Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 154 of 208
Found at i:50035831 original size:37 final size:34
Alignment explanation
Indices: 50035784--50035880 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 34
50035774 CTCATAAAAT
*
50035784 ATTAAAAATATCATAAAAATATTAAAAT-TGATATAA
1 ATTATAAATAT-ATAAAAATATTAAAATCT-A-ATAA
*
50035820 ACTTATAAATATTATAAAAATATGAAAATCTAATAA
1 A-TTATAAATA-TATAAAAATATTAAAATCTAATAA
* *
50035856 ATTATAAAAATATATAAA-ATTAAAA
1 ATTATAAATATATAAAAATATTAAAA
50035881 AGTCTTATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
33 6 0.11
34 7 0.13
35 8 0.15
36 6 0.11
37 24 0.45
38 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (34 bp):
ATTATAAATATATAAAAATATTAAAATCTAATAA
Found at i:50035866 original size:9 final size:9
Alignment explanation
Indices: 50035777--50035874 Score: 60
Period size: 9 Copynumber: 10.7 Consensus size: 9
50035767 ATATTTTCTC
50035777 ATAAAATATT
1 ATAAAA-ATT
*
50035787 A-AAAATATC
1 ATAAAA-ATT
50035796 ATAAAAA-T
1 ATAAAAATT
*
50035804 ATTAAAATT
1 ATAAAAATT
*
50035813 GATATAAACTT
1 -ATA-AAAATT
*
50035824 ATAAATATT
1 ATAAAAATT
50035833 ATAAAAA-T
1 ATAAAAATT
*
50035841 ATGAAAATCT
1 ATAAAAAT-T
*
50035851 A-ATAAATT
1 ATAAAAATT
50035859 ATAAAAATAT
1 ATAAAAAT-T
50035869 ATAAAA
1 ATAAAA
50035875 TTAAAAAGTC
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
8 15 0.22
9 29 0.43
10 19 0.28
11 5 0.07
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:50036349 original size:9 final size:9
Alignment explanation
Indices: 50036335--50036601 Score: 78
Period size: 9 Copynumber: 27.8 Consensus size: 9
50036325 GTTTATATTT
50036335 TTTTTATAA
1 TTTTTATAA
50036344 TTTTTATAA
1 TTTTTATAA
* *
50036353 GTTTATGTCAA
1 -TTTTTAT-AA
* *
50036364 TTTTAATACT
1 TTTTTATA-A
*
50036374 TTTTTATGA
1 TTTTTATAA
50036383 TTTTTATAGAA
1 TTTTTAT--AA
** **
50036394 TTTCAATTTG
1 TTTTTA-TAA
50036404 TTTTTATAAA
1 TTTTTAT-AA
* *
50036414 ATTTTAAATA
1 TTTTTATA-A
50036424 TGTTTTAGTAA
1 T-TTTTA-TAA
**
50036435 TTTTATATTT
1 TTTT-TATAA
50036445 TTTTTATAA
1 TTTTTATAA
*
50036454 TTTATTA-GA
1 TTT-TTATAA
50036463 TTTTTATAA
1 TTTTTATAA
*
50036472 TATTTATAA
1 TTTTTATAA
*
50036481 TATTTAATAA
1 T-TTTTATAA
*
50036491 TACTTTTATTA
1 T--TTTTATAA
*
50036502 TATTTATAA
1 TTTTTATAA
50036511 TTTTATATCAA
1 TTTT-TAT-AA
* *
50036522 -TTTT-CAC
1 TTTTTATAA
50036529 TTTTTA-AA
1 TTTTTATAA
50036537 TATTTT-TAA
1 T-TTTTATAA
*
50036546 TATTTAATAA
1 T-TTTTATAA
*
50036556 ATTTTATATA
1 TTTTTATA-A
50036566 TTTTTGATAA
1 TTTTT-ATAA
*
50036576 CTTTTT-TGA
1 -TTTTTATAA
50036585 TTTTTAATAA
1 TTTTT-ATAA
50036595 TTTTTAT
1 TTTTTAT
50036602 GGGAAAAATA
Statistics
Matches: 185, Mismatches: 46, Indels: 54
0.65 0.16 0.19
Matches are distributed among these distances:
7 1 0.01
8 14 0.08
9 70 0.38
10 65 0.35
11 33 0.18
12 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50036427 original size:22 final size:21
Alignment explanation
Indices: 50036378--50036429 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
50036368 AATACTTTTT
* *
50036378 TATGATTTTTATAGAATTTCAA
1 TATG-TTTTTATAAAATTTAAA
*
50036400 TTTGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAA-TTTAAA
50036422 TATGTTTT
1 TATGTTTT
50036430 AGTAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.58
Consensus pattern (21 bp):
TATGTTTTTATAAAATTTAAA
Found at i:50036492 original size:19 final size:18
Alignment explanation
Indices: 50036465--50036517 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 18
50036455 TTATTAGATT
50036465 TTTATAATATTTATAATA
1 TTTATAATATTTATAATA
*
50036483 TTTAATAATACTTTTATTATA
1 TTT-ATAATA--TTTATAATA
50036504 TTTATAAT-TTTATA
1 TTTATAATATTTATA
50036518 TCAATTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.17
18 3 0.10
19 6 0.20
20 5 0.17
21 11 0.37
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATAATATTTATAATA
Found at i:50039188 original size:11 final size:11
Alignment explanation
Indices: 50039174--50039200 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50039164 AAAAAATCAT
50039174 AAAAATTATTA
1 AAAAATTATTA
50039185 AAAAATTATTA
1 AAAAATTATTA
50039196 AAAAA
1 AAAAA
50039201 GATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:50039318 original size:22 final size:20
Alignment explanation
Indices: 50039293--50039332 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
50039283 TATTATTTTT
50039293 ATTTTTAATAAATTTTTTTATG
1 ATTTTTAAT--ATTTTTTTATG
50039315 ATTTTTAATATTTTTTTA
1 ATTTTTAATATTTTTTTA
50039333 CATTTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTAATATTTTTTTATG
Found at i:50039970 original size:23 final size:23
Alignment explanation
Indices: 50039944--50039987 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
50039934 GTTAAATTTT
*
50039944 GAATTATTTAGTGATAATATTAA
1 GAATTAATTAGTGATAATATTAA
50039967 GAATTAATTAGTGATAATATT
1 GAATTAATTAGTGATAATATT
50039988 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (23 bp):
GAATTAATTAGTGATAATATTAA
Found at i:50042709 original size:9 final size:9
Alignment explanation
Indices: 50042692--50042728 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50042682 TGAGTTTTCG
50042692 AATTCGAAT
1 AATTCGAAT
*
50042701 AACTCGAAT
1 AATTCGAAT
50042710 AATTCGAAT
1 AATTCGAAT
50042719 AATTCGAAT
1 AATTCGAAT
50042728 A
1 A
50042729 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50042795 original size:21 final size:21
Alignment explanation
Indices: 50042766--50042806 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50042756 CCTAAATTCC
* *
50042766 CAAACCTTTTTATTTTTCCCT
1 CAAAACTTTTTATCTTTCCCT
*
50042787 CAAAACTTTTTCTCTTTCCC
1 CAAAACTTTTTATCTTTCCC
50042807 ACTTCCCCCT
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:0.20, C:0.32, G:0.00, T:0.49
Consensus pattern (21 bp):
CAAAACTTTTTATCTTTCCCT
Found at i:50044241 original size:51 final size:51
Alignment explanation
Indices: 50044181--50044279 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
50044171 CAAATTCGGT
* *
50044181 GATAATGCTCATTTTCTTGTAGTGTTGATGATTGGAAAATTACTTATAGAA
1 GATAATGCTCATTTTCTTATAGTGTTGATGAATGGAAAATTACTTATAGAA
* *
50044232 GATAATGCTCATTTTCTTATAGTGTTGATTAATGGAAATTTACTTATA
1 GATAATGCTCATTTTCTTATAGTGTTGATGAATGGAAAATTACTTATA
50044280 TAGGTGAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.43
Consensus pattern (51 bp):
GATAATGCTCATTTTCTTATAGTGTTGATGAATGGAAAATTACTTATAGAA
Found at i:50050020 original size:17 final size:16
Alignment explanation
Indices: 50049994--50050025 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50049984 AATCCCCTTC
50049994 TTATTATATATAAATA
1 TTATTATATATAAATA
50050010 TTATCTATATATAAAT
1 TTAT-TATATATAAAT
50050026 GTACCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATATATAAATA
Found at i:50055379 original size:7 final size:6
Alignment explanation
Indices: 50055348--50055405 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
50055338 GGTTTTCTCC
* * *
50055348 AAAATA AAAATG AAAATG AAAATG AAAGATG AAAAATA AAAATG -ACATG
1 AAAATG AAAATG AAAATG AAAATG AAA-ATG -AAAATG AAAATG AAAATG
50055397 AAAAATG AA
1 -AAAATG AA
50055406 TATACGCTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.09
6 27 0.63
7 9 0.21
8 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:50055605 original size:22 final size:24
Alignment explanation
Indices: 50055562--50055605 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
50055552 GTTGAGAAAA
*
50055562 TTATTTTATTGGAAATATGAAAGT
1 TTATTTTATGGGAAATATGAAAGT
50055586 TTATTTT-TGGGAAATA-GAAA
1 TTATTTTATGGGAAATATGAAA
50055606 AAAAATATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 8 0.42
24 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (24 bp):
TTATTTTATGGGAAATATGAAAGT
Found at i:50059841 original size:36 final size:36
Alignment explanation
Indices: 50059794--50059862 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
50059784 ATGTGGATCT
50059794 CATTGAGGAGATTTTCTGAAAGTAAATAAAACTCCC
1 CATTGAGGAGATTTTCTGAAAGTAAATAAAACTCCC
*
50059830 CATTGAGGAGATTTTCTGAAAGTAAATAGAACT
1 CATTGAGGAGATTTTCTGAAAGTAAATAAAACT
50059863 TTCTTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
CATTGAGGAGATTTTCTGAAAGTAAATAAAACTCCC
Found at i:50062905 original size:27 final size:27
Alignment explanation
Indices: 50062870--50063048 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
50062860 TTAAATTGTA
50062870 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
50062897 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
50062924 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
50062951 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * * *
50062979 TAGCACTAAGTGTGCGATTTAATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
50063006 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
