Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 113 of 182
Found at i:34326620 original size:13 final size:12
Alignment explanation
Indices: 34326583--34326627 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
34326573 TGGTTTTCTA
34326583 AAAATGGAAATG
1 AAAATGGAAATG
34326595 AAAATGGAAATG
1 AAAATGGAAATG
*
34326607 AAAATGATAAATG
1 AAAATG-GAAATG
*
34326620 AACATGGA
1 AAAATGGA
34326628 TTTCTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.58, C:0.02, G:0.22, T:0.18
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:34337592 original size:40 final size:40
Alignment explanation
Indices: 34337533--34337720 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
34337523 GAGCACTGGA
* *
34337533 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
34337573 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
34337613 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
34337653 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
34337693 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34337721 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:34340153 original size:68 final size:68
Alignment explanation
Indices: 34340041--34340612 Score: 658
Period size: 68 Copynumber: 8.4 Consensus size: 68
34340031 GCTCCATACT
* * * * * *
34340041 TTGCCACAGTCGAGCTATGGTTTTACACATTGTAGCCCCATGTTTAATGTCTTGGCAGACTCTAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340106 ATG
66 ATG
** ** * **
34340109 TTGCCATAGTTAAATTACGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGTGGACTCCAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340174 ATG
66 ATG
** * * * * *
34340177 TTTTCGTAATCGAGCTATGATCTTACACATTGTAACCCCATGTTTAATGTCCTGGCACACTCCAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
*
34340242 ATA
66 ATG
* * * * * * * * * *
34340245 TTTCCATAGCCAAGCTATGATCTTACACAGTGTAAACCCATGTTTAATGTCCTAGCGGGCTCTAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340310 ATG
66 ATG
* * * *
34340313 TTGCCATATTCGAGCTATGATCTTACACAATGTAACCCCATGTTTAATGTCTTGGTAGACTCCAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340378 ATG
66 ATG
* * * * * * *
34340381 TTGCCATAGCCGAGCTATGGTCTTACAGAATGTAACCCAATGTTTAATGTCCTAGCGGAATCCAT
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
*
34340446 GTG
66 ATG
* *
34340449 TTGCCATAGTTGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGTAGACTCCAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340514 ATG
66 ATG
* * ** * *
34340517 TTGCCATAGCCGGGCTATGGTCTTACACAATGTAACCTAATGTTTAATGTCCTAGTAGACTCCAC
1 TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
34340582 ATG
66 ATG
* * *
34340585 TTTCCATAGCCGAGTTATGGTCTTACAC
1 TTGCCATAGTCGAGCTATGGTCTTACAC
34340613 CTTAAACCTC
Statistics
Matches: 420, Mismatches: 84, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 420 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (68 bp):
TTGCCATAGTCGAGCTATGGTCTTACACAATGTAACCCCATGTTTAATGTCCTGGCAGACTCCAC
ATG
Found at i:34343551 original size:22 final size:21
Alignment explanation
Indices: 34343526--34343579 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 21
34343516 CAATCTTAGA
* *
34343526 TGATTTGTACTTTTAGAAGATT
1 TGATTTGTAATATTAG-AGATT
*
34343548 TGATTTTGTAAATATTAGAGGTT
1 TGA-TTTGT-AATATTAGAGATT
34343571 TGATTTGTA
1 TGATTTGTA
34343580 GATTGGTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 12 0.44
24 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (21 bp):
TGATTTGTAATATTAGAGATT
Found at i:34350269 original size:19 final size:20
Alignment explanation
Indices: 34350228--34350272 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
34350218 TTCAAAAATA
*
34350228 ATTTTTAAAAAATTAATTGAT
1 ATTTTTAAAAAA-TAATTAAT
*
34350249 ATTTTTTAAAAA-AATTAAT
1 ATTTTTAAAAAATAATTAAT
34350268 ATTTT
1 ATTTT
34350273 CTGGGTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
21 11 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTTTTAAAAAATAATTAAT
Found at i:34351448 original size:89 final size:88
Alignment explanation
Indices: 34351288--34351460 Score: 213
Period size: 89 Copynumber: 2.0 Consensus size: 88
34351278 CTTGCTTTTT
* * * * * *
34351288 CTTTTTTTGGACTCATTTGGGTACTTGAACTTTCAAAATGCATAAAAAAAAAACCTTAAACCTTT
1 CTTTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGCATAAAAAAAAAACCTCAAACATTT
*
34351353 TTAAAAAAGCAATTAAGCCTGTA
66 TAAAAAAAGCAATTAAGCCTGTA
* * * *
34351376 CTTTTTTCTGCACTCAATTGAGTACTTAAACTTTCAAAATGCAT-CAAAAAGACCCTCAAATATT
1 CTTTTTT-TGCACTCAATTGAGTACTTAAACTTTCAAAATGCATAAAAAAAAAACCTCAAACATT
*
34351440 TTCAAAAAAAGTAATTAAGCC
65 TT-AAAAAAAGCAATTAAGCC
34351461 ACTGCTTTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
88 23 0.32
89 48 0.68
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (88 bp):
CTTTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATGCATAAAAAAAAAACCTCAAACATTT
TAAAAAAAGCAATTAAGCCTGTA
Found at i:34351652 original size:56 final size:55
Alignment explanation
Indices: 34351592--34351710 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 55
34351582 AGTAAAATAT
* *
34351592 ATATAAAAAATTGTAAAATTTTATA-AAAGCCATAAAAAATTACAAAATATATAGAA
1 ATATAAAAAAAT-TAAAATTTTATATAAAGCCATAAAAAA-TACAAAATATAAAGAA
* * * *
34351648 ATATAAAAAAAATTAAAATTTTTTATAAAGTCATAAGAAATACAAAATGTAAAGAA
1 ATAT-AAAAAAATTAAAATTTTATATAAAGCCATAAAAAATACAAAATATAAAGAA
34351704 ATATAAA
1 ATATAAA
34351711 TTTCGTAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
55 3 0.05
56 33 0.60
57 19 0.35
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (55 bp):
ATATAAAAAAATTAAAATTTTATATAAAGCCATAAAAAATACAAAATATAAAGAA
Found at i:34352189 original size:89 final size:87
Alignment explanation
Indices: 34352040--34352215 Score: 246
Period size: 89 Copynumber: 2.0 Consensus size: 87
34352030 TTTTAATAAG
* *
34352040 AGCAGAGGGTTAATTGCTTTTTTGAAAAAAATTGAGGGTCTTTTTGATACATTTTGAAAGTTCAA
1 AGCAGAGGGTTAATTGCTTTTTTGAAAAAAATTGAAGGTCTTTTTGATACATTTTGAAAGTCCAA
34352105 GTACCCAATTGAGTGAAAAAAA
66 GTACCCAATTGAGTGAAAAAAA
* **
34352127 AGCAG-GGGATTAATTGCTTTTTTTTAAAGAAGTTTGAAGGTCTTTTTGATACATTTTGAAAGTC
1 AGCAGAGGG-TTAATTGC-TTTTTTGAAA-AAAATTGAAGGTCTTTTTGATACATTTTGAAAGTC
* * *
34352191 CAAGTGCTCAATTGAGTGGAAAAAA
63 CAAGTACCCAATTGAGTGAAAAAAA
34352216 GAGACTTAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
86 3 0.04
87 13 0.17
88 9 0.12
89 53 0.68
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (87 bp):
AGCAGAGGGTTAATTGCTTTTTTGAAAAAAATTGAAGGTCTTTTTGATACATTTTGAAAGTCCAA
GTACCCAATTGAGTGAAAAAAA
Found at i:34360067 original size:23 final size:22
Alignment explanation
Indices: 34360024--34360067 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
34360014 TTCTAAGTCG
34360024 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
34360047 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
34360068 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:34360184 original size:45 final size:45
Alignment explanation
Indices: 34360120--34360205 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
34360110 CTCGGTAGAT
* *
34360120 TCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATAATGTCCGGTGGAA
* *
34360165 TCAGCACATAGCAACCACCTTACTAATTAATAATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATAATGTCCGGT
34360206 TCACATAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATAATGTCCGGTGGAA
Found at i:34366625 original size:9 final size:9
Alignment explanation
Indices: 34366611--34366722 Score: 136
Period size: 9 Copynumber: 12.4 Consensus size: 9
34366601 TTTGGTTAAA
34366611 AATTAACCG
1 AATTAACCG
34366620 AATTAACCG
1 AATTAACCG
*
34366629 AATTACCCG
1 AATTAACCG
*
34366638 AATTACCCG
1 AATTAACCG
*
34366647 AATTACCCG
1 AATTAACCG
*
34366656 AATT-ACCTA
1 AATTAACC-G
*
34366665 AATTACCCG
1 AATTAACCG
34366674 AATTAACCG
1 AATTAACCG
*
34366683 AATTACCCG
1 AATTAACCG
*
34366692 AATTACCCG
1 AATTAACCG
34366701 AATTAACCG
1 AATTAACCG
*
34366710 AATTAACCT
1 AATTAACCG
34366719 AATT
1 AATT
34366723 GAATCATACA
Statistics
Matches: 92, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
8 2 0.02
9 88 0.96
10 2 0.02
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:34366638 original size:18 final size:18
Alignment explanation
Indices: 34366611--34366722 Score: 154
Period size: 18 Copynumber: 6.2 Consensus size: 18
34366601 TTTGGTTAAA
*
34366611 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
34366629 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
34366647 AATTACCCGAATT-ACCTA
1 AATTACCCGAATTAACC-G
34366665 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
34366683 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
* *
34366701 AATTAACCGAATTAACCT
1 AATTACCCGAATTAACCG
34366719 AATT
1 AATT
34366723 GAATCATACA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
17 2 0.02
18 78 0.94
19 3 0.04
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:34366649 original size:27 final size:27
Alignment explanation
Indices: 34366611--34366714 Score: 172
Period size: 27 Copynumber: 3.9 Consensus size: 27
34366601 TTTGGTTAAA
*
34366611 AATTAACCGAATTAACCGAATTACCCG
1 AATTACCCGAATTAACCGAATTACCCG
* **
34366638 AATTACCCGAATTACCCGAATTACCTA
1 AATTACCCGAATTAACCGAATTACCCG
34366665 AATTACCCGAATTAACCGAATTACCCG
1 AATTACCCGAATTAACCGAATTACCCG
34366692 AATTACCCGAATTAACCGAATTA
1 AATTACCCGAATTAACCGAATTA
34366715 ACCTAATTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (27 bp):
AATTACCCGAATTAACCGAATTACCCG
Found at i:34370856 original size:24 final size:25
Alignment explanation
Indices: 34370808--34370856 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
34370798 GTCTCTTTTT
* * *
34370808 TTGCATTCATCTGCATTACATTTCA
1 TTGCATTCATATGCATTAAACTTCA
34370833 TTGCA-TCATATGCATTAAACTTCA
1 TTGCATTCATATGCATTAAACTTCA
34370857 CGAAAAGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (25 bp):
TTGCATTCATATGCATTAAACTTCA
Found at i:34373722 original size:19 final size:18
Alignment explanation
Indices: 34373698--34373753 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
34373688 TACTTCACTT
34373698 GAAAAAAAAGAAACAAGAA
1 GAAAAAAAAGAAA-AAGAA
34373717 GAAAAAGAAA-AGAAAAGAA
1 GAAAAA-AAAGA-AAAAGAA
34373736 GAACGAAAAAAGAAAAAG
1 GAA--AAAAAAGAAAAAG
34373754 GAGAGGCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 15 0.47
20 13 0.41
21 4 0.12
ACGTcount: A:0.77, C:0.04, G:0.20, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAGAAAAAGAA
Found at i:34374666 original size:24 final size:24
Alignment explanation
Indices: 34374634--34374689 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
34374624 ATGTCCCAAA
34374634 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
* *
34374658 ATTATAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
34374682 ATTACAGT
1 ATTACAGT
34374690 ATGGGCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:34375115 original size:89 final size:89
