
17346378 AAGTGCAGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (48 bp):
TCTTCCTGATGAGATAAAGAGAAGTAGACCAAATCAATGAAGCGGTCA
Found at i:17346473 original size:209 final size:210
Alignment explanation
Indices: 17346111--17346489 Score: 543
Period size: 209 Copynumber: 1.8 Consensus size: 210
17346101 CGTTAAAAGG
* ** *
17346111 ATGAAGCGATCATCTTCTTGATAGGATACGGAGAAGTAGACCAAATCGATGAAGCGAAGCTCAAT
1 ATGAAGCGATCATCTTCCTGATAGGATAAAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
** *
17346176 GTGAGTGAAACTTCAAAAACCCCCATCTTCCTGATGAGATATAAAGAAGTGGGTGAAAGAAAGAA
66 ACGAGTGAAACTTC-AAAACCCCCATCTTCCTGATGAGATAGAAAGAAGTGGGTGAAAGAAAGAA
*
17346241 AGAGGTCATCTTCCTGATGAGATATAGTGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGA
130 AGAGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGA
17346306 GAAGTGGATTAAATCA
195 GAAGTGGATTAAATCA
*
17346322 ATGAAGCGGTCATCTTCCTGAT-GAGATAAAGAGAAGTAGACCAAATCAATGAAGCGAAG-TGCA
1 ATGAAGCGATCATCTTCCTGATAG-GATAAAGAGAAGTAGACCAAATCAATGAAGCGAAGCT-CA
* * * * * *
17346385 GTACGAGTGAAATTTC-AAACCCCTATCTTCCTGATGAGATAGAGAGAAGTGGGTCG-AAGTAAT
64 ATACGAGTGAAACTTCAAAACCCCCATCTTCCTGATGAGATAGAAAGAAGTGGGT-GAAAGAAAG
17346448 AAAGCA-GTCATCTTCCTGATGAGATATAGAGAAGTAGACCAA
128 AAAG-AGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCAA
17346490 GAAATGAAGC
Statistics
Matches: 149, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
209 79 0.53
210 4 0.03
211 66 0.44
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (210 bp):
ATGAAGCGATCATCTTCCTGATAGGATAAAGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAAT
ACGAGTGAAACTTCAAAACCCCCATCTTCCTGATGAGATAGAAAGAAGTGGGTGAAAGAAAGAAA
GAGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCAAATTCGTCTTCTTGATGAGATACAGAG
AAGTGGATTAAATCA
Found at i:17348588 original size:58 final size:59
Alignment explanation
Indices: 17348479--17348633 Score: 163
Period size: 59 Copynumber: 2.6 Consensus size: 59
17348469 TTTCCAAAAT
* * * *
17348479 TGCATTTTGAACCTCAAACTTTTCCAAATTTACATTTTAACCCCGAGCTCTTTCAATAC
1 TGCATTTTGAACCTCAAACTTCTCCAAAATTACATTTGAACCCCGAACTCTTTCAATAC
* * * * * *
17348538 TGCATTTTGACCCTCGAA-TTCTCCAAAATTACATTTGAGCCTCGAACTCTTTCAAAAAT
1 TGCATTTTGAACCTCAAACTTCTCCAAAATTACATTTGAACCCCGAACTCTTTC-AATAC
*
17348597 TGCATTTTAAACC-CGAAACATT-TCCAAAATTACATTT
1 TGCATTTTGAACCTC-AAAC-TTCTCCAAAATTACATTT
17348634 TGACCTCTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
58 30 0.38
59 32 0.41
60 15 0.19
61 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (59 bp):
TGCATTTTGAACCTCAAACTTCTCCAAAATTACATTTGAACCCCGAACTCTTTCAATAC
Found at i:17348760 original size:30 final size:30
Alignment explanation
Indices: 17348463--17348760 Score: 223
Period size: 30 Copynumber: 10.0 Consensus size: 30
17348453 AAAGAGCCCC
* * *
17348463 CAAAATTTTCCAAAATTGCATTTTGAACCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* *
17348493 CAAACTTTTCCAAATTTACATTTTAACCC-
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* * * * *
17348522 CGAGCTCTTT-CAATACTGCATTTTGACCCT
1 CAAACT-TTTCCAAAATTACATTTTGACCCT
* * *
17348552 CGAA-TTCTCCAAAATTACA-TTTGAGCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* * * *