50063033 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
50063049 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:50063012 original size:82 final size:81
Alignment explanation
Indices: 50062872--50063022 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
50062862 AAATTGTATA
* *
50062872 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
50062937 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* * *
50062953 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTTAATTACG-TAGCACTAAG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAA-TACGAT-GCACTAAG
50063016 TGTGCGA
63 TGTGCGA
50063023 GATGATTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
81 20 0.32
82 42 0.68
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50063039 original size:82 final size:81
Alignment explanation
Indices: 50062868--50063048 Score: 206
Period size: 82 Copynumber: 2.2 Consensus size: 81
50062858 GATTAAATTG
* *
50062868 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50062933 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * * *
50062949 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTTAATTACG-TAGCAC
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAA-TACGAT-GCAC
**
50063012 TAAGTGTGCGAGA-TGATTA
63 TAAGTGTGCGA-ATTGACCA
*
50063031 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
50063049 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
81 21 0.26
82 60 0.73
83 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50067969 original size:14 final size:15
Alignment explanation
Indices: 50067940--50067981 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
50067930 ACTATACTAA
50067940 AAATTATAAGAAATG
1 AAATTATAAGAAATG
*
50067955 AAATTA-AATAAATG
1 AAATTATAAGAAATG
*
50067969 AAA-AATAAGAAAT
1 AAATTATAAGAAAT
50067982 CTAAAAATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 16 0.70
15 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (15 bp):
AAATTATAAGAAATG
Found at i:50068840 original size:21 final size:21
Alignment explanation
Indices: 50068787--50068840 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
50068777 TGACATTGAG
*
50068787 GGTATGTCACGACATCCTCAA
1 GGTATGTCGCGACATCCTCAA
50068808 GGTATGAT-GCGACATCCTC-A
1 GGTATG-TCGCGACATCCTCAA
*
50068828 GGCTGTGTCGCGA
1 GG-TATGTCGCGA
50068841 TATTGAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 4 0.14
21 23 0.82
22 1 0.04
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (21 bp):
GGTATGTCGCGACATCCTCAA
Found at i:50076528 original size:22 final size:21
Alignment explanation
Indices: 50076483--50076528 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
50076473 ACTACCTTCA
** *
50076483 ATGTCGTGACATAGGCTGAGG
1 ATGTCGTGACATACCCTGAAG
50076504 ATGTCGTGACATACCCCTGAAG
1 ATGTCGTGACATA-CCCTGAAG
50076526 ATG
1 ATG
50076529 GCTACAGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (21 bp):
ATGTCGTGACATACCCTGAAG
Found at i:50079230 original size:14 final size:14
Alignment explanation
Indices: 50079211--50079237 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50079201 ATTTATTAAA
50079211 AAAATTACAAATAT
1 AAAATTACAAATAT
50079225 AAAATTACAAATA
1 AAAATTACAAATA
50079238 CACTACACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAATTACAAATAT
Found at i:50080598 original size:63 final size:57
Alignment explanation
Indices: 50080473--50080585 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
50080463 AAAAATGGTG
* *
50080473 AAATGGAGAAATAGGAAACATTTGGAAATGATTAAGGTTTTCTCCAAAATGAAAATAA
1 AAATGGAGAAATA-GAAACATTTGGAAATGAATAAGATTTTCTCCAAAATGAAAATAA
* *
50080531 AAATGGAGAAAT-GAAATCATTTGGAAATGAATATGATTTTCTCTAAAATGAAAAT
1 AAATGGAGAAATAGAAA-CATTTGGAAATGAATAAGATTTTCTCCAAAATGAAAAT
50080586 GACATGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 4 0.08
57 34 0.68
58 12 0.24
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (57 bp):
AAATGGAGAAATAGAAACATTTGGAAATGAATAAGATTTTCTCCAAAATGAAAATAA
Found at i:50088794 original size:23 final size:23
Alignment explanation
Indices: 50088708--50088787 Score: 126
Period size: 23 Copynumber: 3.5 Consensus size: 23
50088698 TTTATACATT
*
50088708 AATCACATCAATATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
50088731 AATCACATTAATATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
*
50088754 AAGCACATTAACT-TTTAAGCATA
1 AATCACATTAA-TATTTAAGCATA
50088777 AATCACATTAA
1 AATCACATTAA
50088788 CTTTTAACAC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
23 52 0.98
24 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.31
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCATA
Found at i:50089913 original size:13 final size:13
Alignment explanation
Indices: 50089895--50089919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50089885 TGTGATTTTT
50089895 AAAGTTAATAAGC
1 AAAGTTAATAAGC
50089908 AAAGTTAATAAG
1 AAAGTTAATAAG
50089920 GTAATTTAAT
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:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (13 bp):
AAAGTTAATAAGC
Found at i:50092169 original size:20 final size:20
Alignment explanation
Indices: 50092146--50092187 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
50092136 CAAGTTAGTG
50092146 ATAAACACATAACTTAACTA
1 ATAAACACATAACTTAACTA
*
50092166 ATAAACACATAACTTAGCTA
1 ATAAACACATAACTTAACTA
50092186 AT
1 AT
50092188 CCATCACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAAACACATAACTTAACTA
Found at i:50093956 original size:16 final size:17
Alignment explanation
Indices: 50093927--50093959 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50093917 ATACACCTTG
50093927 AAACTATAGAATTGTGA
1 AAACTATAGAATTGTGA
50093944 AAACTATAG-ATTGTGA
1 AAACTATAGAATTGTGA
50093960 GACTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AAACTATAGAATTGTGA
Found at i:50100220 original size:50 final size:51
Alignment explanation
Indices: 50100163--50100392 Score: 209
Period size: 50 Copynumber: 4.5 Consensus size: 51
50100153 TATCATTTGA
** *
50100163 TACACGTAGTAGTGTTCACATAGTACTAAACACATGATC-AAG-TTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTAAACACATGACCAAAGCTTTT-CGG
* *
50100213 TTCACGTAGTAGCCTTCACATAGTACTACACACATGACCAAAGCTTTTCGG
1 TACACGTAGTAGCCTTCACATAGTACTAAACACATGACCAAAGCTTTTCGG
* * * ** * *
50100264 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTAAACACATGACCAAAGC-TTT-TCGG
* * * * * *
50100315 TTCAC-TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCAG
1 TACACGTAGTAGCCTTCACATAGTACTAAACACATGACCAAAGCTTTTCGG
* * *
50100365 TACACATTGTAGCCTTCACTTAGTACTA
1 TACACGTAGTAGCCTTCACATAGTACTA
50100393 CACATGTGAC
Statistics
Matches: 149, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.01
50 73 0.49
51 68 0.46
52 6 0.04
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTAAACACATGACCAAAGCTTTTCGG
Found at i:50100290 original size:51 final size:50
Alignment explanation
Indices: 50100163--50100447 Score: 234
Period size: 51 Copynumber: 5.6 Consensus size: 50
50100153 TATCATTTGA
* ** * *
50100163 TACACGTAGTAGTGTTCACATAGTACTAAACACATGATCAAG-TTTTACGG
1 TACACATAGTAGCCTTCACATAGTACTACACACATGACCAAGCTTTT-CGG
* *
50100213 TTCACGTAGTAGCCTTCACATAGTACTACACACATGACCAAAGCTTTTCGG
1 TACACATAGTAGCCTTCACATAGTACTACACACATGACC-AAGCTTTTCGG
* ** * *
50100264 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGA
1 TACACATAGTAGCCTTCACATAGTACTACACACATGACCAAGC-TTT-TCGG
* * * * *
50100315 TTCAC-TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCAG
1 TACACATAGTAGCCTTCACATAGTACTACACACATGACC-AAGCTTTTCGG
* * ** *** **
50100365 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTTTTTATCAA
1 TACACATAGTAGCCTTCACATAGTACTACACACATGACCAAGCTTT-TCGG
* * *
50100416 TACACGTAGTAGCCTTCACACAATACTACACA
1 TACACATAGTAGCCTTCACATAGTACTACACA
50100448 TGTGTTCATC
Statistics
Matches: 192, Mismatches: 35, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
49 2 0.01
50 76 0.40
51 108 0.56
52 6 0.03
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (50 bp):
TACACATAGTAGCCTTCACATAGTACTACACACATGACCAAGCTTTTCGG
Found at i:50100324 original size:101 final size:102
Alignment explanation
Indices: 50100213--50100447 Score: 373
Period size: 101 Copynumber: 2.3 Consensus size: 102
50100203 AGTTTTACGG
* * *
50100213 TTCACGTAGTAGCCTTCACATAGTACTACACACATGACCAAAGCTTTTCGGTACACATAGTAGCC
1 TTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCTCAGTACACATAGTAGCC
*
50100278 TTCACTTAGTACTACACATGTGACCATCATTTATCGA
66 TTCACTTAGTACTACACATGTGACCATCATTTATCAA
* *
50100315 TTCAC-TAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCAGTACACATTGTAGCC
1 TTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCTCAGTACACATAGTAGCC
**
50100379 TTCACTTAGTACTACACATGTGACCATTTTTTATCAA
66 TTCACTTAGTACTACACATGTGACCATCATTTATCAA
* *
50100416 TACACGTAGTAGCCTTCACACAATACTACACA
1 TTCACGTAGTAGCCTTCACACAGTACTACACA