Alignment explanation
Indices: 34374964--34375370 Score: 564
Period size: 89 Copynumber: 4.6 Consensus size: 89
34374954 AAAATATCAA
* *
34374964 TGAAGATAGCGGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
34375029 TCTTATACTGACAGCGGAGCAGAC
66 TCTTGTACTGACAGCGGAGCAGAC
* * *
34375053 TGAAGATAGTAGATCTTGCCTTCCTGTACTAATAGCGAAGCAGATCGAAGACACCAGCCTTG-CT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
34375117 TTTCTGTACTAACAGTGGAGCAGAC
66 TCT-TGTACTGACAGCGGAGCAGAC
* * * * *
34375142 TGAATATAGCAAATCTTGCCTTCCTGTACTAACAGCGAAACAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
34375207 TCCTGTACTGACAACGGAGCAGAC
66 TCTTGTACTGACAGCGGAGCAGAC
* * * * *
34375231 TAAAGATAGCAGATCTTGCCTTCCTGTACTGATAGTGAAGTAGATTGAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
34375296 TCTTGTACTGACAGCGAAGCATAC
66 TCTTGTACTGACAGCGGAGCAGAC
* * *
34375320 TGAAGATAGCGGATCTTACCTTCCTGTACTGACAGCGAAGCAGATCAAAGA
1 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA
34375371 AGCCAATCCT
Statistics
Matches: 274, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
88 4 0.01
89 267 0.97
90 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCTTGTACTGACAGCGGAGCAGAC
Found at i:34375428 original size:44 final size:43
Alignment explanation
Indices: 34375358--34375709 Score: 202
Period size: 44 Copynumber: 8.1 Consensus size: 43
34375348 CTGACAGCGA
* * * *
34375358 AGCAGATCAAAGAAGCCA-ATCCTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAA-AA-CCAGATCTTATCTCCCTGAAGTTGCAGTAG
* * *
34375402 AGCAGATTAAAACCACAGATCTTATCTCTCTGAAGTTTCAGTAG
1 AGCAGATTAAAAAC-CAGATCTTATCTCCCTGAAGTTGCAGTAG
** * *
34375446 AGCAGATT-GCATCCAG-TCTTATCTCCCTGAAGTTACAGTAG
1 AGCAGATTAAAAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
** * * * * *
34375487 AGCAGACAGAAGAAACCA-ATCCTACCTCGCTAAAGTTGCAGTGG
1 AGCAGA-TTAA-AAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
* ** * *
34375531 AGCGGATTAAAAAAAATAGATCTTATCTCTCTGAAGTTGTAGTAG
1 AGCAGATT--AAAAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
*** * * * * **
34375576 AGCAGA-TCGCATCCAG-TCTTATCTCCTTAAAGTTGTAGCGG
1 AGCAGATTAAAAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
* *
34375617 AGCAGATTGAAGAAACCA-ATCCTATCTTCCTGAAGTTGCAGT-G
1 AGCAGATT-AA-AAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
* *
34375660 AAGC-GAATTAAAATA-TAGATCTTATCTCTCTGAAGTTGCAGTAG
1 -AGCAG-ATTAAAA-ACCAGATCTTATCTCCCTGAAGTTGCAGTAG
34375704 AGCAGA
1 AGCAGA
34375710 CCGCACGAAA
Statistics
Matches: 229, Mismatches: 60, Indels: 39
0.70 0.18 0.12
Matches are distributed among these distances:
41 55 0.24
42 11 0.05
43 35 0.15
44 101 0.44
45 27 0.12
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (43 bp):
AGCAGATTAAAAACCAGATCTTATCTCCCTGAAGTTGCAGTAG
Found at i:34375476 original size:41 final size:44
Alignment explanation
Indices: 34375380--34375492 Score: 133
Period size: 41 Copynumber: 2.6 Consensus size: 44
34375370 AAGCCAATCC
* * *
34375380 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCACAGATCT
* * ** *
34375424 TATCTCTCTGAAGTTTCAGTAGAGCAGATT-GCATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCACAGATCT
34375465 TATCTCCCTGAAGTTACAGTAGAGCAGA
1 TATCTCCCTGAAGTTACAGTAGAGCAGA
34375493 CAGAAGAAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 29 0.48
42 3 0.05
43 2 0.03
44 26 0.43
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTAGAGCAGATTAAAACCACAGATCT
Found at i:34375596 original size:130 final size:128
Alignment explanation
Indices: 34375358--34375714 Score: 441
Period size: 130 Copynumber: 2.8 Consensus size: 128
34375348 CTGACAGCGA
* * * ** *
34375358 AGCAGATCA-AAGAAGCCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCACAGAT
1 AGCAGA-CAGAAGAAACCAATCCTACCT-CCTAAAGTTGCAGTGGAGCGGATTAAAAAAATAGAT
* * *
34375422 CTTATCTCTCTGAAGTT-TCAGTAGAGCAGATTGCATCCAGTCTTATCTCCCTGAAGTTACAGTA
64 CTTATCTCTCTGAAGTTGT-AGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTACAGCA
34375486 G
128 G
34375487 AGCAGACAGAAGAAACCAATCCTACCTCGCTAAAGTTGCAGTGGAGCGGATTAAAAAAAATAGAT
1 AGCAGACAGAAGAAACCAATCCTACCTC-CTAAAGTTGCAGTGGAGCGGATT-AAAAAAATAGAT
* ** *
34375552 CTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCTTAAAGTTGTAGCGG
64 CTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTACAGCAG
** * * * * *
34375617 AGCAGATTGAAGAAACCAATCCTATCTTCCTGAAGTTGCAGTGAAGCGAATT-AAAATATAGATC
1 AGCAGACAGAAGAAACCAATCCTA-CCTCCTAAAGTTGCAGTGGAGCGGATTAAAAAAATAGATC
* *
34375681 TTATCTCTCTGAAGTTGCAGTAGAGCAGACCGCA
65 TTATCTCTCTGAAGTTGTAGTAGAGCAGATCGCA
34375715 CGAAATTTTA
Statistics
Matches: 201, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
128 46 0.23
129 44 0.22
130 107 0.53
131 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (128 bp):
AGCAGACAGAAGAAACCAATCCTACCTCCTAAAGTTGCAGTGGAGCGGATTAAAAAAATAGATCT
TATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTACAGCAG
Found at i:34376937 original size:324 final size:324
Alignment explanation
Indices: 34376348--34376995 Score: 1188
Period size: 324 Copynumber: 2.0 Consensus size: 324
34376338 TTTCGATTTT
*
34376348 CTCGTTAAACCTAAATCGCAAAGTACCCTTTCTAAGCTTCAAAATCAAAGAAATTTCGTTATAAG
1 CTCGTTAAACCTAAATCGCAAAGTACCCTTTCTAAGCTTCAAAATCAAAGAAATTTCATTATAAG
** * *
34376413 GCAACATTTCATGTTTTGGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTTGATTTTTCT
66 AAAACATTTCACGTTTTGGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCGATTTTTCT
34376478 CATTAAACTTAAATGGTGAAATGTTCCCTTTAATTTTAAAATATGAAATTTCAATAAAAATTAAA
131 CATTAAACTTAAATGGTGAAATGTTCCCTTTAATTTTAAAATATGAAATTTCAATAAAAATTAAA
34376543 GTCAAGTTTATTCTCTAAAGTTTCAAATATCGCGTCCCAACTTGCGGGGTGTAACATTTCGTTAC
196 GTCAAGTTTATTCTCTAAAGTTTCAAATATCGCGTCCCAACTTGCGGGGTGTAACATTTCGTTAC
*
34376608 TTTGGAATAAGTGGGTCTTTAACTCATTTTCAAATTTACTCAAACGATTTTTAAATGTACATCA
261 TTTGGAATAAGCGGGTCTTTAACTCATTTTCAAATTTACTCAAACGATTTTTAAATGTACATCA
* * * *
34376672 CTCGTTAAACCTTAATCGCAATGTGCCCTTTTTAAGCTTCAAAATCAAAGAAATTTCATTATAAG
1 CTCGTTAAACCTAAATCGCAAAGTACCCTTTCTAAGCTTCAAAATCAAAGAAATTTCATTATAAG
*
34376737 AAAACATTTCGCGTTTTGGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCGATTTTTCT
66 AAAACATTTCACGTTTTGGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCGATTTTTCT
*
34376802 CATTAAACTTAAATGGTGAAATGTTCCCTTTAATTTTAAAATATGAAATTTCAATAAAACTTAAA
131 CATTAAACTTAAATGGTGAAATGTTCCCTTTAATTTTAAAATATGAAATTTCAATAAAAATTAAA
34376867 GTCAAGTTTATTCTCTAAAGTTTCAAATATCGCGTCCCAACTTGCGGGGTGTAACATTTCGTTAC
196 GTCAAGTTTATTCTCTAAAGTTTCAAATATCGCGTCCCAACTTGCGGGGTGTAACATTTCGTTAC
34376932 TTTGGAATAAGCGGGTCTTTAACTCATTTTCAAATTTACTCAAACGATTTTTAAATGTACATCA
261 TTTGGAATAAGCGGGTCTTTAACTCATTTTCAAATTTACTCAAACGATTTTTAAATGTACATCA
34376996 ATAAAAATGG
Statistics
Matches: 312, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
324 312 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (324 bp):
CTCGTTAAACCTAAATCGCAAAGTACCCTTTCTAAGCTTCAAAATCAAAGAAATTTCATTATAAG
AAAACATTTCACGTTTTGGGTAATTCGAGAAATCGTACCCTAACTTACGGGGTTTCGATTTTTCT
CATTAAACTTAAATGGTGAAATGTTCCCTTTAATTTTAAAATATGAAATTTCAATAAAAATTAAA
GTCAAGTTTATTCTCTAAAGTTTCAAATATCGCGTCCCAACTTGCGGGGTGTAACATTTCGTTAC
TTTGGAATAAGCGGGTCTTTAACTCATTTTCAAATTTACTCAAACGATTTTTAAATGTACATCA
Found at i:34389661 original size:37 final size:37
Alignment explanation
Indices: 34389611--34389694 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 37
34389601 TCGTCCAACC
* * *
34389611 AATCACGCCATATTGGACTACA-ATAGTCGATCCATCT
1 AATCACACCATATTGGACTA-ATAGAGTCCATCCATCT
34389648 AATCACACCATATTGGACTAATAGAGTCCATCCATCT
1 AATCACACCATATTGGACTAATAGAGTCCATCCATCT
*
34389685 AATCAAACCA
1 AATCACACCA
34389695 ATATGTGGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.02
37 41 0.98
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (37 bp):
AATCACACCATATTGGACTAATAGAGTCCATCCATCT
Found at i:34392778 original size:9 final size:10
Alignment explanation
Indices: 34392763--34392804 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
34392753 GAACTTGAAC
34392763 ATTATTTATT
1 ATTATTTATT
34392773 -TTATTTAATT
1 ATTATTT-ATT
*
34392783 ATT-TTAATT
1 ATTATTTATT
34392792 ATTATTTATT
1 ATTATTTATT
34392802 ATT
1 ATT
34392805 TTACTATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 12 0.44
10 13 0.48
11 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTATTTATT
Found at i:34407322 original size:17 final size:17
Alignment explanation
Indices: 34407300--34407347 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
34407290 AGCAATGATG
34407300 CATTGCTAGATGCCACT
1 CATTGCTAGATGCCACT
34407317 CATTGCTAGATG-----
1 CATTGCTAGATGCCACT
34407329 CATTGCTAGATGCCACT
1 CATTGCTAGATGCCACT
34407346 CA
1 CA
34407348 CGTGTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
12 12 0.46
17 14 0.54
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (17 bp):
CATTGCTAGATGCCACT
Found at i:34407334 original size:12 final size:12
Alignment explanation
Indices: 34407317--34407341 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34407307 AGATGCCACT
34407317 CATTGCTAGATG
1 CATTGCTAGATG
34407329 CATTGCTAGATG
1 CATTGCTAGATG
34407341 C
1 C
34407342 CACTCACGTG
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:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (12 bp):
CATTGCTAGATG
Found at i:34407388 original size:7 final size:7
Alignment explanation
Indices: 34407376--34407400 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34407366 TATCATATAC
34407376 AAACTTT
1 AAACTTT
34407383 AAACTTT
1 AAACTTT
34407390 AAACTTT
1 AAACTTT
34407397 AAAC
1 AAAC
34407401 ACATTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (7 bp):
AAACTTT
Found at i:34407454 original size:16 final size:15
Alignment explanation
Indices: 34407433--34407463 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
34407423 CAAAAGGTCA
34407433 TATCATATACTAAAGT
1 TATCATATAC-AAAGT
34407449 TATCATATACAAAGT
1 TATCATATACAAAGT
34407464 GTTTCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TATCATATACAAAGT
Found at i:34419568 original size:36 final size:37
Alignment explanation
Indices: 34419528--34419598 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
34419518 GTAATAAGCA
* *
34419528 GGAGAAGTTAAGTACA-TCGATTTCTTTTAAGATCTT
1 GGAGAAATTAAGGACATTCGATTTCTTTTAAGATCTT
* *
34419564 GGAGAAATTATGGACATTTGATTTCTTTTAAGATC
1 GGAGAAATTAAGGACATTCGATTTCTTTTAAGATC
34419599 CTTTAACTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (37 bp):
GGAGAAATTAAGGACATTCGATTTCTTTTAAGATCTT
Found at i:34426981 original size:34 final size:35
Alignment explanation
Indices: 34426927--34426992 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
34426917 CAAACACCAA
*
34426927 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
34426962 AAAACATTTTCTAG-AAATCATTTTACGGAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAA
