Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 105 of 190
Found at i:31856443 original size:257 final size:258
Alignment explanation
Indices: 31855948--31856519 Score: 828
Period size: 258 Copynumber: 2.2 Consensus size: 258
31855938 GCGTTTTTTT
**
31855948 TATAAAAACGCCACAAAAAAATAAATTAAATTATAAAAAATAAAATAAAAAATTTTTAGCATAGC
1 TATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAATAAAATAAAAAATTTTTAGCATAGC
* *
31856013 AAAACGGTGTCATTTTATTCAAAATGAAATAGCGGCGTTTTTTATAAAAACGCCACAAAAAATAA
66 AAAACGGTGTCATTTTATTCAAAACGAAATACCGGCGTTTTTTATAAAAACGCCACAAAAAATAA
* *
31856078 ACCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAGAACGGCGTCGTTTTGTTCAAAA
131 ACCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGAGTCGTTTTGTTCAAAA
*
31856143 TGAAAAAAATTTTGTGGCGTTTTTATGAAAGAACGCCGCTAAAGATTTAGCCTCACAAATGCA
196 TGAAAAAAATTTTGCGGCGTTTTTATGAAAGAACGCCGCTAAAGATTTAGCCTCACAAATGCA
* * * *
31856206 TATAAAATCGCCGC-AAAAAATAAACCAATTTATAAAAAATAAAATAAAAATTTTTTAGCATAGC
1 TATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAATAAAATAAAAAATTTTTAGCATAGC
* * *
31856270 AAAACGGTGTCATTTTGTTCAAAACGAAATACCGGCGTTTTTTTATAGAAACGCCGCAAAAAATA
66 AAAACGGTGTCATTTTATTCAAAACGAAATACCGGCG-TTTTTTATAAAAACGCCACAAAAAATA
*
31856335 AACCAATTTATAAAAAAGAAAATAAAAAATTTTTAGAATAGCAAAACGGAGTCGTTTTGTTCAAA
130 AACCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGAGTCGTTTTGTTCAAA
* * * * ***
31856400 ATGAAAAAAATTTTGCGGCGTTTTTATGAAA-AACGCGGCTAAAG-GTAAGCAAT-AGCGGCGTT
195 ATGAAAAAAATTTTGCGGCGTTTTTATGAAAGAACGCCGCTAAAGATTTAGC-CTCA-C--AAAT
***
31856462 TTT
256 GCA
* *
31856465 TATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTT
1 TATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAATAAAATAAAAAATTT
31856520 NNNNNNNNNN
Statistics
Matches: 279, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
256 5 0.02
257 94 0.34
258 129 0.46
259 13 0.05
260 38 0.14
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (258 bp):
TATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAATAAAATAAAAAATTTTTAGCATAGC
AAAACGGTGTCATTTTATTCAAAACGAAATACCGGCGTTTTTTATAAAAACGCCACAAAAAATAA
ACCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGAGTCGTTTTGTTCAAAA
TGAAAAAAATTTTGCGGCGTTTTTATGAAAGAACGCCGCTAAAGATTTAGCCTCACAAATGCA
Found at i:31862322 original size:70 final size:69
Alignment explanation
Indices: 31862242--31862373 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 69
31862232 TTTATAAAAA
* * * * *
31862242 CGCCGCAAAAAATAAA-TCAATTTATAAAAAATAAACTAAAAATTTTTTTAGCATAGCAAAACGG
1 CGCCGAAAAAAATAAACT-AATTTATAAAAAACAAAATAAAAA-ATTTTTAGAATAGCAAAACGG
31862306 TGTCAT
64 TGTCAT
* *
31862312 CGCCGAAAAAAATAAACTAATTTATACAAAACAAAATAAAAAATTTTTAGAATAGCGAAACG
1 CGCCGAAAAAAATAAACTAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACG
31862374 TCGTCGTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
69 17 0.31
70 36 0.67
71 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.10, T:0.24
Consensus pattern (69 bp):
CGCCGAAAAAAATAAACTAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGTG
TCAT
Found at i:31862580 original size:106 final size:107
Alignment explanation
Indices: 31862440--31862654 Score: 274
Period size: 106 Copynumber: 2.0 Consensus size: 107
31862430 AAAGGTAAGC
* * * * * *
31862440 AATAGCGGCGTTTTTTTATAAAAACGTCTCAAAAATTAAA-TCAATTTATAAAAAATAAAATAAA
1 AATAGCGGCGTGTTTTTATAAAAACGCCGCAAAAAATAAACT-AATTTATAAAAAAGAAAAGAAA
* * **
31862504 AAATTTTTAG-CATAGCAAAACGGTGTCATTTGGTTCAAAATGA
65 AAAATTTTAGAC-TAGAAAAACGACGTCATTTGGTTCAAAATGA
*
31862547 AATAGCGGCG-GTTTTTATAAAAACGCCGCAAAAAATAAACTAATTTATAAAGAAGAAAAGAAAA
1 AATAGCGGCGTGTTTTTATAAAAACGCCGCAAAAAATAAACTAATTTATAAAAAAGAAAAGAAAA
* *
31862611 AAATTTTAGACTAGAAAAACGACGTCGTTTTGTTCAAAATGA
66 AAATTTTAGACTAGAAAAACGACGTCATTTGGTTCAAAATGA
31862653 AA
1 AA
31862655 AAAATTTTGC
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
106 81 0.87
107 12 0.13
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (107 bp):
AATAGCGGCGTGTTTTTATAAAAACGCCGCAAAAAATAAACTAATTTATAAAAAAGAAAAGAAAA
AAATTTTAGACTAGAAAAACGACGTCATTTGGTTCAAAATGA
Found at i:31862781 original size:258 final size:255
Alignment explanation