50100448 TGTGTTCATC
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
101 92 0.75
102 30 0.25
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (102 bp):
TTCACGTAGTAGCCTTCACACAGTACTACACACATGACCAAAGCTTCTCAGTACACATAGTAGCC
TTCACTTAGTACTACACATGTGACCATCATTTATCAA
Found at i:50103646 original size:41 final size:40
Alignment explanation
Indices: 50103589--50103735 Score: 168
Period size: 41 Copynumber: 3.6 Consensus size: 40
50103579 AAAAATTATG
* *
50103589 AATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCTTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC-TA
* ** *
50103630 AATTGCACATACGTGCCCTTGCCTATACTTCGGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCTA
* * *
50103671 AATTGCAAATATGTGCCCCTGTTTGTACTTCGGTACCGCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC-CTA
* *
50103712 AATTGCACACATGTGCCCCTGTTT
1 AATTGCACATACGTGCCCCTGTTT
50103736 AGGCTTCAGA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 2 0.02
41 84 0.94
42 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (40 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTA
Found at i:50110869 original size:41 final size:41
Alignment explanation
Indices: 50110816--50110933 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 41
50110806 TTCACATGTA
50110816 TGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATATG
1 TGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATATG
* ** * *
50110857 TGCCCCTGTTTGTACTTTAGTA-CTCTGAATTGCACATATG
1 TGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATATG
*
50110897 TGCCCCTATTTGTACTTCGATACCCCTAAATTGCACA
1 TGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACA
50110934 CACCCCTGCC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 34 0.52
41 31 0.48
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (41 bp):
TGCCCCTATTTGTACTTCGGTACCCCTAAATTGCACATATG
Found at i:50110899 original size:40 final size:41
Alignment explanation
Indices: 50110801--50110933 Score: 162
Period size: 41 Copynumber: 3.3 Consensus size: 41
50110791 AGGAAAATGA
* * * *
50110801 TGAATTTCACATGTATGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCC
* * * *
50110842 TAAATTGCACATATGTGCCCCTGTTTGTACTTTAGTA-CTC
1 TGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCC
50110882 TGAATTGCACATATGTGCCCCTATTTGTACTTC-GATACCCC
1 TGAATTGCACATATGTGCCCCTATTTGTACTTCAG-TACCCC
*
50110923 TAAATTGCACA
1 TGAATTGCACA
50110934 CACCCCTGCC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.44
41 42 0.55
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.36
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:50123323 original size:17 final size:17
Alignment explanation
Indices: 50123301--50123334 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50123291 CTCTAACATT
*
50123301 AAAATGCAATGACAATA
1 AAAATGCAATGAAAATA
50123318 AAAATGCAATGAAAATA
1 AAAATGCAATGAAAATA
50123335 TTTACTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:50130859 original size:31 final size:30
Alignment explanation
Indices: 50130773--50130870 Score: 85
Period size: 31 Copynumber: 3.3 Consensus size: 30
50130763 GGTCAAAGTA
*
50130773 TAATTTTAGGAAAATTTTGGGGCC-AAATG
1 TAATTTTAGGAAAATTTAGGGGCCAAAATG
* * **
50130802 TAA--ATAGGAAAATTTAAAGGTTCAAAATG
1 TAATTTTAGGAAAATTT-AGGGGCCAAAATG
* *
50130831 TAATTTTAGGAAAATTTGGGGGGCCAAAATA
1 TAATTTTAGGAAAATTT-AGGGGCCAAAATG
50130862 TAAATTTTA
1 T-AATTTTA
50130871 AAATTTTTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
27 11 0.21
28 3 0.06
29 11 0.21
31 20 0.38
32 7 0.13
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (30 bp):
TAATTTTAGGAAAATTTAGGGGCCAAAATG
Found at i:50137925 original size:23 final size:23
Alignment explanation
Indices: 50137899--50137952 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
50137889 TATTTGAATT
50137899 ATTCGAGTCAACTCGAACAAGTA
1 ATTCGAGTCAACTCGAACAAGTA
50137922 ATTCGAGTCAACTCGAACAAGTA
1 ATTCGAGTCAACTCGAACAAGTA
50137945 ATTCGAGT
1 ATTCGAGT
50137953 TTCGAGTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (23 bp):
ATTCGAGTCAACTCGAACAAGTA
Found at i:50138105 original size:20 final size:19
Alignment explanation
Indices: 50138082--50138147 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
50138072 AAAAAGGAAA
50138082 TCAAAATAATTTTCAAATAT
1 TCAAAATAATTTTCAAA-AT
*
50138102 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTTCAAAAT
* *
50138121 TAAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TCAAAAT
50138140 TGCAAAAT
1 T-CAAAAT
50138148 TTATATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 21 0.52
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (19 bp):
TCAAAATAATTTTCAAAAT
Found at i:50142929 original size:59 final size:59
Alignment explanation
Indices: 50142837--50142954 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
50142827 AAATCTAAAT
50142837 CCAACTAAAAATGCTAAAATTAAGAAGAAAAATCTGATTTATCATTTTCTTATTAGAAA
1 CCAACTAAAAATGCTAAAATTAAGAAGAAAAATCTGATTTATCATTTTCTTATTAGAAA
*
50142896 CCAACTAAAAATGCTAAAATTAGGAAGAAAAATCTGATTTATCATTTTCTTATTAGAAA
1 CCAACTAAAAATGCTAAAATTAAGAAGAAAAATCTGATTTATCATTTTCTTATTAGAAA
50142955 GAGATAAGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (59 bp):
CCAACTAAAAATGCTAAAATTAAGAAGAAAAATCTGATTTATCATTTTCTTATTAGAAA
Found at i:50144902 original size:27 final size:27
Alignment explanation
Indices: 50144867--50144945 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
50144857 CAAGGTCACG
50144867 ATCAATAGCGTCACTATCATCAATAGC
1 ATCAATAGCGTCACTATCATCAATAGC
* * * * * *
50144894 GTCACTAGCATCAATATCGTCACTAGC
1 ATCAATAGCGTCACTATCATCAATAGC
**
50144921 ATCAATATTGTCACTATCATCAATA
1 ATCAATAGCGTCACTATCATCAATA
50144946 TCGATATCAT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.29
Consensus pattern (27 bp):
ATCAATAGCGTCACTATCATCAATAGC
Found at i:50144907 original size:36 final size:36
Alignment explanation
Indices: 50144867--50144960 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
50144857 CAAGGTCACG
*
50144867 ATCAATAGCGTCACTATCATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTATCATCAATAGCGTCACTAGC
* ** *
50144903 ATCAATATCGTCACTAGCATCAATATTGTCACTATC
1 ATCAATATCGTCACTATCATCAATAGCGTCACTAGC
50144939 ATCAATATCG--A-TATCATCAATA
1 ATCAATATCGTCACTATCATCAATA
50144961 AGAAAACCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 10 0.19
34 1 0.02
36 41 0.79
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (36 bp):
ATCAATATCGTCACTATCATCAATAGCGTCACTAGC
Found at i:50144946 original size:18 final size:18
Alignment explanation
Indices: 50144867--50144948 Score: 119
Period size: 18 Copynumber: 4.6 Consensus size: 18
50144857 CAAGGTCACG
* *
50144867 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
*
50144885 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
50144903 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
* *
50144921 ATCAATATTGTCACTATC
1 ATCAATATCGTCACTAGC
50144939 ATCAATATCG
1 ATCAATATCG
50144949 ATATCATCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:50146388 original size:21 final size:20
Alignment explanation
Indices: 50146348--50146412 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
50146338 GTTAATTTCA
*
50146348 TTTTTAAT-ATTATT-TAAT
1 TTTTTAATAATTTTTATAAT
* *
50146366 TTTTTATTTTATTTTTATAAT
1 TTTTTA-ATAATTTTTATAAT
*
50146387 TTAATTAATAATTTTTATAAT
1 TT-TTTAATAATTTTTATAAT
50146408 TTTTT
1 TTTTT
50146413 TTATAATAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.16
19 1 0.03
20 7 0.19
21 20 0.54
22 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTAATAATTTTTATAAT
Found at i:50146418 original size:21 final size:21
Alignment explanation
Indices: 50146362--50146419 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
50146352 TAATATTATT
*
50146362 TAATTTTTTATT-TTATTTTTA
1 TAATTTTTT-TTATAATTTTTA
** *
50146383 TAATTTAATTAATAATTTTTA
1 TAATTTTTTTTATAATTTTTA
50146404 TAATTTTTTTTATAAT
1 TAATTTTTTTTATAAT
50146420 AACTGGTAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TAATTTTTTTTATAATTTTTA
Found at i:50156095 original size:30 final size:30
Alignment explanation
Indices: 50156061--50156120 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50156051 GCGGTCTGAT
* *
50156061 GGCCGTGTGACACACATGGCCTGACTACAC
1 GGCCGTGTAACACACACGGCCTGACTACAC
* *
50156091 GGCCGTGTAACACTCACGGCCTGGCTACAC
1 GGCCGTGTAACACACACGGCCTGACTACAC
50156121 TGTCATGTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.17
Consensus pattern (30 bp):
GGCCGTGTAACACACACGGCCTGACTACAC
Found at i:50158444 original size:43 final size:43
Alignment explanation
Indices: 50158359--50158476 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 43
50158349 CTAGTACAAC
* * *
50158359 GCCAACGTCCCAAAC-GTGGTCTTACATG-TAATCACAAATCGAT
1 GCCAACGTCCCAGACAG-GGTCTTACACGAAAAT-ACAAATCGAT
* * *