34426993 TCATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34426985 original size:14 final size:15
Alignment explanation
Indices: 34426966--34427004 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
34426956 AAAAGTAAAA
34426966 CATTTT-CTAGAAAT
1 CATTTTACTAGAAAT
*
34426980 CATTTTAC-GGAAAT
1 CATTTTACTAGAAAT
34426994 CATTTTACTAG
1 CATTTTACTAG
34427005 CAAACAAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (15 bp):
CATTTTACTAGAAAT
Found at i:34427635 original size:129 final size:129
Alignment explanation
Indices: 34427443--34427677 Score: 353
Period size: 129 Copynumber: 1.8 Consensus size: 129
34427433 CCACTTATTT
* * ** *
34427443 CACTGTAATTTCAAGGAAATAAGGTCTGATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGA
1 CACTGCAACTTCAAGGAAATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
* * *
34427508 TCCATCATTTTAATTTGCTCCATTGCAACTTTAGGGAGATAGGATTGGTTTCTTCAATCTGCTC
66 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTC
* * * * *
34427572 CACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTACTTTACTGTAATTTCAGAGAAATAAGA
1 CACTGCAACTTCAAGGAAATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
34427637 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
66 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
34427678 AGACTTGTAA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
129 93 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (129 bp):
CACTGCAACTTCAAGGAAATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTC
Found at i:34427721 original size:129 final size:129
Alignment explanation
Indices: 34427443--34427711 Score: 351
Period size: 129 Copynumber: 2.1 Consensus size: 129
34427433 CCACTTATTT
* * * ** *
34427443 CACTGTAATTTCAAGGAAATAAGGTCTGATGCGATCTACTCTACTGCAACTTCAAAGAGATAAGA
1 CACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
* * * * ** **
34427508 TCCATCATTTTAATTTGCTCCATTGCAACTTTAGGGAGATAGGATTGGTTTCTTCAATCTGCTC
66 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAATCCACTC
* * * *
34427572 CACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTACTTTACTGTAATTTCAGAGAAATAAGA
1 CACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
*
34427637 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCCACTC
66 TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTAACTTCAATCCACTC
34427701 CACTGCAACTT
1 CACTGCAACTT
34427712 TAGAGAGATA
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
129 118 0.98
130 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (129 bp):
CACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAAAGAAATAAGA
TCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAACTTCAATCCACTC
Found at i:34427746 original size:44 final size:43
Alignment explanation
Indices: 34427645--34427769 Score: 126
Period size: 44 Copynumber: 2.9 Consensus size: 43
34427635 GATCCATCAT
* *
34427645 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
1 TTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGA-TTGTAAC
** * * **
34427689 TTTAATCCACTCCACTGCAACTTTAGAGAGATAGGATTATTGGC
1 TTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATT-GTAAC
* **
34427733 TTTAATCTGCTCCATTATAACTTTA-AGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATT
34427770 CGCCATCTTC
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
43 13 0.20
44 53 0.80
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (43 bp):
TTTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTGTAAC
Found at i:34427989 original size:44 final size:43
Alignment explanation
Indices: 34427941--34428265 Score: 181
Period size: 44 Copynumber: 7.3 Consensus size: 43
34427931 GTAATGCCAA
*
34427941 GGAGAGAAGACTTGTAACTTTAATTCGCTCCACTGCAACTTCAG
1 GGAGATAAGA-TTGTAACTTTAATTCGCTCCACTGCAACTTCAG
* * **
34427985 GGAGATAGGATTATTGGCTTTAA-TCTGCTCCACTGCAACTTCAG
1 GGAGATAAGATT-GTAACTTTAATTC-GCTCCACTGCAACTTCAG
* ** * * * * * *
34428029 GGAGATAAGATT-T-GCCATGATTTGCTCTACTACAACTTTAA
1 GGAGATAAGATTGTAACTTTAATTCGCTCCACTGCAACTTCAG
* * * * *
34428070 AGAGATAAGATCTGTGATTTATAGCTTTAATTTGTTCCACTACAACTTTAG
1 GGAGATAAGA--T-TG---TA-A-CTTTAATTCGCTCCACTGCAACTTCAG
* * * *
34428121 GGAAATAAGATTCGCTATCTTT-AGTCTGCTCCATTGCAACTTCAG
1 GGAGATAAGATT-G-TAACTTTAATTC-GCTCCACTGCAACTTCAG
* * *
34428166 GGAGATAAGACTTATAACTTTAATCCGCTCCACTGCAACCTCAG
1 GGAGATAAGA-TTGTAACTTTAATTCGCTCCACTGCAACTTCAG
* * ** * *
34428210 GGAGATAGGATTTTTGGCTTTAATTTGCTCCACTACAACTTCAG
1 GGAGATAAGA-TTGTAACTTTAATTCGCTCCACTGCAACTTCAG
*
34428254 GGAAATAAGATT
1 GGAGATAAGATT
34428266 TGCCATCTTC
Statistics
Matches: 214, Mismatches: 50, Indels: 35
0.72 0.17 0.12
Matches are distributed among these distances:
41 27 0.13
42 2 0.01
43 7 0.03
44 112 0.52
45 29 0.14
46 2 0.01
47 2 0.01
48 2 0.01
49 2 0.01
51 29 0.14
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (43 bp):
GGAGATAAGATTGTAACTTTAATTCGCTCCACTGCAACTTCAG
Found at i:34428291 original size:181 final size:180
Alignment explanation
Indices: 34427967--34428298 Score: 400
Period size: 181 Copynumber: 1.8 Consensus size: 180
34427957 ACTTTAATTC
* ** * *
34427967 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCCGCTCCACTGCAACCTCAGGGA
* * * * ** *
34428032 GATAAGATTTGCCATGATTTGCTCTACTACAACTTTAAAGAGATAAGATCTGTGATTTATAGCTT
66 GATAAGATTTGCCATAATTTGCTCCACTACAACTTCAAAGAAATAAGATCTGCCATCTATA-CTT
* * *
34428097 TAATTTGTTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCT
130 CAATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCT
*
34428148 GCTCCATTGCAACTTCAGGGAGATAAGACTTA-TAACTTTAATCCGCTCCACTGCAACCTCAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTATTAACTTTAATCCGCTCCACTGCAACCTCAGGG
* ** ** *
34428212 AGATAGGATTTTTGGCTTTAATTTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCT-T-
65 AGATAAGA--TTT-GCCATAATTTGCTCCACTACAACTTCAAAGAAATAAGATCTGCCATCTATA
34428275 CTTCAATCTATTCCACTACAACTT
127 CTTCAATCTATTCCACTACAACTT
34428299 CAGTGGTATA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
181 82 0.66
182 3 0.02
183 4 0.03
184 36 0.29
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (180 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTATTAACTTTAATCCGCTCCACTGCAACCTCAGGGA
GATAAGATTTGCCATAATTTGCTCCACTACAACTTCAAAGAAATAAGATCTGCCATCTATACTTC
AATCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCT
Found at i:34428614 original size:17 final size:17
Alignment explanation
Indices: 34428582--34428615 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34428572 CTGGATTACC
*
34428582 CCCACTGTAAGGTTCAA
1 CCCACTGTAAGCTTCAA
*
34428599 CCCACTGTAATCTTCAA
1 CCCACTGTAAGCTTCAA
34428616 GGTTCAATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (17 bp):
CCCACTGTAAGCTTCAA
Found at i:34436028 original size:18 final size:18
Alignment explanation
Indices: 34436005--34436075 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
34435995 ATAATTTGAC
34436005 AAAGAATTCAAAAGAATG
1 AAAGAATTCAAAAGAATG
* *
34436023 AAAGAATCCAAAATAAT-
1 AAAGAATTCAAAAGAATG
* *** *
34436040 TACTCATACAAAAGAATG
1 AAAGAATTCAAAAGAATG
*
34436058 AAAGAATCTTAAAAGAAT
1 AAAGAAT-TCAAAAGAAT
34436076 ATCTGCTCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 3
0.69 0.26 0.06
Matches are distributed among these distances:
17 11 0.30
18 18 0.49
19 8 0.22
ACGTcount: A:0.59, C:0.10, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAGAATTCAAAAGAATG
Found at i:34439620 original size:50 final size:50
Alignment explanation
Indices: 34439561--34439660 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
34439551 AAGTATGAAG
*
34439561 GAATTTCTTGATTGGGCTGGAATTTGGTTATTGGGCCTCGCCTTCAAGAA
1 GAATTTCTTGATTGGGCTGGAATTTGGTTATTCGGCCTCGCCTTCAAGAA
34439611 GAATTTCTTGATTGGGCTGGAATTTGGTTATTCGGCCTCGCCTTCAAGAA
1 GAATTTCTTGATTGGGCTGGAATTTGGTTATTCGGCCTCGCCTTCAAGAA
34439661 TTTGGGCTCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (50 bp):
GAATTTCTTGATTGGGCTGGAATTTGGTTATTCGGCCTCGCCTTCAAGAA
Found at i:34442287 original size:35 final size:35
Alignment explanation
Indices: 34442237--34442310 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
34442227 TAAAAACCTA
* * *
34442237 CAAA-CTCTTTTTGAATTGTCATTGCAAACTTGGG
1 CAAATCTCTTTCTGAATTCTCATTCCAAACTTGGG
*
34442271 TAAATCTCTTTCTGAATTCTCATTCCAAACTTGGG
1 CAAATCTCTTTCTGAATTCTCATTCCAAACTTGGG
34442306 CAAAT
1 CAAAT
34442311 AAACCAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (35 bp):
CAAATCTCTTTCTGAATTCTCATTCCAAACTTGGG
Found at i:34444319 original size:18 final size:18
Alignment explanation
Indices: 34444277--34444316 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34444267 GCTGCTGGAA
* *
34444277 TAAATTATTTGAATTAGT
1 TAAATTATTTAAATCAGT
34444295 TAAATTATTTAAATCAGCT
1 TAAATTATTTAAATCAG-T
34444314 TAA
1 TAA
34444317 TTAATTGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (18 bp):
TAAATTATTTAAATCAGT
Found at i:34444822 original size:20 final size:20
Alignment explanation
Indices: 34444797--34444853 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
34444787 CATGTGGTTC
34444797 AGCTCACTT-GAGCTCAAGTA
1 AGCTCA-TTCGAGCTCAAGTA
*
34444817 AGCTCATTCGAGCTCAAGTC
1 AGCTCATTCGAGCTCAAGTA
34444837 AGCTCATTCGAGCTCAA
1 AGCTCATTCGAGCTCAA
34444854 TTCAACTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 2 0.06
20 33 0.94
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTA
Found at i:34444862 original size:20 final size:20
Alignment explanation
Indices: 34444806--34444864 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
34444796 CAGCTCACTT
34444806 GAGCTCAAGT-AAGCTCATTC
1 GAGCTCAAGTCAA-CTCATTC
*
34444826 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAACTCATTC
*
34444846 GAGCTCAATTCAACTCATT
1 GAGCTCAAGTCAACTCATT
34444865 AAGCTCGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (20 bp):
GAGCTCAAGTCAACTCATTC
Found at i:34453523 original size:20 final size:20
Alignment explanation
Indices: 34453477--34453524 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
34453467 ATCTATATGA
*
34453477 AATTAAAAAAAAGAAATTCGT
1 AATTAAAAAAAAAAAATTC-T
*
34453498 ACTTAAAAAAAAAAGAATT-T
1 AATTAAAAAAAAAA-AATTCT
34453518 AATTAAA
1 AATTAAA
34453525 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (20 bp):
AATTAAAAAAAAAAAATTCT
Found at i:34467094 original size:15 final size:15
Alignment explanation
Indices: 34467074--34467124 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
34467064 ACTTTCATCA
*
34467074 TTCTTTTCATTCTTT
1 TTCTTTTCACTCTTT
34467089 TTCTTTTCACTCTTT
1 TTCTTTTCACTCTTT
* * *
34467104 TT-GTTTCTCTATTT
1 TTCTTTTCACTCTTT
34467118 TTCTTTT
1 TTCTTTT
34467125 TCTCGCTCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.73
Consensus pattern (15 bp):
TTCTTTTCACTCTTT
Found at i:34475358 original size:31 final size:31
Alignment explanation
Indices: 34475302--34475368 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
34475292 TTATTTATAT
*