17348580 CGAACTCTTTCAAAAATTGCATTTTAAACCC-
1 CAAACT-TTTCCAAAATTACATTTT-GACCCT
* *
17348611 GAAACATTTCCAAAATTACATTTTGA-CCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* * *
17348640 CTAAACTTTTCTAAAATTATA-TTTGACCCC
1 C-AAACTTTTCCAAAATTACATTTTGACCCT
*
17348670 CTAAACTTTTCCAAAATCACATTTTGACCCT
1 C-AAACTTTTCCAAAATTACATTTTGACCCT
** * * **
17348701 TGAACTTTCCCAAAATAACAACTTGACCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
* *
17348731 CAAATTTTTCCAAAATTACATTTTAACCCT
1 CAAACTTTTCCAAAATTACATTTTGACCCT
17348761 AAATTCTTCG
Statistics
Matches: 205, Mismatches: 52, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
28 16 0.08
29 33 0.16
30 139 0.68
31 14 0.07
32 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.35
Consensus pattern (30 bp):
CAAACTTTTCCAAAATTACATTTTGACCCT
Found at i:17351834 original size:17 final size:17
Alignment explanation
Indices: 17351792--17351838 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
17351782 AATTTATTTT
*
17351792 TAATATAAAT-ATTTAA
1 TAATATAAATAATTCAA
17351808 T-ATGATTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
17351826 TAATATAAATAAT
1 TAATATAAATAAT
17351839 ATAAAATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 2 0.08
16 2 0.08
17 13 0.50
18 7 0.27
19 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:17352245 original size:122 final size:122
Alignment explanation
Indices: 17352116--17352369 Score: 483
Period size: 123 Copynumber: 2.1 Consensus size: 122
17352106 AGAGAAAATA
17352116 AAAAGTTTTGAGGGTTTTT-GGGAAAGTAAATGGAAAGAGTAAAATATTGGAGGGAAAATATTAA
1 AAAAGTTTTGAGGGTTTTTGGGGAAAGTAAATGGAAAGAGTAAAATATTGGAGGGAAAATATTAA
17352180 AAAAAATATTGGAGGGAAATGAGTTTGGGGAAGATTGGGCGTGGGATGAGAAGGGAGT
66 AAAAAATATTGGAGGGAAATGAGTTTGGGGAAGATTGGGCGTGGGATGAGAA-GGAGT
*
17352238 AAAAGTTTTGAGGGTTTTTGGGGAAAGTAAATGGGAAGAGTAAAATATTGGAGGGAAAATATTAA
1 AAAAGTTTTGAGGGTTTTTGGGGAAAGTAAATGGAAAGAGTAAAATATTGGAGGGAAAATATTAA
17352303 AAAAAATATTGGAGGGAAATGAGTTTGGGGAAGATTGGGCGTGGGATGAGAAGGAGT
66 AAAAAATATTGGAGGGAAATGAGTTTGGGGAAGATTGGGCGTGGGATGAGAAGGAGT
17352360 AAAAGTTTTG
1 AAAAGTTTTG
17352370 GGGAAAGTAA
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
122 34 0.26
123 96 0.74
ACGTcount: A:0.39, C:0.01, G:0.35, T:0.25
Consensus pattern (122 bp):
AAAAGTTTTGAGGGTTTTTGGGGAAAGTAAATGGAAAGAGTAAAATATTGGAGGGAAAATATTAA
AAAAAATATTGGAGGGAAATGAGTTTGGGGAAGATTGGGCGTGGGATGAGAAGGAGT
Found at i:17352535 original size:18 final size:19
Alignment explanation
Indices: 17352501--17352536 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17352491 TTCAGGAAAA
*
17352501 AATTCGAGTTGACTCGAAT
1 AATTCGAGTTAACTCGAAT
17352520 AATTCGA-TTAACTCGAA
1 AATTCGAGTTAACTCGAA
17352537 CAACTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (19 bp):
AATTCGAGTTAACTCGAAT
Found at i:17353751 original size:16 final size:17
Alignment explanation
Indices: 17353718--17353752 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17353708 ATTAACCACT
*
17353718 CATAATGGTTTCAGATA
1 CATAATAGTTTCAGATA
17353735 CATAATAGTTT-AGATA
1 CATAATAGTTTCAGATA
17353751 CA
1 CA
17353753 AAAATAGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (17 bp):
CATAATAGTTTCAGATA
Done.