50158402 GCC-ACTGTCCTAGACAGGGTCTTGCACGAAAATACAAGTCGAT
1 GCCAAC-GTCCCAGACAGGGTCTTACACGAAAATACAAATCGAT
* *
50158445 GCCAACGTCCCAGACATGGTCTTATACGAAAA
1 GCCAACGTCCCAGACAGGGTCTTACACGAAAA
50158477 CACTTATCAG
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.03
43 53 0.87
44 6 0.10
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (43 bp):
GCCAACGTCCCAGACAGGGTCTTACACGAAAATACAAATCGAT
Found at i:50159816 original size:18 final size:19
Alignment explanation
Indices: 50159780--50159826 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
50159770 TTACCCCTAT
50159780 TTTCAAAATTTCTAAATTT-
1 TTTC-AAATTTCTAAATTTG
*
50159799 TTCTCAAATTTCT-TATTTG
1 TT-TCAAATTTCTAAATTTG
50159818 TTTCAAATT
1 TTTCAAATT
50159827 AGTCCTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.44
19 12 0.48
20 2 0.08
ACGTcount: A:0.30, C:0.13, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTCAAATTTCTAAATTTG
Found at i:50160572 original size:18 final size:18
Alignment explanation
Indices: 50160546--50160582 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50160536 TCAAAAAGAC
*
50160546 CACCGCTATCCTTATATA
1 CACCACTATCCTTATATA
50160564 CACCACTATCCTTATATA
1 CACCACTATCCTTATATA
50160582 C
1 C
50160583 TTAAGTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32
Consensus pattern (18 bp):
CACCACTATCCTTATATA
Found at i:50171365 original size:21 final size:21
Alignment explanation
Indices: 50171324--50171376 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
50171314 TTTGGTTGAA
*
50171324 AAATTATTTAATTGACAAATT
1 AAATTAATTAATTGACAAATT
* * **
50171345 AATTTAGTTAATTGATTAATT
1 AAATTAATTAATTGACAAATT
50171366 AAATTAATTAA
1 AAATTAATTAA
50171377 ATAAAATACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (21 bp):
AAATTAATTAATTGACAAATT
Found at i:50171982 original size:22 final size:22
Alignment explanation
Indices: 50171932--50171982 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
50171922 TCCTTTTCAT
* *
50171932 AATCT-AAGCTTAATTCCTATC
1 AATCTCAAGCCTAATTCCAATC
*
50171953 AATTTCAAGCCTAATT-CAATC
1 AATCTCAAGCCTAATTCCAATC
50171974 AAATCTCAA
1 -AATCTCAA
50171983 TCAGGGAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (22 bp):
AATCTCAAGCCTAATTCCAATC
Found at i:50173401 original size:21 final size:23
Alignment explanation
Indices: 50173377--50173423 Score: 80
Period size: 21 Copynumber: 2.1 Consensus size: 23
50173367 TTTAAAATTT
50173377 AATATGCTATTTTC-T-TTGTAA
1 AATATGCTATTTTCGTGTTGTAA
50173398 AATATGCTATTTTCGTGTTGTAA
1 AATATGCTATTTTCGTGTTGTAA
50173421 AAT
1 AAT
50173424 TTAATATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.58
22 1 0.04
23 9 0.38
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
AATATGCTATTTTCGTGTTGTAA
Found at i:50180934 original size:29 final size:28
Alignment explanation
Indices: 50180887--50180963 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
50180877 TAATTTTTAG
50180887 GGGTTCT-AAAAAATAATTTGTACAGGAT
1 GGGTTCTGAAAAAATAATTTGT-CAGGAT
**
50180915 GGGTTCTGAAAAAATAATTTTGTGGGGAT
1 GGGTTCTGAAAAAATAA-TTTGTCAGGAT
* *
50180944 GGGCTCTGAAAAAGTAATTT
1 GGGTTCTGAAAAAATAATTT
50180964 TGACGATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 10 0.23
29 28 0.65
30 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (28 bp):
GGGTTCTGAAAAAATAATTTGTCAGGAT
Found at i:50180974 original size:29 final size:29
Alignment explanation
Indices: 50180894--50180975 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
50180884 TAGGGGTTCT
*
50180894 AAAAAATAA-TTTGTAC-AGGATGGGTTCTG
1 AAAAAATAATTTTG-ACGA-GATGGGCTCTG
** *
50180923 AAAAAATAATTTTGTGGGGATGGGCTCTG
1 AAAAAATAATTTTGACGAGATGGGCTCTG
* *
50180952 AAAAAGTAATTTTGACGATATGGG
1 AAAAAATAATTTTGACGAGATGGG
50180976 TTGAGTTTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
29 38 0.90
30 4 0.10
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (29 bp):
AAAAAATAATTTTGACGAGATGGGCTCTG
Found at i:50181528 original size:13 final size:13
Alignment explanation
Indices: 50181510--50181534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50181500 TAATGTTTTG
50181510 ATTTTTCGTGTTA
1 ATTTTTCGTGTTA
50181523 ATTTTTCGTGTT
1 ATTTTTCGTGTT
50181535 TCAAATTTCT
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:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTTTCGTGTTA
Found at i:50185027 original size:24 final size:24
Alignment explanation
Indices: 50184989--50185039 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
50184979 GTCATTAGAG
50184989 TTATCGATTTCAGCTCT-TATGAGC
1 TTATCGATTTCAGCT-TGTATGAGC
50185013 TTATCGATCTT-AGCTTGTATGAGC
1 TTATCGAT-TTCAGCTTGTATGAGC
50185037 TTA
1 TTA
50185040 CCCTTATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.04
24 22 0.88
25 2 0.08
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (24 bp):
TTATCGATTTCAGCTTGTATGAGC
Found at i:50185083 original size:24 final size:24
Alignment explanation
Indices: 50185022--50185083 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
50185012 CTTATCGATC
*
50185022 TTAGCTTGTATGAGCTTACCCTTA
1 TTAGCTCGTATGAGCTTACCCTTA
* * *
50185046 TTCAGCTCGGATGAGGTTACCGTT-
1 TT-AGCTCGTATGAGCTTACCCTTA
50185070 TATAGCTCGTATGA
1 T-TAGCTCGTATGA
50185084 ACATACATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 13 0.42
25 18 0.58
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (24 bp):
TTAGCTCGTATGAGCTTACCCTTA
Found at i:50187959 original size:9 final size:9
Alignment explanation
Indices: 50187945--50187984 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
50187935 AATGGCTCCT
50187945 AAAGAGTTG
1 AAAGAGTTG
50187954 AAAGAGTTG
1 AAAGAGTTG
50187963 AAAGCATAGTTG
1 AAAG---AGTTG
50187975 AAAGAGTTG
1 AAAGAGTTG
50187984 A
1 A
50187985 CTGTTAGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 19 0.68
12 9 0.32
ACGTcount: A:0.45, C:0.03, G:0.30, T:0.23
Consensus pattern (9 bp):
AAAGAGTTG
Found at i:50193861 original size:3 final size:3
Alignment explanation
Indices: 50193853--50193888 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50193843 AAACTTGTTT
50193853 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
50193889 TAATTATCTT
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:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:50195470 original size:13 final size:12
Alignment explanation
Indices: 50195452--50195502 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
50195442 AATCCCAAAA
50195452 TTTCTTCTTTTCC
1 TTTCTTC-TTTCC
* *
50195465 TTTCTTTTTTTC
1 TTTCTTCTTTCC
*
50195477 TTT-TTCTTTCA
1 TTTCTTCTTTCC
50195488 TTTCCTTCTTTCC
1 TTT-CTTCTTTCC
50195501 TT
1 TT
50195503 CTCTGTTTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 8 0.27
12 7 0.23
13 15 0.50
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTTCTTTCC
Found at i:50195496 original size:19 final size:18
Alignment explanation
Indices: 50195451--50195502 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
50195441 AAATCCCAAA
50195451 ATTTCTTCTTTTCCTTTC
1 ATTTCTTCTTTTCCTTTC
* * *
50195469 TTTTTTTCTTTTTCTTTC
1 ATTTCTTCTTTTCCTTTC
50195487 ATTTCCTTC-TTTCCTT
1 ATTT-CTTCTTTTCCTT
50195503 CTCTGTTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTCTTCTTTTCCTTTC
Found at i:50195592 original size:11 final size:11
Alignment explanation
Indices: 50195572--50195603 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
50195562 TTAATTAGTT
50195572 TAATATAATAA
1 TAATATAATAA
*
50195583 TAATAAAATAA
1 TAATATAATAA
50195594 TAATATAATA
1 TAATATAATA
50195604 TTACTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATATAATAA
Found at i:50195740 original size:14 final size:13
Alignment explanation
Indices: 50195714--50195764 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
50195704 GTTTATTTAA
50195714 AATATAATAATAT
1 AATATAATAATAT
50195727 AATATAATTAATAT
1 AATATAA-TAATAT
* *
50195741 AAT-TTACAATAT
1 AATATAATAATAT
*
50195753 AATAAAATAATA
1 AATATAATAATA
50195765 ATATACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 8 0.26
13 14 0.45
14 9 0.29
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:50198312 original size:16 final size:18
Alignment explanation
Indices: 50198291--50198328 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
50198281 ATTTGAATAT
*
50198291 TAATTTGAAT-ATATTA-
1 TAATTTAAATAATATTAC
50198307 TAATTTAAATAATATTAC
1 TAATTTAAATAATATTAC
50198325 TAAT
1 TAAT
50198329 AATTCTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 6 0.32
18 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTAAATAATATTAC
Found at i:50200265 original size:55 final size:55
Alignment explanation
Indices: 50200192--50200300 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
50200182 CTACTTTAAG
50200192 ATTTAAGGTTTGGAATGTTAGTATTGTATTTATAAATAGATTATTTTAAAGATTA
1 ATTTAAGGTTTGGAATGTTAGTATTGTATTTATAAATAGATTATTTTAAAGATTA