34475302 AGGTTGCCCGAATGTTTGGGATCA-TTTAACA
1 AGGTTACCCGAA-GTTTGGGATCATTTTAACA
*
34475333 AGGTTACCCGAA-TTTGGAGATTCATTTTAGCA
1 AGGTTACCCGAAGTTTGG-GA-TCATTTTAACA
34475365 AGGT
1 AGGT
34475369 GCATGCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 5 0.16
30 2 0.06
31 14 0.45
32 10 0.32
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (31 bp):
AGGTTACCCGAAGTTTGGGATCATTTTAACA
Found at i:34476188 original size:22 final size:22
Alignment explanation
Indices: 34476157--34476221 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
34476147 GACTTTTTGA
*
34476157 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
34476180 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
34476202 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
34476222 TTCCTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:34483741 original size:18 final size:18
Alignment explanation
Indices: 34483699--34483741 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34483689 GCCCATTCCG
* *
34483699 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
34483717 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
34483735 AAGTATG
1 AAGTATG
34483742 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:34484267 original size:28 final size:28
Alignment explanation
Indices: 34484185--34484362 Score: 225
Period size: 28 Copynumber: 6.4 Consensus size: 28
34484175 GAGATTGGCG
* * * *
34484185 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
34484214 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34484241 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34484269 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
34484297 CTAAGTGTGCGGGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34484325 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34484352 CTGAGTGTGCG
1 CTAAGTGTGCG
34484363 GACTTATTAT
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 44 0.33
28 79 0.59
29 11 0.08
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:34484679 original size:27 final size:27
Alignment explanation
Indices: 34484641--34484692 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34484631 ATTGATGAGC
*
34484641 TTGATTATATAGCACTTAGTGTGCGAG
1 TTGATTATATAGCACTGAGTGTGCGAG
34484668 TTGATTATATAGCACTGAGTGTGCG
1 TTGATTATATAGCACTGAGTGTGCG
34484693 GACTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (27 bp):
TTGATTATATAGCACTGAGTGTGCGAG
Found at i:34484990 original size:329 final size:329
Alignment explanation
Indices: 34484311--34485297 Score: 1841
Period size: 329 Copynumber: 3.0 Consensus size: 329
34484301 GTGTGCGGGT
* * *
34484311 TTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATA
1 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
* * ** * *
34484376 TTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCAATCACGGACAGCGGATCGGG
66 TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
* *
34484441 TAAGTACCTTGAGTTCATGGCTAATAGGTGCTATGTCTATATTTGGAGTTGAGCTTGGTAAGTTT
131 TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAG-TT
34484506 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
195 GAACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGC
34484571 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGA
260 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGA
34484636 TGAGC
325 TGAGC
34484641 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
1 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
34484706 TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
66 TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
34484771 TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTG
131 TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTG
34484836 AACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAAT-GGCTGAAAGGC
196 AACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGG-TGAAAGGC
34484900 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGA
260 CGTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGA
34484965 TGAGC
325 TGAGC
34484970 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
1 TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
34485035 TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
66 TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
34485100 TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTG
131 TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTG
34485165 AACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGCC
196 AACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGCC
*
34485230 GTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATAAAAATGCCTCAAATATCCTATTGAT
261 GTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGAT
34485295 GAG
326 GAG
34485298 TATACGGAAT
Statistics
Matches: 643, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
328 2 0.00
329 458 0.71
330 183 0.28
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.33
Consensus pattern (329 bp):
TTGATTATATAGCACTTAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTAATAAATA
TTCTTGAATCATTATGGACACTAAGTGTGCGACACTATTGAGTCGATCACGGATAGCGGATCGGG
TAAGTATCTTGAGTTCATGGCTAATAGGTGCTATGTTTATATTTGGAGTTGAGCTTGGTAAGTTG
AACCTATGTGACAAATATACTTGAAGTCACGTACATAAGATTTATCGTGGAATAGGTGAAAGGCC
GTTTAGTTGTATGATTGTAACGAAAATAAAATGATGTATGAAAATGCCTCAAATATCCTATTGAT
GAGC
Found at i:34485008 original size:27 final size:27
Alignment explanation
Indices: 34484970--34485021 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
34484960 ATTGATGAGC
*
34484970 TTGATTATATAGCACTTAGTGTGCGAG
1 TTGATTATATAGCACTGAGTGTGCGAG
34484997 TTGATTATATAGCACTGAGTGTGCG
1 TTGATTATATAGCACTGAGTGTGCG
34485022 GACTTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (27 bp):
TTGATTATATAGCACTGAGTGTGCGAG
Found at i:34485398 original size:27 final size:27
Alignment explanation
Indices: 34485337--34485402 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
34485327 TATTGATGAG
* *
34485337 CTTGATTATATAGCACTTAGTGTGCGA
1 CTTGATTATATAGCACTGAGTGTACGA
*
34485364 GTTGATTATATAGCACTGAGTGTACGGA
1 CTTGATTATATAGCACTGAGTGTAC-GA
34485392 CTT-ATTATATA
1 CTTGATTATATA
34485403 TTTTTGAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (27 bp):
CTTGATTATATAGCACTGAGTGTACGA
Found at i:34485459 original size:28 final size:28
Alignment explanation
Indices: 34485419--34485476 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
34485409 AAACATTATG
***
34485419 GACACTAAGTGTGCGATGTTATTGAGTC
1 GACACTAAGTGTGCGACACTATTGAGTC
34485447 GACACTAAGTGTGCGACACTATTGAGTC
1 GACACTAAGTGTGCGACACTATTGAGTC
34485475 GA
1 GA
34485477 TCACGGATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (28 bp):
GACACTAAGTGTGCGACACTATTGAGTC
Found at i:34493328 original size:28 final size:27
Alignment explanation
Indices: 34493271--34493367 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
34493261 TAAATTGTGC
*
34493271 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
34493298 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
34493326 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
34493353 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34493368 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:34500253 original size:39 final size:39
Alignment explanation
Indices: 34500186--34500355 Score: 223
Period size: 39 Copynumber: 4.3 Consensus size: 39
34500176 GTATGAGATT
* * * *
34500186 GAAAATATATCCGGAAATAAGGTTCGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTA
*
34500226 GAAAAATATCCAGACATGAGGTCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* *
34500265 GAAAAATATCCGAACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * ** *
34500304 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
34500343 GAAAAATATCCGG
1 GAAAAATATCCGG
34500356 GTGAAAGACC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 109 0.96
40 5 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
Found at i:34504602 original size:27 final size:23
Alignment explanation
Indices: 34504538--34504584 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34504528 TGATCAAAGT
34504538 GACTTAATATTTTTATCTAGTTG
1 GACTTAATATTTTTATCTAGTTG
34504561 GACTTAATATTTTTATCTAGTTG
1 GACTTAATATTTTTATCTAGTTG
34504584 G
1 G
34504585 TTTTATACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (23 bp):
GACTTAATATTTTTATCTAGTTG
Found at i:34506602 original size:110 final size:110
Alignment explanation
Indices: 34506409--34506658 Score: 500
Period size: 110 Copynumber: 2.3 Consensus size: 110
34506399 TAGCTTTGGC
34506409 TTTACTCTTAAGATTATGGCTATATAGGTAAGCAACACTTGCTACTTACATCACATGTAACTCCT
1 TTTACTCTTAAGATTATGGCTATATAGGTAAGCAACACTTGCTACTTACATCACATGTAACTCCT
34506474 CTATTTTGTTAACAACACTTGTTCCAATCATCTCATGATTATGGG
66 CTATTTTGTTAACAACACTTGTTCCAATCATCTCATGATTATGGG
34506519 TTTACTCTTAAGATTATGGCTATATAGGTAAGCAACACTTGCTACTTACATCACATGTAACTCCT
1 TTTACTCTTAAGATTATGGCTATATAGGTAAGCAACACTTGCTACTTACATCACATGTAACTCCT
34506584 CTATTTTGTTAACAACACTTGTTCCAATCATCTCATGATTATGGG
66 CTATTTTGTTAACAACACTTGTTCCAATCATCTCATGATTATGGG
34506629 TTTACTCTTAAGATTATGGCTATATAGGTA
1 TTTACTCTTAAGATTATGGCTATATAGGTA
34506659 TTTAGTCCTA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 140 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (110 bp):
TTTACTCTTAAGATTATGGCTATATAGGTAAGCAACACTTGCTACTTACATCACATGTAACTCCT
CTATTTTGTTAACAACACTTGTTCCAATCATCTCATGATTATGGG
Found at i:34513737 original size:29 final size:26
Alignment explanation
Indices: 34513697--34513750 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
34513687 ACGAAATGGT
* *
34513697 TCGACTAGTCCAGTACTTTATTTTTCC
1 TCGACTAGTCCA-AACTTCATTTTTCC
34513724 TCGATCTAGATCCAAACTTCATTTTTC
1 TCGA-CTAG-TCCAAACTTCATTTTTC
34513751 TTGATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 15 0.65
29 4 0.17
ACGTcount: A:0.22, C:0.26, G:0.09, T:0.43
Consensus pattern (26 bp):
TCGACTAGTCCAAACTTCATTTTTCC
Found at i:34514384 original size:28 final size:28
Alignment explanation
Indices: 34514352--34514410 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34514342 TTTAGCTTAG
34514352 TTATTTACTAATTTACTATATTAACCTT
1 TTATTTACTAATTTACTATATTAACCTT
34514380 TTATTTACTAATTTACTATATTAACCTT
1 TTATTTACTAATTTACTATATTAACCTT
34514408 TTA
1 TTA
34514411 ATTAATTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATTTACTAATTTACTATATTAACCTT
Found at i:34519678 original size:25 final size:25
Alignment explanation
Indices: 34519650--34519699 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
34519640 TGGTTCGAGA
34519650 CTAAACCAATAACACAAGAAATTTT
1 CTAAACCAATAACACAAGAAATTTT
* *
34519675 CTAAACTAATAACGCAAGAAATTTT
1 CTAAACCAATAACACAAGAAATTTT
34519700 TTTAAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (25 bp):
CTAAACCAATAACACAAGAAATTTT
Found at i:34529562 original size:27 final size:26
Alignment explanation