*
50200247 ATTTAAGGTTTGGAATGTTAGTATTGTATTTATAAGTAGATTATTTTAAAGATT
1 ATTTAAGGTTTGGAATGTTAGTATTGTATTTATAAATAGATTATTTTAAAGATT
50200301 TCATATAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (55 bp):
ATTTAAGGTTTGGAATGTTAGTATTGTATTTATAAATAGATTATTTTAAAGATTA
Found at i:50202658 original size:32 final size:32
Alignment explanation
Indices: 50202621--50202685 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
50202611 AAAATTTAAC
*
50202621 TAAGTAATAAAAATAAAAAGTAAAGACTCCAA
1 TAAGTAATAAAAATAAAAAGTAAAAACTCCAA
50202653 TAAGTAATAAAAATAAAAAGTAAAAACTCCAA
1 TAAGTAATAAAAATAAAAAGTAAAAACTCCAA
50202685 T
1 T
50202686 GCACGATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.63, C:0.09, G:0.08, T:0.20
Consensus pattern (32 bp):
TAAGTAATAAAAATAAAAAGTAAAAACTCCAA
Found at i:50204195 original size:27 final size:27
Alignment explanation
Indices: 50204165--50204216 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
50204155 AAATAATTAA
*
50204165 AATTCAA-TATTTTAATAATTTAAGTTC
1 AATTCAATTATTTT-ATAATTAAAGTTC
*
50204192 AATTTAATTATTTTATAATTAAAGT
1 AATTCAATTATTTTATAATTAAAGT
50204217 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (27 bp):
AATTCAATTATTTTATAATTAAAGTTC
Found at i:50206747 original size:14 final size:14
Alignment explanation
Indices: 50206728--50206759 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
50206718 AGGTCATTTA
50206728 GCCCAACCAAACTG
1 GCCCAACCAAACTG
50206742 GCCCAACCAAACTG
1 GCCCAACCAAACTG
50206756 GCCC
1 GCCC
50206760 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:50211870 original size:14 final size:14
Alignment explanation
Indices: 50211851--50211882 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
50211841 AGGTCATTTA
50211851 GCCCAACCAAACTG
1 GCCCAACCAAACTG
*
50211865 GCCCAACCAAATTG
1 GCCCAACCAAACTG
50211879 GCCC
1 GCCC
50211883 GGTGATTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.44, G:0.16, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:50217409 original size:39 final size:39
Alignment explanation
Indices: 50217310--50217409 Score: 146
Period size: 39 Copynumber: 2.6 Consensus size: 39
50217300 CATATTCACT
* *
50217310 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
50217349 TTTAAACATATATCATAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
50217388 TTTAAGCATGTATTACAATACT
1 TTTAAGCATATATCACAATACT
50217410 AAAAAATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:50225594 original size:29 final size:29
Alignment explanation
Indices: 50225560--50225694 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
50225550 GATGATCGAA
*
50225560 ACCATCCATTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCA-TAATCGATGGTCATC
* * *
50225590 A-CATCCCTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATGGTCATC
* * *
50225618 ACCATCCCTTTTCATATTCGATAGTCGTC
1 ACCATCCCTTTTCATAATCGATGGTCATC
* * * *
50225647 ACTATCCTTTTTCATAGTTGATGGTCATC
1 ACCATCCCTTTTCATAATCGATGGTCATC
50225676 ACCATCCCTTTTCATAATC
1 ACCATCCCTTTTCATAATC
50225695 AACAACGAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
28 13 0.15
29 73 0.84
30 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATGGTCATC
Found at i:50225630 original size:58 final size:58
Alignment explanation
Indices: 50225560--50225694 Score: 200
Period size: 58 Copynumber: 2.3 Consensus size: 58
50225550 GATGATCGAA
* * *
50225560 ACCATCCATTTTCATTAATCGATGGTCATCAC-ATCCCTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCA-TAATCGATAGTCATCACTATCCCTTTTCATAGTTGATGGTCATC
* * *
50225618 ACCATCCCTTTTCATATTCGATAGTCGTCACTATCCTTTTTCATAGTTGATGGTCATC
1 ACCATCCCTTTTCATAATCGATAGTCATCACTATCCCTTTTCATAGTTGATGGTCATC
50225676 ACCATCCCTTTTCATAATC
1 ACCATCCCTTTTCATAATC
50225695 AACAACGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 14 0.20
58 55 0.80
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.39
Consensus pattern (58 bp):
ACCATCCCTTTTCATAATCGATAGTCATCACTATCCCTTTTCATAGTTGATGGTCATC
Found at i:50225711 original size:29 final size:29
Alignment explanation
Indices: 50225679--50225749 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
50225669 GGTCATCACC
*
50225679 ATCCCTTTTCATAATCAACAACGAAAGTT
1 ATCCCTTTTCATAATCAACAACGAAAGCT
* * * *
50225708 ATCCCTTTTCATAATTAATAGCGGAAGCT
1 ATCCCTTTTCATAATCAACAACGAAAGCT
*
50225737 ATCTCTTTTCATA
1 ATCCCTTTTCATA
50225750 TTCGATGATC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAACAACGAAAGCT
Found at i:50225711 original size:58 final size:58
Alignment explanation
Indices: 50225592--50225720 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
50225582 TGGTCATCAC
* * * * * **
50225592 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTCGATAGTCGTCACT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCAACAGACGAAACT
* *
50225650 ATCCTTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCAACA-ACGAAAGTT
1 ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCAACAGACGAAA-CT
50225708 ATCCCTTTTCATA
1 ATCCCTTTTCATA
50225721 ATTAATAGCG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 3 0.05
58 57 0.95
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (58 bp):
ATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCAACAGACGAAACT
Found at i:50226441 original size:9 final size:9
Alignment explanation
Indices: 50226427--50226509 Score: 132
Period size: 9 Copynumber: 9.2 Consensus size: 9
50226417 TGGTTAAAAC
50226427 TTAACCGAA
1 TTAACCGAA
50226436 TTAACCGAA
1 TTAACCGAA
*
50226445 TTAACCTAA
1 TTAACCGAA
*
50226454 TTACCCGAA
1 TTAACCGAA
50226463 TTAACCGAA
1 TTAACCGAA
50226472 TTAACCGAA
1 TTAACCGAA
50226481 TTAACCGAA
1 TTAACCGAA
50226490 TT-ACTCGAA
1 TTAAC-CGAA
50226499 TTAACCGAA
1 TTAACCGAA
50226508 TT
1 TT
50226510 GAATCACTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
8 2 0.03
9 64 0.94
10 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.27
Consensus pattern (9 bp):
TTAACCGAA
Found at i:50228371 original size:40 final size:40
Alignment explanation
Indices: 50228247--50228363 Score: 207
Period size: 40 Copynumber: 2.9 Consensus size: 40
50228237 GTTTGCATAA
* *
50228247 AAAACGCCGCTAAAAATCGACCATTAGCGGCGCTTTATAT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
50228287 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
*
50228327 AAAACACCGCTAAAGATCGAGCATTAGCGGCGCTTTA
1 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTA
50228364 AGGAAAACGC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTATAT
Found at i:50228516 original size:41 final size:41
Alignment explanation
Indices: 50228414--50228531 Score: 191
Period size: 42 Copynumber: 2.9 Consensus size: 41
50228404 TTTTGACCTT
* *
50228414 TCAGGCCTTTAGCGGTGTTTTTGGAGAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
50228455 TCAGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCA-GGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
50228497 TCAGGGCTTTAGCGGCGTTTTTGTAAAAGCGCCGC
1 TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
50228532 AAAAACATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 33 0.46
42 39 0.54
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
Found at i:50228866 original size:14 final size:14
Alignment explanation
Indices: 50228837--50228966 Score: 91
Period size: 14 Copynumber: 9.2 Consensus size: 14
50228827 TATCTCTATA
* *
50228837 GTTTAAGGTTTTTG
1 GTTTAGGGTTTATG
*
50228851 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* * *
50228865 GTATAGAGTTTAAG
1 GTTTAGGGTTTATG
** *
50228879 GTTTATAGATTATGG
1 GTTTAGGGTTTAT-G
*
50228894 GTTTAGGGGTTATG
1 GTTTAGGGTTTATG
**
50228908 GTTTACAGTTTATG
1 GTTTAGGGTTTATG
*
50228922 GTTTAAGGTTTA-G
1 GTTTAGGGTTTATG
*
50228935 GATTTAGGGGTTATG
1 G-TTTAGGGTTTATG
* *
50228950 GTTTATGGTTTAAG
1 GTTTAGGGTTTATG
50228964 GTT
1 GTT
50228967 ATAGATTAAG
Statistics
Matches: 89, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
13 2 0.02
14 74 0.83
15 13 0.15
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:50228925 original size:7 final size:7
Alignment explanation
Indices: 50228837--50228966 Score: 75
Period size: 7 Copynumber: 18.4 Consensus size: 7
50228827 TATCTCTATA
*
50228837 GTTTAAG
1 GTTTATG
*
50228844 GTTTTTG
1 GTTTATG
*
50228851 GTTTAGG
1 GTTTATG
*
50228858 GTATATG
1 GTTTATG
*
50228865 GTATA-G
1 GTTTATG
*
50228871 AGTTTAAG
1 -GTTTATG
*
50228879 GTTTATA
1 GTTTATG
*
50228886 GATTATGG
1 GTTTAT-G
*
50228894 GTTTAGG
1 GTTTATG
*
50228901 GGTTATG
1 GTTTATG
**
50228908 GTTTACA
1 GTTTATG
50228915 GTTTATG
1 GTTTATG
*
50228922 GTTTAAG
1 GTTTATG
50228929 GTTTA-G
1 GTTTATG
*
50228935 GATTTAGG
1 G-TTTATG
*
50228943 GGTTATG
1 GTTTATG
50228950 GTTTATG
1 GTTTATG
*
50228957 GTTTAAG
1 GTTTATG
50228964 GTT
1 GTT
50228967 ATAGATTAAG
Statistics
Matches: 93, Mismatches: 25, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
6 3 0.03
7 83 0.89
8 7 0.08
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.46
Consensus pattern (7 bp):
GTTTATG
Found at i:50229178 original size:16 final size:17
Alignment explanation
Indices: 50229159--50229200 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
50229149 AAATTATTTA
50229159 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
50229175 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
50229192 TAAAATAAT
1 T-AAATAAT
50229201 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:50229713 original size:21 final size:21
Alignment explanation
Indices: 50229687--50229734 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
50229677 AAGTAACATG
50229687 TGGATAGGTAACTATCTATTT
1 TGGATAGGTAACTATCTATTT
50229708 TGGATAGGTAACTATCTATTT
1 TGGATAGGTAACTATCTATTT
50229729 TGGATA
1 TGGATA
50229735 AGACTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (21 bp):
TGGATAGGTAACTATCTATTT
Found at i:50234062 original size:45 final size:43
Alignment explanation
Indices: 50233980--50234065 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 43
50233970 TTAAAAGATA
***
50233980 TATTTTTAGCGGCGTTTGTGTCCAAAGCGCCACTAAAGGTCTC
1 TATTTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTC
*
50234023 TATTTTATAGCGGCGTTTGTGAGAAAAAGCGCCGCTAAAGGTC
1 TATTTT-TAGCGGCGTTTGTG-GAAAAAGCGCCACTAAAGGTC
50234066 ATAGTCTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 6 0.16
44 14 0.38
45 17 0.46
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
TATTTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCTC
Found at i:50234115 original size:42 final size:42
Alignment explanation
Indices: 50234048--50234249 Score: 262
Period size: 42 Copynumber: 4.8 Consensus size: 42
50234038 TTTGTGAGAA
* *
50234048 AAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCACTTGTGGG
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGTGGG
*
50234090 AAAGTGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGTGGG
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGTGGG
* * *
50234132 AAAGTGCCGCTAAAGATCATGGTCTTTAGTGGCGCTTGTGGG
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGTGGG
* * * ** *
50234174 AAAGCGCCGTTAAAGGTCTTGGTCTTTAGCGGCGTTTGTAGGA
1 AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGT-GGG
*
50234217 AAAGCGCCGCTAAA-AGTCTTGGTCTTTAGCGGC
1 AAAGCGCCGCTAAAGA-TCATGGTCTTTAGCGGC
50234250 GTTTATTTTT
Statistics
Matches: 144, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 112 0.78
43 32 0.22
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCATGGTCTTTAGCGGCACTTGTGGG
Found at i:50237119 original size:30 final size:30
Alignment explanation
Indices: 50237085--50237141 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50237075 ACTTAATATA
50237085 TACATATATACT-TATATTTTATAATTTATC
1 TACATATATA-TGTATATTTTATAATTTATC
* *
50237115 TACATATATATGTATTTTTTTTAATTT
1 TACATATATATGTATATTTTATAATTT
50237142 GTATATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (30 bp):
TACATATATATGTATATTTTATAATTTATC
Found at i:50237274 original size:23 final size:24
Alignment explanation
Indices: 50237211--50237275 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 24
50237201 GTTCATATTT
*
50237211 TATAATTTT-ATGTATATACATAC
1 TATAATTTTCATATATATACATAC
* *
50237234 GTATATATTTTCCTTATATGTACATA-
1 -TATA-ATTTT-CATATATATACATAC
50237260 TATAATTTTCATATAT
1 TATAATTTTCATATAT
50237276 TTTCTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 9 0.26
27 10 0.29
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (24 bp):
TATAATTTTCATATATATACATAC
Found at i:50237424 original size:21 final size:18
Alignment explanation
Indices: 50237391--50237430 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
50237381 TTCGTTTTGT
50237391 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
50237410 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
50237430 T
1 T
50237431 GCATCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:50249522 original size:98 final size:98
Alignment explanation
Indices: 50249350--50250172 Score: 1268
Period size: 98 Copynumber: 8.4 Consensus size: 98
50249340 AAACAATAGT
* *
50249350 TTGCAATTTAAAAGATCGAAGCCACAGCAGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
50249415 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
50249448 TTACAATTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
50249513 GAAGCTACAACAGCGAATCTTACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
50249546 TTGCAATTTAAAGGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATACAGCGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
*
50249611 GAAGCTACAATAGCGAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * *
50249644 TTGCAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTTCTGGCGATGCAGCAGAGCAAATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
50249709 GAAGCTACAACAGTGAATCTCACTTCCCCAACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * *
50249742 TTGCAATTTAAAGGATCGAAGCAACAACGGTGAATCTTACTTCTGGTGATGCAGTGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
50249807 GAAGCTACAACAGTGAATCTTACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
50249840 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
***
50249905 GAAGCTACAACAATAAATCTCACTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
50249938 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAACCTTACTTCTGGCGATGCAGCGGAGCAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
50250003 GAAGCTACAATAGCGAATCTCACTTCCCCAACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * * * *
50250036 TTGCAATTTAAAAGATCGAAGCCACAGCAGTGAATCTTACTTTTGGCGATGTAGTGGAACAGATT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
* *
50250101 GAAGCTACAACGGCGAATCTCTCTTCCCCGACA
66 GAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
50250134 TTGCAATTTAAAAGTTCAAAGCCACAACGGCAAATCTTA
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTA
50250173 TTTCCTCGGC
Statistics
Matches: 660, Mismatches: 65, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 660 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (98 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATT
GAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:50251870 original size:21 final size:18
Alignment explanation
Indices: 50251837--50251876 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
50251827 TTCGTTTTGT
50251837 TCATTTTTTATTCACATTA
1 TCATTTTTTATTC-CATTA
50251856 TCATGTTTATTATTCCATTA
1 TCAT-TTT-TTATTCCATTA
50251876 T
1 T
50251877 GCATCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (18 bp):
TCATTTTTTATTCCATTA
Found at i:50253244 original size:21 final size:21
Alignment explanation
Indices: 50253218--50253259 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50253208 ATCATCATTT
50253218 CTTTGATGTCAATCTCCAAAG
1 CTTTGATGTCAATCTCCAAAG
50253239 CTTTGATGTCAATCTCCAAAG
1 CTTTGATGTCAATCTCCAAAG
50253260 ATTGGCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (21 bp):
CTTTGATGTCAATCTCCAAAG
Found at i:50255142 original size:24 final size:24
Alignment explanation
Indices: 50255092--50255143 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50255082 AATCAATGTC
* * *
50255092 AAATATATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
50255116 AAATAAATTATACTAATAAATATT
1 AAATAAATTATACTAATAAATACT
50255140 AAAT
1 AAAT
50255144 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:50260709 original size:95 final size:95
Alignment explanation
Indices: 50260536--50260726 Score: 274
Period size: 95 Copynumber: 2.0 Consensus size: 95
50260526 ATCAGTAACA
** **
50260536 CTTAGAGGTGATCATAGGTCAAGCCCAACTAAAAATTCAGGCTCGTTAACTAGGCTTGGGTTCAA
1 CTTAGAGGTGATCATAGGTCAAGCCCAACTAAAAATTCAGGCTCGTTAACTAGGCCCGGGCCCAA
**
50260601 CCCAACCTGAAAAATGGGCCTAAAATTTTG
66 CCCAACCCCAAAAATGGGCCTAAAATTTTG
* * * * *
50260631 CTTAGAGGTGTTCATAGGTCGAGCCCAACTAAAAATTTAGGCTCGTTAATTAGGCCCGGGCCCAG
1 CTTAGAGGTGATCATAGGTCAAGCCCAACTAAAAATTCAGGCTCGTTAACTAGGCCCGGGCCCAA
*
50260696 CCCGACCCCAAAAATGGGCCTAAAATTTTG
66 CCCAACCCCAAAAATGGGCCTAAAATTTTG
50260726 C
1 C
50260727 CCAAGCATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (95 bp):
CTTAGAGGTGATCATAGGTCAAGCCCAACTAAAAATTCAGGCTCGTTAACTAGGCCCGGGCCCAA
CCCAACCCCAAAAATGGGCCTAAAATTTTG
Found at i:50263882 original size:24 final size:24
Alignment explanation
Indices: 50263861--50263912 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50263851 AATCAATGTC
* *
50263861 AAATATATTGTGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
50263885 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
50263909 AAAT
1 AAAT
50263913 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:50264574 original size:354 final size:353
Alignment explanation
Indices: 50263885--50264594 Score: 1129