Indices: 34529508--34529618 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 26
34529498 AGCATTGCTG
*
34529508 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAATAGATAATGTGACAGAGCCA
**
34529534 CCAGAATAGATAATTGTGGTAGAGCCA
1 CCAGAATAGATAA-TGTGACAGAGCCA
*
34529561 CCAGAACAGATATATGTCG-CAGAGCC-
1 CCAGAATAGATA-ATGT-GACAGAGCCA
* *
34529587 CGCAG-ATCAGATGAATGTGGCATAGCCA
1 C-CAGAAT-AGAT-AATGTGACAGAGCCA
34529615 CCAG
1 CCAG
34529619 GATGCTTCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
26 16 0.23
27 50 0.71
28 4 0.06
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAATAGATAATGTGACAGAGCCA
Found at i:34531040 original size:24 final size:24
Alignment explanation
Indices: 34531007--34531845 Score: 1642
Period size: 24 Copynumber: 35.0 Consensus size: 24
34530997 AACACTGTTC
* * *
34531007 TCCCTAATCAGCTCCTAAATCCTC
1 TCCCTTATCAACTCCTAAATCCTA
*
34531031 TCCCTTATCAGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531055 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531079 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531103 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531127 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531151 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531175 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531199 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531223 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531247 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531271 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531295 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531319 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531343 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531367 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531391 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531415 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531439 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531463 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531487 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531511 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531535 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531559 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531583 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531607 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531631 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531655 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531679 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531703 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531727 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531751 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531775 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531799 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34531823 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
34531846 CTCCTGACAG
Statistics
Matches: 812, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 812 1.00
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:34538077 original size:27 final size:27
Alignment explanation
Indices: 34538044--34538130 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
34538034 GTTACAGAGT
34538044 CACCAGAACAGATAATTGTGGCAAAGC
1 CACCAGAACAGATAATTGTGGCAAAGC
*
34538071 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGAACAGATAAT-TGTGGCAAAGC
* * *
34538098 CACCAGATCAGATAAATGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAAAGC
34538125 CACCAG
1 CACCAG
34538131 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAAAGC
Found at i:34539548 original size:24 final size:24
Alignment explanation
Indices: 34539510--34539586 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
34539500 CCAACACTGT
* *
34539510 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATAAGCTCCTAAATCC
34539534 TCTCCCTTATAAGCTCCTAAATCC
1 TCTCCCTTATAAGCTCCTAAATCC
*
34539558 TATCCCTTATCAA-CTCCTAAATCC
1 TCTCCCTTAT-AAGCTCCTAAATCC
34539582 TCTCC
1 TCTCC
34539587 TGACAGACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 46 0.96
25 2 0.04
ACGTcount: A:0.25, C:0.40, G:0.03, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATAAGCTCCTAAATCC
Found at i:34543326 original size:43 final size:43
Alignment explanation
Indices: 34543264--34543478 Score: 308
Period size: 43 Copynumber: 5.0 Consensus size: 43
34543254 TATGTGATTC
*
34543264 CGATATGTGATTACGTGTAAGAACACGTCTGGGAAGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
* * * *
34543307 TGATATGTGATTATGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
* *
34543350 CGATATGTGATTACGTATAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
*
34543393 CGATATGTGATTACGTGTGAGACC-CTGTCTGGGATAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-AGTTGGCAT
* *
34543436 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
34543479 TGTACGATAT
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
42 2 0.01
43 149 0.97
44 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGAAGTTGGCAT
Found at i:34546280 original size:30 final size:30
Alignment explanation
Indices: 34546245--34546307 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34546235 GAAAACCATA
*
34546245 ATAAAGAAATCCAAGATAGT-GGAATCCAAG
1 ATAAAGAAATCCAAGATA-TAGAAATCCAAG
* *
34546275 ATAAAGATATCCAAGGTATAGAAATCCAAG
1 ATAAAGAAATCCAAGATATAGAAATCCAAG
34546305 ATA
1 ATA
34546308 CCATATCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (30 bp):
ATAAAGAAATCCAAGATATAGAAATCCAAG
Found at i:34546286 original size:15 final size:15
Alignment explanation
Indices: 34546245--34546307 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
34546235 GAAAACCATA
34546245 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
** *
34546260 ATAGTGGAATCCAAG
1 ATAAAGAAATCCAAG
*
34546275 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
34546290 GTATAGAAATCCAAG
1 ATAAAGAAATCCAAG
34546305 ATA
1 ATA
34546308 CCATATCATA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34547893 original size:20 final size:20
Alignment explanation
Indices: 34547843--34547886 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
34547833 GTGTGGTCAC
*
34547843 ACACGCCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
34547863 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
34547883 ACAC
1 ACAC
34547887 GTTCGTGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGG
Found at i:34558090 original size:43 final size:43
Alignment explanation
Indices: 34558024--34558152 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
34558014 TATGTGATTC
* * *
34558024 CGATATTTGATTACGTCTAAGACCACGTCTGGAATGTTGGCAT
1 CGATATGTGATTATGTGTAAGACCACGTCTGGAATGTTGGCAT
*
34558067 CGATATGTGATTATGTGTTAGACC-CTGTCTGGGACA-G-TGGCAT
1 CGATATGTGATTATGTGTAAGACCAC-GTCT-GGA-ATGTTGGCAT
* * *
34558110 CGATATGTTATTACT-TGTAAGACCACGTCTGGGATGTCGGCAT
1 CGATATGTGATTA-TGTGTAAGACCACGTCTGGAATGTTGGCAT
34558153 TGTACGATAT
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
41 1 0.01
42 4 0.06
43 59 0.83
44 6 0.08
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTATGTGTAAGACCACGTCTGGAATGTTGGCAT
Found at i:34561852 original size:40 final size:40
Alignment explanation
Indices: 34561649--34561852 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
34561639 CGGAATTTAA
** *
34561649 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34561689 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34561729 CCGAATTTAGTAACTCGCACCAATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34561768 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34561808 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34561848 CCGGA
1 CCGGA
34561853 CATCATTCGA
Statistics
Matches: 136, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
39 36 0.26
40 89 0.65
41 11 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34565738 original size:27 final size:27
Alignment explanation
Indices: 34565708--34565837 Score: 100
Period size: 27 Copynumber: 4.8 Consensus size: 27
34565698 CGTATGTATC
*
34565708 ATTCCTTCAATGTTTTCCATACGAACT
1 ATTCCTTCAATGTTTTCCATACGTACT
* * * *
34565735 ATTCCTTCAGTGTTCTCCTTACGCACT
1 ATTCCTTCAATGTTTTCCATACGTACT
* * * * *
34565762 ACTCTTTTAGA-GTTTTCCATATGTATT
1 ATTCCTTCA-ATGTTTTCCATACGTACT
* * *
34565789 ATTCCTTCAATGTCTGCCATATGTACT
1 ATTCCTTCAATGTTTTCCATACGTACT
* * *
34565816 ATTCGTTCAGTGTTTACCATAC
1 ATTCCTTCAATGTTTTCCATAC
34565838 CATCCAGTCT
Statistics
Matches: 77, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
26 1 0.01
27 76 0.99
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (27 bp):
ATTCCTTCAATGTTTTCCATACGTACT
Found at i:34566066 original size:27 final size:27
Alignment explanation
Indices: 34566036--34566125 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
34566026 CACGAATGCG
*
34566036 TCCATTTCATAAATTGCCACAAAGACT
1 TCCATTTCATAAATTGCCACAAAGGCT
* * ** *
34566063 TCCATTTCATGGATTTGATACAAAGGGT
1 TCCATTTCAT-AAATTGCCACAAAGGCT
* * *
34566091 TTCATTTCATAGATTGCCACAAGGGCT
1 TCCATTTCATAAATTGCCACAAAGGCT
34566118 TCCATTTC
1 TCCATTTC
34566126 TCCGGCATTG
Statistics
Matches: 47, Mismatches: 15, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
27 27 0.57
28 20 0.43
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (27 bp):
TCCATTTCATAAATTGCCACAAAGGCT
Found at i:34574117 original size:40 final size:40
Alignment explanation
Indices: 34574047--34574931 Score: 1441
Period size: 40 Copynumber: 22.1 Consensus size: 40
34574037 CGGATGATAA
* *
34574047 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
* *
34574087 CGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574127 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574167 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574207 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574247 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574287 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574327 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574367 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574407 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574447 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574487 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574527 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574567 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574607 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574647 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574687 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574727 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574767 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574807 CGAAGGCATTTGTCCGAGTTCCTATATCCGGGCTAAGTCA
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574847 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
34574887 CGAAGGCATTTGTGCGAGCTACTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
34574926 CGAAGG
1 CGAAGG
34574932 TACTTGGTTT
Statistics
Matches: 781, Mismatches: 63, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
39 14 0.02
40 766 0.98
41 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:34574179 original size:80 final size:80
Alignment explanation
Indices: 34574046--34574917 Score: 1674
Period size: 80 Copynumber: 10.9 Consensus size: 80
34574036 TCGGATGATA
* * *
34574046 ACGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ACGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCT
34574110 ATATCCGGGCTAAGTC
65 ATATCCGGGCTAAGTC
34574126 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574191 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574206 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574271 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574286 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574351 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574366 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574431 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574446 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574511 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574526 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574591 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574606 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574671 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574686 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574751 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
34574766 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574831 TATCCGGGCTAAGTC
66 TATCCGGGCTAAGTC
* * *
34574846 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
34574911 TATCCGG
66 TATCCGG
34574918 TTAAATCCCG
Statistics
Matches: 785, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
80 784 1.00
81 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (80 bp):
ACGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTCCTA
TATCCGGGCTAAGTC
Found at i:34578038 original size:40 final size:40
Alignment explanation
Indices: 34577993--34578221 Score: 404
Period size: 40 Copynumber: 5.7 Consensus size: 40
34577983 GGAAACACAT
* *
34577993 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34578033 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34578073 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34578113 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
34578153 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34578193 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
34578222 CCAATGCTCA
Statistics
Matches: 183, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:34592797 original size:17 final size:17
Alignment explanation
Indices: 34592770--34592815 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
34592760 TACCAACTAA
34592770 AAAATTTAATTCTGTAAT
1 AAAA-TTAATTCTGTAAT
* *
34592788 AAAATTAATTTTGTTAT
1 AAAATTAATTCTGTAAT
*
34592805 AAATTTAATTC
1 AAAATTAATTC
34592816 AAGTGACAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (17 bp):
AAAATTAATTCTGTAAT
Found at i:34593062 original size:47 final size:47
Alignment explanation
Indices: 34592993--34593087 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
34592983 GCAGTCATGA
*
34592993 TTCGACATAACCTCTCTGTGATTAACCCTTCAT-TGATTAAATCCTTT
1 TTCGACATAACCTCTCTGTGATTAACCCTTAATGT-ATTAAATCCTTT
*
34593040 TTCGACATAACCTCTCTTTGATTAACCCTTAATGTATTAAATCCTTT
1 TTCGACATAACCTCTCTGTGATTAACCCTTAATGTATTAAATCCTTT
34593087 T
1 T
34593088 GTCCTTTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.42
Consensus pattern (47 bp):
TTCGACATAACCTCTCTGTGATTAACCCTTAATGTATTAAATCCTTT
Found at i:34605786 original size:45 final size:44
Alignment explanation
Indices: 34605735--34605916 Score: 215
Period size: 44 Copynumber: 4.1 Consensus size: 44
34605725 CTCGGATTAG
* *
34605735 ACCGGATATCCTTG-AATATAAAGGTGGTTGCTAAGTGCTAATTCC
1 ACCGGATATCCATGTAA-AT-AAGGTGGTTGCTAAGTGCTGATTCC
* *
34605780 ACCGGATATCCATGTAAGTAAGGTGGTTGCTAAGTCCTGATTCC
1 ACCGGATATCCATGTAAATAAGGTGGTTGCTAAGTGCTGATTCC
* * * *
34605824 ATCGGATATCCATGTAAGTAAGGTGGTTGCTAATTGCTGATTCT
1 ACCGGATATCCATGTAAATAAGGTGGTTGCTAAGTGCTGATTCC
* * *
34605868 ACCGGATAACCTTG-AATATAAAGGTGGTTGCTAACTGCTGATTCC
1 ACCGGATATCCATGTAA-AT-AAGGTGGTTGCTAAGTGCTGATTCC
34605913 ACCG
1 ACCG
34605917 TGTAATTATT
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.02
44 75 0.62
45 41 0.34
46 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
ACCGGATATCCATGTAAATAAGGTGGTTGCTAAGTGCTGATTCC
Found at i:34605803 original size:44 final size:44
Alignment explanation
Indices: 34605755--34605916 Score: 218
Period size: 44 Copynumber: 3.7 Consensus size: 44
34605745 CTTGAATATA
*
34605755 AAGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAAGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGT
* *
34605799 AAGGTGGTTGCTAAGTCCTGATTCCATCGGATATCCATGTAAGT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGT
* * * * *
34605843 AAGGTGGTTGCTAATTGCTGATTCTACCGGATAACCTTG-AATAT
1 AAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAA-GT
*
34605887 AAAGGTGGTTGCTAACTGCTGATTCCACCG
1 -AAGGTGGTTGCTAAGTGCTGATTCCACCG
34605917 TGTAATTATT
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 2 0.02
44 75 0.72
45 27 0.26
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (44 bp):
AAGGTGGTTGCTAAGTGCTGATTCCACCGGATATCCATGTAAGT
Found at i:34605834 original size:89 final size:89
Alignment explanation
Indices: 34605737--34605913 Score: 216
Period size: 89 Copynumber: 2.0 Consensus size: 89
34605727 CGGATTAGAC
* * *
34605737 CGGATATCCTTG-AATATAAAGGTGGTTGCTAAGTGCTAATTCCACCGGATATCCATGTAA-GT-
1 CGGATATCCATGTAA-AT-AAGGTGGTTGCTAAGTGCTAATTCCACCGGATAACCATG-AATATA
*
34605799 AAGGTGGTTGCTAAGTCCTGATTCCAT
63 AAGGTGGTTGCTAACTCCTGATTCCAT
* * * * *
34605826 CGGATATCCATGTAAGTAAGGTGGTTGCTAATTGCTGATTCTACCGGATAACCTTGAATATAAAG
1 CGGATATCCATGTAAATAAGGTGGTTGCTAAGTGCTAATTCCACCGGATAACCATGAATATAAAG
*
34605891 GTGGTTGCTAACTGCTGATTCCA
66 GTGGTTGCTAACTCCTGATTCCA
34605914 CCGTGTAATT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
87 2 0.03
88 35 0.47
89 36 0.48
90 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (89 bp):
CGGATATCCATGTAAATAAGGTGGTTGCTAAGTGCTAATTCCACCGGATAACCATGAATATAAAG
GTGGTTGCTAACTCCTGATTCCAT
Found at i:34608613 original size:43 final size:42
Alignment explanation
Indices: 34608481--34608664 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 42
34608471 TTCCCCGAGA
* * * * * * *
34608481 GGTTTCTAAGTGCTGATTCCCCGAATTATTTACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGT
*
34608523 AGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGT
* ** * *
34608565 GGTTGCTAAGTGCTGATTCCACTGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCACTGAATAT-AAAGGT
* *
34608608 GGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGT
*
34608649 GGTTGCTACGTGCTGA
1 GGTTGCTAAGTGCTGA
34608665 ATCCATCGAG
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
40 4 0.03
41 16 0.14
42 63 0.53
43 30 0.25
44 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGT
Found at i:34625917 original size:17 final size:18
Alignment explanation
Indices: 34625875--34625918 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34625865 AATCTGCGTG
* *
34625875 AGTATTTGCCAAGTGTAT
1 AGTATCTGCCAAGTGAAT
34625893 ATGTATCTGCC-AGTGAAT
1 A-GTATCTGCCAAGTGAAT
34625911 AGTATCTG
1 AGTATCTG
34625919 TAAACAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (18 bp):
AGTATCTGCCAAGTGAAT
Found at i:34638099 original size:12 final size:12
Alignment explanation
Indices: 34638082--34638106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34638072 CGAGCACGTA
34638082 TGGCAGAAGCTC
1 TGGCAGAAGCTC
34638094 TGGCAGAAGCTC
1 TGGCAGAAGCTC
34638106 T
1 T
34638107 AGTTTTTAGT
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (12 bp):
TGGCAGAAGCTC
Found at i:34642492 original size:57 final size:50
Alignment explanation
Indices: 34642402--34642651 Score: 220
Period size: 50 Copynumber: 4.9 Consensus size: 50
34642392 ACATTTGGGT
* *
34642402 GATGAGA--TCCCATGTAAGACCATGTCTGAGACATGGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GGCATTGGCA-C--CGA
* *
34642454 GGCTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGGACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
34642507 GATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * ** * *
34642557 TATTAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * * *
34642606 CAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34642652 TGTTATATTC
Statistics
Matches: 165, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 36 0.22
50 83 0.50
52 1 0.01
53 3 0.02
55 7 0.04
56 8 0.05
57 26 0.16
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:34642896 original size:20 final size:20
Alignment explanation
Indices: 34642858--34642896 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34642848 TAAGGAAGCA
*
34642858 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
34642878 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
34642897 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:34644221 original size:55 final size:55
Alignment explanation
Indices: 34644107--34644270 Score: 235
Period size: 55 Copynumber: 3.0 Consensus size: 55
34644097 TAAGGCAATC
*
34644107 CTTTCATAATTT-TCCACAAAGGTTTTTCTTTCATGATTCGCCACAAAAGATTTT
1 CTTTCATGATTTCTCCACAAAGGTTTTTCTTTCATGATTCGCCACAAAAGATTTT
* *
34644161 CTTTCATGA-TTCAT-CACAAAGGCTTTTCTTTCATGATTTCGCCACAAAAGCTTTT
1 CTTTCATGATTTC-TCCACAAAGGTTTTTCTTTCATGA-TTCGCCACAAAAGATTTT
* * *
34644216 CTTTCATGATTTCTCCACAAAGGTTTTTCTTTCTTGATTCGCAACAAAGGATTTT
1 CTTTCATGATTTCTCCACAAAGGTTTTTCTTTCATGATTCGCCACAAAAGATTTT
34644271 TTTTTCTTGA
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
53 2 0.02
54 29 0.30
55 43 0.44
56 23 0.24
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (55 bp):
CTTTCATGATTTCTCCACAAAGGTTTTTCTTTCATGATTCGCCACAAAAGATTTT
Found at i:34644262 original size:27 final size:27
Alignment explanation
Indices: 34644120--34644306 Score: 196
Period size: 27 Copynumber: 6.8 Consensus size: 27
34644110 TCATAATTTT
34644120 CCACAAAGGTTTTTCTTTCATGATTCG
1 CCACAAAGGTTTTTCTTTCATGATTCG
* * *
34644147 CCACAAAAGATTTTCTTTCATGATTCA
1 CCACAAAGGTTTTTCTTTCATGATTCG
* *
34644174 TCACAAAGGCTTTTCTTTCATGATTTCG
1 CCACAAAGGTTTTTCTTTCATGA-TTCG
* * *
34644202 CCACAAAAGCTTTTCTTTCATGATTTCT
1 CCACAAAGGTTTTTCTTTCATGA-TTCG
*
34644230 CCACAAAGGTTTTTCTTTCTTGATTCG
1 CCACAAAGGTTTTTCTTTCATGATTCG
* * * *