Period size: 354 Copynumber: 2.0 Consensus size: 353
50263875 AATAAATGCT
*
50263885 AAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATATATTGTTTAATTTGACTT
1 AAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATATATTGTTTAACTTGACTT
* * *
50263950 GCAAGAAATCTCTTAGAATTTGGGTTGCACAACTCTAACAATCTTCACCTTAACACGCATTCTCA
66 GCAAGAAATCTCTTAGAATTTGGGTTACACAACTCTAACAATCCTCACCTTAACACGAATTCTCA
* * * * *
50264015 ACGACCAAGTTCTCCACCTTTTCCACAAAACCCTTAAGGGTATTCTTCAACAATGAACACTAACT
131 ACGAACAAGTTCTCCACCTCTCCCACAAAACCCTTAAGGATATTCTTAAACAATGAACACTAACT
* *
50264080 AAGTCCAAGCAATGCTCAAAATTACTTATAGGAAGTGACTTAGTTATCATATCTACAAATTTATC
196 AAGTCCAAGCAATGCTCAAAATTACTTATAGGAAGTGACTTAGTCATCATATCTACAAATGTATC
* *
50264145 ATGAGTACTAACTTTTCTCACAACAATATCACCACGAGCAATAATATCACACAAGAAATGATACC
261 ATGACTACTAACTTTTCTCACAACAAGATCACCACGAGCAATAATATCACACAAGAAATGATACC
*
50264210 AAACGTCAATGTGCTTTGCCCTCTCATG
326 AAACGTCAATGTGCTTTGCCCACTCATG
*
50264238 AAATATATTATACTAATAAATACTAAATCTTCTAG-AAGAATAAATATATTTTGTTTAACTTGAC
1 AAATATATTATACTAATAAATACTAAATCTTCTAGAAAG-A-AAATATATATTGTTTAACTTGAC
* * * *
50264302 TTGCAAGCAATCTCTTAGAATTTGGGTTACACAACTCTAACGATCCTCACCTTGATACGAATTCT
64 TTGCAAGAAATCTCTTAGAATTTGGGTTACACAACTCTAACAATCCTCACCTTAACACGAATTCT
50264367 CAACGAACAAGTTCTCCACCTCTCCCACAAAACCCTTAAGGATATTCTTAAACAATGAACACTAA
129 CAACGAACAAGTTCTCCACCTCTCCCACAAAACCCTTAAGGATATTCTTAAACAATGAACACTAA
* **
50264432 CTAAGTCCAAGCAATGCTCAAATTTGGTTATAGGAAGTGACTTAGTCATCATATCTACAAGA-GT
194 CTAAGTCCAAGCAATGCTCAAAATTACTTATAGGAAGTGACTTAGTCATCATATCTACAA-ATGT
*
50264496 ATTATGACTACTAACTTTTCTCACAACAAGATCACCACGAGCAATAATATCACACACA-AAATGA
258 ATCATGACTACTAACTTTTCTCACAACAAGATCACCACGAGCAATAATATCACACA-AGAAATGA
** *
50264560 TACTGAACGTCAATGTGCTTTGTCCACTCATG
322 TACCAAACGTCAATGTGCTTTGCCCACTCATG
50264592 AAA
1 AAA
50264595 CATTTGATCC
Statistics
Matches: 327, Mismatches: 26, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
352 3 0.01
353 36 0.11
354 286 0.87
355 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (353 bp):
AAATATATTATACTAATAAATACTAAATCTTCTAGAAAGAAAATATATATTGTTTAACTTGACTT
GCAAGAAATCTCTTAGAATTTGGGTTACACAACTCTAACAATCCTCACCTTAACACGAATTCTCA
ACGAACAAGTTCTCCACCTCTCCCACAAAACCCTTAAGGATATTCTTAAACAATGAACACTAACT
AAGTCCAAGCAATGCTCAAAATTACTTATAGGAAGTGACTTAGTCATCATATCTACAAATGTATC
ATGACTACTAACTTTTCTCACAACAAGATCACCACGAGCAATAATATCACACAAGAAATGATACC
AAACGTCAATGTGCTTTGCCCACTCATG
Found at i:50267233 original size:30 final size:31
Alignment explanation
Indices: 50267194--50267253 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
50267184 GGAGGTGGGA
*
50267194 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGTGAAAAG
*
50267225 TGGG-AGGGAGTAAAAATTTTGGGTGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGTGAAAA
50267254 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGTGAAAAG
Found at i:50267800 original size:4 final size:4
Alignment explanation
Indices: 50267793--50267820 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
50267783 ATGTGGTTCG
50267793 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
50267821 TTCAAGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:50272620 original size:12 final size:12
Alignment explanation
Indices: 50272603--50272627 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50272593 GAAAGCAAGT
50272603 ATTAACCAATTA
1 ATTAACCAATTA
50272615 ATTAACCAATTA
1 ATTAACCAATTA
50272627 A
1 A
50272628 AGGCCGAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAACCAATTA
Found at i:50286534 original size:16 final size:16
Alignment explanation
Indices: 50286510--50286541 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50286500 ATTAAGTAAC
50286510 TAAAATAAATAAACAA
1 TAAAATAAATAAACAA
*
50286526 TAAATTAAATAAACAA
1 TAAAATAAATAAACAA
50286542 CTAAGCCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAATAAATAAACAA
Found at i:50288119 original size:221 final size:221
Alignment explanation
Indices: 50287668--50288133 Score: 505
Period size: 221 Copynumber: 2.1 Consensus size: 221
50287658 TATTGTTCCG
* * * ** * *
50287668 AGATGTCTATACTTGATTTTAGCCTCGAGTTTTTGTTTTTATACTCCGAGGAGAGCCCAAAGGAG
1 AGATGTCTATGCTTGATTTTAGCCTCGAGTTTTTCTCTCCATACTCCAAGGAGAACCCAAAGGAG
* * *
50287733 TTCACGAAGTTTCAGTGGGAGCGTTTAGGTCCACCAAGAAAATATTTTATAATTTAGCTTTGGTG
66 TTCACAAAGTTTCAGTGGAAGCGCTTAGGTCCACCAAGAAAATATTTTATAATTTAGCTTTGGTG
* *
50287798 GGATTCAAACCCATTAAAGCCACCTTTTATGTTAAGGGCGAGTATCTACTTTGTAGTGTCTCACT
131 GGATTCAAACCCATTAAAGCCACCTTTTATGTTAAGGGCGAGTATCTACTTAGTAGTGACTCACT
*
50287863 CCCTCAACAGTAAAGTATTGTTCCCA
196 CCCTCAACAGTAAAGTATCGTTCCCA
* * *
50287889 AGATGTCTATGCTCGATTTTAGCCTCGAGTTTTTCTCTCCCTACTCCAAGGAGAACCCAAAGGGG
1 AGATGTCTATGCTTGATTTTAGCCTCGAGTTTTTCTCTCCATACTCCAAGGAGAACCCAAAGGAG
* * * * *
50287954 TTTACAAAGTTTCAGTGGAAGCGCTTAGGTCCATCAGGAAAATGA-TTTATCATTTGGAC-TTGG
66 TTCACAAAGTTTCAGTGGAAGCGCTTAGGTCCACCAAGAAAAT-ATTTTATAATTTAG-CTTTGG
** * * * * *
50288017 TGGTG-TTTGAACTCA-TAATAGGCGCCTTTTATTTTGAGGG-GAGTATCTACTCTAG-AGTGAC
129 TGG-GATTCAAACCCATTAA-AGCCACCTTTTATGTTAAGGGCGAGTATCTACT-TAGTAGTGAC
* ** * *
50288078 TCATTCCCTCAATGGTGGAGGTATCGTTCCCGA
191 TCACTCCCTCAACAGT-AAAGTATCGTTCCC-A
* *
50288111 TG-TGTCTATGTTTGATTTTAGCC
1 AGATGTCTATGCTTGATTTTAGCC
50288134 CTAGGTTTCT
Statistics
Matches: 202, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
220 32 0.16
221 165 0.82
222 5 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (221 bp):
AGATGTCTATGCTTGATTTTAGCCTCGAGTTTTTCTCTCCATACTCCAAGGAGAACCCAAAGGAG
TTCACAAAGTTTCAGTGGAAGCGCTTAGGTCCACCAAGAAAATATTTTATAATTTAGCTTTGGTG
GGATTCAAACCCATTAAAGCCACCTTTTATGTTAAGGGCGAGTATCTACTTAGTAGTGACTCACT
CCCTCAACAGTAAAGTATCGTTCCCA
Found at i:50288743 original size:15 final size:15
Alignment explanation
Indices: 50288723--50288772 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
50288713 TTTCAATATT
50288723 TTAAAAGTATAAAGA
1 TTAAAAGTATAAAGA
* *
50288738 TTAAAATTAATCAAG-
1 TTAAAAGT-ATAAAGA
*
50288753 TTAAAAGTACAAAGA
1 TTAAAAGTATAAAGA
50288768 TTAAA
1 TTAAA
50288773 GTTAATCCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 4 0.14
15 19 0.68
16 5 0.18
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (15 bp):
TTAAAAGTATAAAGA
Found at i:50288759 original size:30 final size:30
Alignment explanation
Indices: 50288723--50288779 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
50288713 TTTCAATATT
*
50288723 TTAAAAGTATAAAGATTAAAATTAATCAAG
1 TTAAAAGTACAAAGATTAAAATTAATCAAG
*
50288753 TTAAAAGTACAAAGATTAAAGTTAATC
1 TTAAAAGTACAAAGATTAAAATTAATC
50288780 CAATTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (30 bp):
TTAAAAGTACAAAGATTAAAATTAATCAAG
Found at i:50298275 original size:27 final size:27
Alignment explanation
Indices: 50298245--50298421 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 27
50298235 AAATTGTACA
*
50298245 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
50298272 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
50298299 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
50298326 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * * *
50298354 GCACTAAGTGTGCGATTTTATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * * *
50298381 GCACTAAGTGTGTGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
50298408 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
50298422 GGCTCAACAT
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:50298412 original size:82 final size:81
Alignment explanation
Indices: 50298241--50298421 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
50298231 GATTAAATTG
* * *
50298241 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50298306 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
50298322 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
50298386 AAGTGTGTGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50298404 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50298422 GGCTCAACAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50320100 original size:27 final size:27
Alignment explanation
Indices: 50320070--50320246 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 27
50320060 AAATTGTACA
*
50320070 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
50320097 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
50320124 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
50320151 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * * *
50320179 GCACTAAGTGTGCGATTTTATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * * *
50320206 GCACTAAGTGTGTGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
50320233 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
50320247 GGCTCAACAT
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:50320237 original size:82 final size:81
Alignment explanation