34644257 CAACAAAGGATTTTTTTTTCTTGATTCA
1 CCACAAAGG-TTTTTCTTTCATGATTCG
* *
34644285 CCA-AAATGTCTATTCTTTCATG
1 CCACAAAGGT-TTTTCTTTCATG
34644307 GCGTGTTTAT
Statistics
Matches: 135, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 68 0.50
28 66 0.49
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
CCACAAAGGTTTTTCTTTCATGATTCG
Found at i:34644303 original size:55 final size:54
Alignment explanation
Indices: 34644120--34644306 Score: 209
Period size: 55 Copynumber: 3.4 Consensus size: 54
34644110 TCATAATTTT
34644120 CCACAAAGGT-TTTTCTTTCATGATTCGCCACAAAAGATTTTCTTTCATGATTCA
1 CCACAAA-GTCTTTTCTTTCATGATTCGCCACAAAAGATTTTCTTTCATGATTCA
* * * *
34644174 TCACAAAGGCTTTTCTTTCATGATTTCGCCACAAAAGCTTTTCTTTCATGATTTCT
1 CCACAAAGTCTTTTCTTTCATGA-TTCGCCACAAAAGATTTTCTTTCATGA-TTCA
* * * * *
34644230 CCACAAAGGT-TTTTCTTTCTTGATTCGCAACAAAGGATTTTTTTTTCTTGATTCA
1 CCACAAA-GTCTTTTCTTTCATGATTCGCCACAAAAGA-TTTTCTTTCATGATTCA
*
34644285 CCA-AAATGTCTATTCTTTCATG
1 CCACAAA-GTCTTTTCTTTCATG
34644307 GCGTGTTTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.01
54 24 0.22
55 53 0.48
56 32 0.29
57 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.42
Consensus pattern (54 bp):
CCACAAAGTCTTTTCTTTCATGATTCGCCACAAAAGATTTTCTTTCATGATTCA
Found at i:34645849 original size:26 final size:26
Alignment explanation
Indices: 34645820--34645873 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
34645810 TTAAAAATAG
34645820 GACTGATTTTTAAAAGAATCAAATTT
1 GACTGATTTTTAAAAGAATCAAATTT
34645846 GACTGATTTTTAAAAGAATCAAATTT
1 GACTGATTTTTAAAAGAATCAAATTT
34645872 GA
1 GA
34645874 GAGTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (26 bp):
GACTGATTTTTAAAAGAATCAAATTT
Found at i:34645881 original size:26 final size:26
Alignment explanation
Indices: 34645824--34645882 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
34645814 AAATAGGACT
*
34645824 GATTTTTAAAAGAATCAAATTTGACT
1 GATTTTTAAAAGAATCAAATTTGACA
*
34645850 GATTTTTAAAAGAATCAAATTTGAGA
1 GATTTTTAAAAGAATCAAATTTGACA
34645876 G-TTTTTA
1 GATTTTTA
34645883 TGAAACAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (26 bp):
GATTTTTAAAAGAATCAAATTTGACA
Found at i:34650498 original size:23 final size:22
Alignment explanation
Indices: 34650471--34650521 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
34650461 TAAAATTTAA
34650471 ATTTTTGAAAAAAAATATTCTTT
1 ATTTTT-AAAAAAAATATTCTTT
** **
34650494 ATTTTTTTAACTAATATTCTTT
1 ATTTTTAAAAAAAATATTCTTT
34650516 ATTTTT
1 ATTTTT
34650522 TTATTTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTTAAAAAAAATATTCTTT
Found at i:34651657 original size:16 final size:16
Alignment explanation
Indices: 34651636--34651669 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34651626 ATGATAATGA
*
34651636 TACAGTGTTGAACATT
1 TACAGTGTTGAAAATT
34651652 TACAGTGTTGAAAATT
1 TACAGTGTTGAAAATT
34651668 TA
1 TA
34651670 TGGCCTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (16 bp):
TACAGTGTTGAAAATT
Found at i:34654981 original size:6 final size:6
Alignment explanation
Indices: 34654951--34654997 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
34654941 GAGAAGGTGA
* * * *
34654951 GGTGGC AGTGGC AGTGGC AGTGGC GGTGGC GCTGGC GGTGGC GGTGG
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGG
34654998 TTAAATCGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.06, C:0.17, G:0.60, T:0.17
Consensus pattern (6 bp):
GGTGGC
Found at i:34659842 original size:24 final size:24
Alignment explanation
Indices: 34659815--34659891 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
34659805 GACACACCAC
34659815 AGCTTGTATGAGCTTACCGATTTT
1 AGCTTGTATGAGCTTACCGATTTT
* * *
34659839 AGCTTGTGA-GAGC-AATCGATTCTC
1 AGCTTGT-ATGAGCTTACCGATT-TT
*
34659863 AGCTCGTATGAGCTTACCGATTTCT
1 AGCTTGTATGAGCTTACCGATTT-T
34659888 AGCT
1 AGCT
34659892 CGCGAGAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
23 7 0.17
24 23 0.56
25 11 0.27
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (24 bp):
AGCTTGTATGAGCTTACCGATTTT
Found at i:34659885 original size:48 final size:51
Alignment explanation
Indices: 34659814--34659923 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 51
34659804 GGACACACCA
* * * * *
34659814 CAGCTTGTATGAGCTTACCGATTT-TAGCTTGTGAGAGCA-ATCGATTC-T
1 CAGCTCGTATGAGCTTACCGATTTCTAGCTCGCGAGAACATACCGATTCAT
34659862 CAGCTCGTATGAGCTTACCGATTTCTAGCTCGCGAGAACATACCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTTCTAGCTCGCGAGAACATACCGATTCAT
34659913 -AGCTCGTATGA
1 CAGCTCGTATGA
34659924 TCATACATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 23 0.43
49 12 0.22
50 18 0.33
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (51 bp):
CAGCTCGTATGAGCTTACCGATTTCTAGCTCGCGAGAACATACCGATTCAT
Found at i:34659891 original size:25 final size:24
Alignment explanation
Indices: 34659815--34659923 Score: 80
Period size: 25 Copynumber: 4.5 Consensus size: 24
34659805 GACACACCAC
* *
34659815 AGCTTGTATGAGCTTACCGATTTT
1 AGCTCGTATGAGCTTACCGATTCT
* * *
34659839 AGCTTGTGA-GAGC-AATCGATTCT
1 AGCTCGT-ATGAGCTTACCGATTCT
34659862 CAGCTCGTATGAGCTTACCGATTTCT
1 -AGCTCGTATGAGCTTACCGA-TTCT
* * *
34659888 AGCTCGCGA-GAACATACCGATTCAT
1 AGCTCG-TATGAGCTTACCGATTC-T
34659913 AGCTCGTATGA
1 AGCTCGTATGA
34659924 TCATACATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
23 8 0.12
24 25 0.37
25 29 0.43
26 5 0.07
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGATTCT
Found at i:34663149 original size:23 final size:23
Alignment explanation
Indices: 34663123--34663168 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34663113 CTAAAATTGG
34663123 GTTAGTTTTACCATAGATGATAC
1 GTTAGTTTTACCATAGATGATAC
34663146 GTTAGTTTTACCATAGATGATAC
1 GTTAGTTTTACCATAGATGATAC
34663169 AATGACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (23 bp):
GTTAGTTTTACCATAGATGATAC
Found at i:34669289 original size:50 final size:50
Alignment explanation
Indices: 34669181--34669290 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 50
34669171 ATGAGAGGTA
* * * * **
34669181 CCATATAAGACCATGTCAGGGACATCGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCAGGGACATCGCATGGGCACCAAGATGAGAACTC
** ** * *
34669231 CCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCAATATGAGAACTC
1 CCATGTAAGACCATGTCAGGGACATCGCATGGGCACCAAGATGAGAACTC
34669281 CCATGTAAGA
1 CCATGTAAGA
34669291 TGATATCTAG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.29, C:0.25, G:0.27, T:0.19
Consensus pattern (50 bp):
CCATGTAAGACCATGTCAGGGACATCGCATGGGCACCAAGATGAGAACTC
Found at i:34672872 original size:136 final size:138
Alignment explanation
Indices: 34672627--34672899 Score: 336
Period size: 136 Copynumber: 2.0 Consensus size: 138
34672617 AGCTGTAAAA
* * * * *
34672627 TGGGTCTGCTCACACAAGCTGTCAGTCGGAATGTAAGCTACACGATACTGCTCACACAAGCTGTC
1 TGGGTCTGCTCACACAAGCTGTCAGTCAGAACGTAAGCCACACGATACTACTCACACAAGCTGTA
* * ** ** * *
34672692 AAGTATCTGTAACTAATGCCAAGCCTCAGCCATTGGTAGGACATTCAGGACCAGCA-CCAAAACA
66 AAGTATCCGCAACTAATGCCAAAACTCAGCCACCGATAGGACATTCAAGACCAGCACCCAAAACA
*
34672756 TGGTAACT
131 TCGTAACT
* * *
34672764 TGGGTCTGCTTACACAAGCTGTCAGTCAGAACGT-AGCCACACGGTGCTACTCACACAAGCTGTA
1 TGGGTCTGCTCACACAAGCTGTCAGTCAGAACGTAAGCCACACGATACTACTCACACAAGCTGTA
* * *
34672828 AAGTATCCGCAAC-ACATGCTAAAACTCAGCTACCGATAGGACATTCAAGACCAGCACCCGAAAC
66 AAGTATCCGCAACTA-ATGCCAAAACTCAGCCACCGATAGGACATTCAAGACCAGCACCCAAAAC
34672892 ATCGTAAC
130 ATCGTAAC
34672900 CCTAATGATG
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 1 0.01
136 69 0.61
137 44 0.39
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (138 bp):
TGGGTCTGCTCACACAAGCTGTCAGTCAGAACGTAAGCCACACGATACTACTCACACAAGCTGTA
AAGTATCCGCAACTAATGCCAAAACTCAGCCACCGATAGGACATTCAAGACCAGCACCCAAAACA
TCGTAACT
Found at i:34681559 original size:51 final size:50
Alignment explanation
Indices: 34681500--34681634 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 50
34681490 GAAAGATAGG
34681500 TCACATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * * * *
34681551 TCACATGTGTAGTACTATCTACAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAGT-ATGA
34681602 TCACATGTGTAGTACTATGTG-TAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCT-GGCTACTATG
34681635 TGAACTCGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 68 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCTGGCTACTATGCGTACCGGATAGTATGA
Found at i:34681783 original size:84 final size:84
Alignment explanation
Indices: 34681642--34682021 Score: 629
Period size: 84 Copynumber: 4.5 Consensus size: 84
34681632 ATGTGAACTC
* * *
34681642 GTATCATTGATTATAAGGTTGG-TGCTAAGTGTTGATTCCACTGTATCTTTGATTGTGAAAGGGG
1 GTATCATTGATTATAAGG-TGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
34681706 TTGCTATGTGTTGATTCCCT
65 TTGCTATGTGTTGATTCCCT
* * *
34681726 GTATCATTGATTATAAGGTTGG-TGCTAAGTGTTGATTCCACTGTATCTTTGATTGTGAAAGGGG
1 GTATCATTGATTATAAGG-TGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
34681790 TTGCTATGTGTTGATTCCCT
65 TTGCTATGTGTTGATTCCCT
*
34681810 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGACTCCACCGTATCCTTGATTGTGAAAGGGGT
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGT
34681875 TGCTATGTGTTGATTCCCT
66 TGCTATGTGTTGATTCCCT
*
34681894 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGACTCCACCGTATCCTTGATTGTGAAAGGGGT
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGT
*
34681959 TGCTATGTGTTGATTCCCC
66 TGCTATGTGTTGATTCCCT
* *
34681978 GTATCATTGATTATAAGATGGTTGCTAAGCGCTGATTCCACCGT
1 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
34682022 GTAACGGTTA
Statistics
Matches: 287, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 3 0.01
84 284 0.99
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (84 bp):
GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGT
TGCTATGTGTTGATTCCCT
Found at i:34684330 original size:24 final size:25
Alignment explanation
Indices: 34684277--34684328 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34684267 GAAAAAGAGT
34684277 AAAGGTAATATTCATTAAAAACTGA
1 AAAGGTAATATTCATTAAAAACTGA
34684302 AAAGGTAATATTCATTAAAAACTGA
1 AAAGGTAATATTCATTAAAAACTGA
34684327 AA
1 AA
34684329 GGAGGATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAGGTAATATTCATTAAAAACTGA
Found at i:34699574 original size:13 final size:13
Alignment explanation
Indices: 34699553--34699582 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34699543 AAACTAGATT
*
34699553 TTAATTAAGAAAA
1 TTAACTAAGAAAA
34699566 TTAACTAAGAAAA
1 TTAACTAAGAAAA
34699579 TTAA
1 TTAA
34699583 AAGGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:34701402 original size:114 final size:114
Alignment explanation
Indices: 34701209--34701436 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
34701199 AACTTATATT
*
34701209 GTTAAGTTATTTTTGATGAATTTTGAAATAGGGATTAAATTGTTGAAAGTGGAAAACCATGGGTT
1 GTTAAGTGATTTTTGATGAATTTTGAAATAGGGATTAAATTGTTGAAAGTGGAAAACCATGGGTT
34701274 TTGTTGTGAACTGTTGGTAATTACGGGTTGTTCCAAGGTCTTTTATAGC
66 TTGTTGTGAACTGTTGGTAATTACGGGTTGTTCCAAGGTCTTTTATAGC
34701323 GTTAAGTGATTTTTGATGAATTTTGAAATAGGGATTAAATTGTTGAAAGTGGAAAACCATGGGTT
1 GTTAAGTGATTTTTGATGAATTTTGAAATAGGGATTAAATTGTTGAAAGTGGAAAACCATGGGTT
34701388 TTGTTGTGAACTGTTGGTAATTACGGGTTGTTCCAAGGTCTTTTATAGC
66 TTGTTGTGAACTGTTGGTAATTACGGGTTGTTCCAAGGTCTTTTATAGC
34701437 TTTGGTTAAT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.40
Consensus pattern (114 bp):
GTTAAGTGATTTTTGATGAATTTTGAAATAGGGATTAAATTGTTGAAAGTGGAAAACCATGGGTT
TTGTTGTGAACTGTTGGTAATTACGGGTTGTTCCAAGGTCTTTTATAGC
Found at i:34702017 original size:26 final size:26
Alignment explanation
Indices: 34701985--34702053 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
34701975 GATTTCGACC
* *
34701985 CATAGCTCGTGTGAGTAGGCCCATTT
1 CATAGCTCGTGTGAGCAAGCCCATTT
*
34702011 GATAGCTCGTGTGAGCAAGCCCATTT
1 CATAGCTCGTGTGAGCAAGCCCATTT
*
34702037 CATAGCTTGTGTGAGCA
1 CATAGCTCGTGTGAGCA
34702054 GTATTGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (26 bp):
CATAGCTCGTGTGAGCAAGCCCATTT
Found at i:34704451 original size:20 final size:22
Alignment explanation
Indices: 34704405--34704463 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
34704395 ATAAGAGTAA
*
34704405 TAATATATAATAATAATAAAAGGC
1 TAATA-ATAATAAAAATAAAA-GC
34704429 TAATAATAATAAAAAT-AAA-C
1 TAATAATAATAAAAATAAAAGC
*
34704449 TAATATTAA-AAAAAT
1 TAATAATAATAAAAAT
34704464 TAATAGAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
22 3 0.09
23 10 0.30
24 5 0.15
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (22 bp):
TAATAATAATAAAAATAAAAGC
Found at i:34707072 original size:28 final size:27
Alignment explanation
Indices: 34707041--34707101 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 27
34707031 TTTGTTACTT
*
34707041 TATTTTATTTATTTCATCAAA-ATGATTA
1 TATTTTATTTATTT-ATCAAATA-GATGA
*
34707069 TA-TTTA-TTATTTTTCAAATAGATGA
1 TATTTTATTTATTTATCAAATAGATGA
34707094 TATTTTAT
1 TATTTTAT
34707102 ATTTTATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
25 11 0.39
26 11 0.39
27 4 0.14
28 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (27 bp):
TATTTTATTTATTTATCAAATAGATGA
Found at i:34707096 original size:25 final size:24
Alignment explanation
Indices: 34707060--34707106 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
34707050 TATTTCATCA
*
34707060 AAATGATTATA-TTTATTATTTTTC
1 AAATGATGATATTTTA-TATTTTTC
34707084 AAATAGATGATATTTTATATTTT
1 AAAT-GATGATATTTTATATTTT
34707107 ATGAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
AAATGATGATATTTTATATTTTTC
Found at i:34708481 original size:14 final size:14
Alignment explanation
Indices: 34708462--34708494 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34708452 CGATGTGGTA
*
34708462 TTTTTTTT-CTTGT
1 TTTTTTTTGTTTGT
34708475 TTTTTTTTGTTTGT
1 TTTTTTTTGTTTGT
34708489 TTTTTT
1 TTTTTT
34708495 ATCTGATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (14 bp):
TTTTTTTTGTTTGT
Found at i:34714593 original size:26 final size:26
Alignment explanation
Indices: 34714563--34714713 Score: 176
Period size: 26 Copynumber: 5.7 Consensus size: 26
34714553 AAACGTATGA
* *
34714563 AAATGGAAGCCTTTGTGGTGTATTTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* *
34714589 AAATGGAAGTCTTTGTGGCGTATCTA
1 AAATGGAAGCCTTTGTGGCGTATCTG
* *
34714615 AAATAGAAGCCTTTGTGGCATATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
*
34714641 AAATTGAAGCCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
* * *
34714667 AAATTGAAGCCTTTGTGGCGGTTTATGG
1 AAATGGAAGCCTTTGTGGC-GTATCT-G
* *
34714695 AAAGGGATGCCTTTGTGGC
1 AAATGGAAGCCTTTGTGGC
34714714 TAATAATGAC
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 87 0.81
27 4 0.04
28 17 0.16
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.34
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCGTATCTG
Found at i:34715211 original size:49 final size:49
Alignment explanation
Indices: 34715137--34715231 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 49
34715127 TAGTTTAATA
* *
34715137 ATCTGCAATTTCTGGTAGCTTGACCATAATATTTTGTATCTGGCAGTAT
1 ATCTGCAATTTCTGGTAGCTCGACCATAATATTTTGTATCTAGCAGTAT
* *
34715186 ATCTGC-ATTATCTGGTCGCTCGACCATAATATTTTGTTTCTAGCAG
1 ATCTGCAATT-TCTGGTAGCTCGACCATAATATTTTGTATCTAGCAG
34715232 CTCGACTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (49 bp):
ATCTGCAATTTCTGGTAGCTCGACCATAATATTTTGTATCTAGCAGTAT
Found at i:34725961 original size:201 final size:201
Alignment explanation
Indices: 34725616--34726022 Score: 814
Period size: 201 Copynumber: 2.0 Consensus size: 201
34725606 TAGTTTGCTT
34725616 GATTTATGGCTGGCCACCCATGGAAGATTCTTCAAAGGATGAAAACTCCTATATTTAGTAAACTA
1 GATTTATGGCTGGCCACCCATGGAAGATTCTTCAAAGGATGAAAACTCCTATATTTAGTAAACTA
34725681 TCCCCCTCTCCTTACCTATAAATAAGACCCTCTCATTCATTCTTCAAGCATCCCACAATCATTCT
66 TCCCCCTCTCCTTACCTATAAATAAGACCCTCTCATTCATTCTTCAAGCATCCCACAATCATTCT
34725746 TCAATCATCCCTCAAGCACCATTCTCTCTTAGCCTTTTCCATTCCCAAGCCTAGCATCATCTCTT
131 TCAATCATCCCTCAAGCACCATTCTCTCTTAGCCTTTTCCATTCCCAAGCCTAGCATCATCTCTT
34725811 CATAGA
196 CATAGA
34725817 GATTTATGGCTGGCCACCCATGGAAGATTCTTCAAAGGATGAAAACTCCTATATTTAGTAAACTA
1 GATTTATGGCTGGCCACCCATGGAAGATTCTTCAAAGGATGAAAACTCCTATATTTAGTAAACTA
34725882 TCCCCCTCTCCTTACCTATAAATAAGACCCTCTCATTCATTCTTCAAGCATCCCACAATCATTCT
66 TCCCCCTCTCCTTACCTATAAATAAGACCCTCTCATTCATTCTTCAAGCATCCCACAATCATTCT
34725947 TCAATCATCCCTCAAGCACCATTCTCTCTTAGCCTTTTCCATTCCCAAGCCTAGCATCATCTCTT
131 TCAATCATCCCTCAAGCACCATTCTCTCTTAGCCTTTTCCATTCCCAAGCCTAGCATCATCTCTT
34726012 CATAGA
196 CATAGA
34726018 GATTT
1 GATTT
34726023 TAGGAATTAA
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 206 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (201 bp):
GATTTATGGCTGGCCACCCATGGAAGATTCTTCAAAGGATGAAAACTCCTATATTTAGTAAACTA
TCCCCCTCTCCTTACCTATAAATAAGACCCTCTCATTCATTCTTCAAGCATCCCACAATCATTCT
TCAATCATCCCTCAAGCACCATTCTCTCTTAGCCTTTTCCATTCCCAAGCCTAGCATCATCTCTT
CATAGA
Found at i:34738810 original size:22 final size:22
Alignment explanation
Indices: 34738776--34738819 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34738766 TTTGCACTTA
* *
34738776 AATTATTAATATATTGAATTTT
1 AATTATTAATATAATAAATTTT
**
34738798 AATTATTTTTATAATAAATTTT
1 AATTATTAATATAATAAATTTT
34738820 CTCAAATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTATTAATATAATAAATTTT
Found at i:34744529 original size:19 final size:19
Alignment explanation
Indices: 34744507--34744544 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34744497 TCAATCATCC
34744507 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
34744526 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
34744545 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:34745355 original size:21 final size:22
Alignment explanation
Indices: 34745314--34745357 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
34745304 CCTAGTTTAT
*
34745314 TTATGTTATAATTGTTGTAAAA
1 TTATGTTATAATTGTTCTAAAA
34745336 TTATGTT-TAATT-TTACTAAAA
1 TTATGTTATAATTGTT-CTAAAA
34745357 T
1 T
34745358 CTATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 11 0.55
22 7 0.35
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (22 bp):
TTATGTTATAATTGTTCTAAAA
Found at i:34757089 original size:25 final size:25
Alignment explanation
Indices: 34757060--34757120 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
34757050 CCACCACTCA
* *
34757060 TGAGAGCATAC-AGATTTGTAGCTTG
1 TGAGAGCATACTA-ATTTATAGCTCG
34757085 TGAGAGCATACTAATTTATAGCTCG
1 TGAGAGCATACTAATTTATAGCTCG
34757110 TGAGAGCATAC
1 TGAGAGCATAC
34757121 CGATCTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (25 bp):
TGAGAGCATACTAATTTATAGCTCG
Found at i:34758222 original size:15 final size:15
Alignment explanation
Indices: 34758175--34758224 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
34758165 CAGCTGTGTT
*
34758175 TGACACATAGCTAGG
1 TGACACACAGCTAGG
*
34758190 TGACACAGCCG-T-GTG
1 TGACACA-CAGCTAG-G
34758205 TGACACACAGCTAGG
1 TGACACACAGCTAGG
34758220 TGACA
1 TGACA
34758225 TGGTCGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 3 0.11
15 23 0.82
16 2 0.07
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.18
Consensus pattern (15 bp):
TGACACACAGCTAGG
Found at i:34758235 original size:30 final size:30
Alignment explanation
Indices: 34758165--34758224 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34758155 GTGTGTCTCT
* * *
34758165 CAGCTGTGTTTGACACATAGCTAGGTGACA
1 CAGCCGTGTGTGACACACAGCTAGGTGACA
34758195 CAGCCGTGTGTGACACACAGCTAGGTGACA
1 CAGCCGTGTGTGACACACAGCTAGGTGACA
34758225 TGGTCGTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (30 bp):
CAGCCGTGTGTGACACACAGCTAGGTGACA
Found at i:34766181 original size:138 final size:138
Alignment explanation
Indices: 34765989--34766409 Score: 637
Period size: 138 Copynumber: 3.0 Consensus size: 138
34765979 TAGAAAATTG
* * *
34765989 AATTATATTCTTTCCTAAAAGAATATTATTTTCCATGTCATTTATATTTTGATTGAAATTAATTA
1 AATTATATTCTTTCC-AAAAGAATATTAATTTCTATGTCTTTTATATTTTGATTGAAATTAATTA
* * *
34766054 ATATAATTTTTTATATTAATAAATTCGATAAAATTTATACAATTAATATTTTTTATGAATCAACT
65 ATATAATTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAATCAAAT
34766119 TCATATATT
130 TCATATATT
* *
34766128 AATTATATTCTTTCCAAAAGAATATTAATTTCTATTTCTTTTATACTTTGATTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGATTGAAATTAATTAA
* * * *
34766193 TATAATTGTTTATATAAATAAATTCGGTAAAATATAAACAATTAATATTTTTTATGAATAAAATT
66 TATAATTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAATCAAATT
*
34766258 TATATATT
131 CATATATT
* ***
34766266 AATTATATTCTTTCCAAAATAATATTAATTTCTATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGATTGAAATTAATTAA
* *
34766331 TATAATTGTTTATATTAATAAATTTGGA-AAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAATTGTTTATATTAATAAA-TTCGATAAAATATATACAATTAATATTTTTTATGAATCAAAT
*
34766395 TCTTATATT
130 TCATATATT
34766404 AATTAT
1 AATTAT
34766410 GTATATGTTC
Statistics
Matches: 254, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
138 236 0.93
139 18 0.07
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.48
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGATTGAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTTTATGAATCAAATT
CATATATT
Found at i:34769998 original size:79 final size:81
Alignment explanation
Indices: 34769862--34770044 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
34769852 TCGAATGATG
* *
34769862 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34769926 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
34769941 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
34770003 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
34770021 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34770045 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Done.