Indices: 50320066--50320246 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
50320056 GATTAAATTG
* * *
50320066 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50320131 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
50320147 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
50320211 AAGTGTGTGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50320229 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50320247 GGCTCAACAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50328644 original size:25 final size:26
Alignment explanation
Indices: 50328616--50328666 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
50328606 CACCACTGAA
*
50328616 TCGGGGAATCAGCAC-TTGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
50328641 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
50328667 CTTTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.27, C:0.35, G:0.24, T:0.14
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:50328811 original size:105 final size:103
Alignment explanation
Indices: 50328584--50328849 Score: 419
Period size: 105 Copynumber: 2.6 Consensus size: 103
50328574 TAACCGTTAT
* *
50328584 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTT-GCAACCCCTCGGGGA
1 CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
50328648 ATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
*
50328686 CGGTGGAT-ATCGCACTTAGCATCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
50328750 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCCTTTT-ACATTTCAAAGATA
* * **
50328791 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
50328850 TTTATATACA
Statistics
Matches: 150, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
102 45 0.30
103 10 0.07
104 29 0.19
105 65 0.43
106 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (103 bp):
CGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
Found at i:50336227 original size:30 final size:29
Alignment explanation
Indices: 50336193--50336257 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50336183 TAATCCACCA
50336193 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
50336223 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
50336253 CCCAA
1 CCCAA
50336258 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:50336231 original size:31 final size:30
Alignment explanation
Indices: 50336200--50336257 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50336190 CCACCCAACT
50336200 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
50336230 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
50336258 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:50340479 original size:52 final size:50
Alignment explanation
Indices: 50340415--50340513 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 50
50340405 GTTATTGTAT
* * *
50340415 TTTAAAATTTTTTATTACTTTTTATTATTAACAAATATTTGAATTAAAAA
1 TTTAAAATTTTTTAATACTCTTTATCATTAACAAATATTTGAATTAAAAA
* * *
50340465 TTTAATAATATTTTTAATAGTCTTTATCATTAGCAAATGTTTGAATTAA
1 TTTAA-AAT-TTTTTAATACTCTTTATCATTAACAAATATTTGAATTAA
50340514 TCTACAAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 5 0.12
51 3 0.07
52 33 0.80
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (50 bp):
TTTAAAATTTTTTAATACTCTTTATCATTAACAAATATTTGAATTAAAAA
Found at i:50342402 original size:29 final size:29
Alignment explanation
Indices: 50342353--50342408 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
50342343 CAAATGCCTG
*
50342353 TTTTCGTAATTATTCTATTTTCTATATCT
1 TTTTCGTAATTATTATATTTTCTATATCT
*
50342382 TTTTCGTAATTAATTAT-TTTTTTATAT
1 TTTTCGTAATT-ATTATATTTTCTATAT
50342409 TATTTGGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTTCGTAATTATTATATTTTCTATATCT
Found at i:50349731 original size:22 final size:22
Alignment explanation
Indices: 50349706--50349748 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50349696 GTATTTGACC
50349706 TGTTCTGCAATCTTATCTGATA
1 TGTTCTGCAATCTTATCTGATA
** *
50349728 TGTTCTGTGATCTTATGTGAT
1 TGTTCTGCAATCTTATCTGAT
50349749 CTATTGCTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (22 bp):
TGTTCTGCAATCTTATCTGATA
Found at i:50355092 original size:4 final size:4
Alignment explanation
Indices: 50355083--50355112 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
50355073 TTCCTCTTAT
50355083 TTTC TTTC TTTC TTTC TTTC TTTC -TTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
50355113 TCCTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:50356483 original size:22 final size:22
Alignment explanation
Indices: 50356458--50356502 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
50356448 CTGTACCTGG
50356458 TCTGTTCTGCGATCTTATCTGA
1 TCTGTTCTGCGATCTTATCTGA
* *
50356480 TCTGTTCTGTGATTTTATCTGA
1 TCTGTTCTGCGATCTTATCTGA
50356502 T
1 T
50356503 TCGTTGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.18, T:0.51
Consensus pattern (22 bp):
TCTGTTCTGCGATCTTATCTGA
Found at i:50357395 original size:13 final size:13
Alignment explanation
Indices: 50357377--50357402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50357367 TGGCTAAAAA
50357377 ATTTACTAAAGTT
1 ATTTACTAAAGTT
50357390 ATTTACTAAAGTT
1 ATTTACTAAAGTT
50357403 TAGCAATTGC
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTACTAAAGTT
Found at i:50374485 original size:23 final size:22
Alignment explanation
Indices: 50374433--50374485 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
50374423 TCCACGTCTT
*
50374433 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
50374455 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
50374478 TTTCTTTT
1 TTTCTTTT
50374486 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:50379403 original size:12 final size:13
Alignment explanation
Indices: 50379382--50379425 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
50379372 TGATTAGGTC
*
50379382 AAATAAATTATTA
1 AAATAAATTATAA
50379395 AAA-AAATTATAA
1 AAATAAATTATAA
50379407 AAATAAATTA-AA
1 AAATAAATTATAA
*
50379419 AATTAAA
1 AAATAAA
50379426 AATAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAATTATAA
Found at i:50379746 original size:28 final size:27
Alignment explanation
Indices: 50379701--50379767 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
50379691 AGGAAGAATT
50379701 AAGAAA-AAA-AAAGGAAATAA-ATAA
1 AAGAAAGAAAGAAAGGAAATAAGATAA
50379725 AA-AAAGGTAAAGAAAGAGAAATAAGATAA
1 AAGAAA-G-AAAGAAAG-GAAATAAGATAA
50379754 AAGAAAGAAAGAAA
1 AAGAAAGAAAGAAA
50379768 TAAAATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
23 3 0.08
24 2 0.06
26 3 0.08
27 4 0.11
28 14 0.39
29 7 0.19
30 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (27 bp):
AAGAAAGAAAGAAAGGAAATAAGATAA
Found at i:50379779 original size:24 final size:20
Alignment explanation
Indices: 50379733--50379778 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
50379723 AAAAAAAGGT
*
50379733 AAAGAAAGAGAAATAAGATA
1 AAAGAAAGAGAAATAAAATA
50379753 AAAGAAAGAAAGAAATAAAATTA
1 AAAGAAAG--AGAAATAAAA-TA
50379776 AAA
1 AAA
50379779 AATTAAGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
22 9 0.41
23 5 0.23
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (20 bp):
AAAGAAAGAGAAATAAAATA
Found at i:50380070 original size:33 final size:33
Alignment explanation
Indices: 50380028--50380095 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
50380018 ACTTATGAGA
50380028 AAAAAAACTAATATGGAAATCACGATATAGTTT
1 AAAAAAACTAATATGGAAATCACGATATAGTTT
50380061 AAAAAAACTAATATGGAAATCACGATATAGTTT
1 AAAAAAACTAATATGGAAATCACGATATAGTTT
50380094 AA
1 AA
50380096 GTATCAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (33 bp):
AAAAAAACTAATATGGAAATCACGATATAGTTT
Found at i:50381907 original size:17 final size:16
Alignment explanation
Indices: 50381885--50381918 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50381875 TGGGATGGCA
50381885 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
50381902 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
50381918 T
1 T
50381919 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:50384897 original size:13 final size:13
Alignment explanation
Indices: 50384879--50384911 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
50384869 TGAGCAACAA
50384879 AGAAGATTAAATG
1 AGAAGATTAAATG
50384892 AGAAGATTAAATG
1 AGAAGATTAAATG
*
50384905 AAAAGAT
1 AGAAGAT
50384912 GAAGGAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (13 bp):
AGAAGATTAAATG
Found at i:50387516 original size:11 final size:11
Alignment explanation
Indices: 50387500--50387525 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50387490 TGGTCGAAAA
50387500 ATTTTAATTTT
1 ATTTTAATTTT
50387511 ATTTTAATTTT
1 ATTTTAATTTT
50387522 ATTT
1 ATTT
50387526 GTGTTCAAGT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTTAATTTT
Done.