Indices: 31862312--31863255 Score: 1299
Period size: 258 Copynumber: 3.7 Consensus size: 255
31862302 ACGGTGTCAT
* * ** *
31862312 CGCCGAAAAAAATAAACTAATTTATACAAAACAAAATAAAAAATTTTTAGAATAGCGAAACGTCG
1 CGCCGCAAAAAATAAACCAATTTATACAAAACAAAATAAAAAATTTTTAGAATAGAAAAACGGCG
*
31862377 TCGTTTTGTCCAAAATG-AAAAAATTTTGCGGCGTTGTTCATAAAAACGCCGCTAAAGGTAAGCA
66 TCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCAT--AAACGCCGCTAAAGGTAAGCA
* * *
31862441 ATAGCGGCGTTTTTTTATAAAAACGTCTCAAAAATTAAATCAATTTATAAAAAATAAAATAAAAA
129 ATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAATAAAAT-AAAA
*
31862506 ATTTTTAGCATAGCAAAACGGTGTCATTTGGTTCAAAATGAAATAGCGGCGGTTTTTATAAAAA
193 ATTTTTAGCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGC-GTTTTTATAAAAA
* * * * * *
31862570 CGCCGCAAAAAATAAACTAATTTATA-AAGAAGAAAAGAAAAAAATTTTAGACTAGAAAAACGAC
1 CGCCGCAAAAAATAAACCAATTTATACAA-AACAAAATAAAAAATTTTTAGAATAGAAAAACGGC
31862634 GTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCATAAAAACGCCGCTAAAGGTAAGC
65 GTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCAT--AAACGCCGCTAAAGGTAAGC
* * * * * *
31862699 AATAACGGTG-TTTTTTATACAGACGCCAC-AAAAATAAATCAAGTTCTAAAAAATAGAAATAAA
128 AATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAATA-AAATAAA
* * *
31862762 AATTTTTTAGCACAGCAAAATGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTT-TAAAGA
192 AA-TTTTTAGCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTATAAAAA
*
31862826 CGCCGCAAAAAAAAAACCAATTTATACAAAACAAAATAAAAAATTTTTAGAATA-ACAAAACGGC
1 CGCCGCAAAAAATAAACCAATTTATACAAAACAAAATAAAAAATTTTTAGAATAGA-AAAACGGC
* * *
31862890 GTCGTTTTGTTCAAAATGAAAAAAGTTTTACGGCGTT-TT--T--A---TGCTAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCATAAACGCCGCTAAAGGTAAGCAA
31862947 TAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
130 TAGCGGCGTTTTTTTATAAAAACGCCAC-AAAAAATAAATCAATTTATAAAAAATAAAATAAAAA
* *
31863012 ATTTTAGCATAACAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTATAAAAAA
194 TTTTTAGCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTAT-AAAAA
* *
31863075 CGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAGAAA-GGC
1 CGCCGCAAAAAATAAACCAATTTATACAAAACAAAATAAAAAATTTTTAGAATAG-AAAAACGGC
* * * *
31863139 GTCGTTTTGTTCAAAATGAAATAATTTTTGCGGCGTTTTTCATAAACGCCGCCAAAGGTAAGCAA
65 GTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCATAAACGCCGCTAAAGGTAAGCAA
* * *
31863204 TAGCGGTG-TTTTTTATAAAAACGCCGCAAAAAATAAATCGATTTATAAAAAA
130 TAGCGGCGTTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAA
31863256 AATTAGCATA
Statistics
Matches: 611, Mismatches: 54, Indels: 45
0.86 0.08 0.06
Matches are distributed among these distances:
246 21 0.03
247 68 0.11
248 10 0.02
249 118 0.19
250 5 0.01
251 1 0.00
252 1 0.00
253 1 0.00
254 1 0.00
255 27 0.04
256 110 0.18
257 59 0.10
258 135 0.22
259 54 0.09
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (255 bp):
CGCCGCAAAAAATAAACCAATTTATACAAAACAAAATAAAAAATTTTTAGAATAGAAAAACGGCG
TCGTTTTGTTCAAAATGAAAAAAATTTTGCGGCGTTGTTCATAAACGCCGCTAAAGGTAAGCAAT
AGCGGCGTTTTTTTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAATAAAATAAAAATT
TTTAGCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTATAAAAA
Found at i:31862837 original size:105 final size:105
Alignment explanation
Indices: 31862699--31862910 Score: 248
Period size: 104 Copynumber: 2.0 Consensus size: 105
31862689 AAAGGTAAGC
* * * * *
31862699 AATAACGGTGTTTTTTATACAGACGCCACAAAAATAAATCAAGTTCTAAAAAATAGAAATAAAAA
1 AATAACGGCGTTTTTTATACAGACGCCACAAAAAAAAACCAAGTTATAAAAAACA-AAATAAAAA
* * * * *
31862764 TTTTTTAGCACAGCAAAATGGTGTCATTTTGTTCAAAATGA
65 ATTTTTAGAACAACAAAACGGCGTCATTTTGTTCAAAATGA
* * * *
31862805 AATAGCGGCGTTTTTTA-A-AGACGCCGCAAAAAAAAAACCAATTTATACAAAACAAAATAAAAA
1 AATAACGGCGTTTTTTATACAGACGCCAC-AAAAAAAAACCAAGTTATAAAAAACAAAATAAAAA
* *
31862868 ATTTTTAGAATAACAAAACGGCGTCGTTTTGTTCAAAATGA
65 ATTTTTAGAACAACAAAACGGCGTCATTTTGTTCAAAATGA
31862909 AA
1 AA
31862911 AAAGTTTTAC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
104 53 0.60
105 21 0.24
106 15 0.17
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (105 bp):
AATAACGGCGTTTTTTATACAGACGCCACAAAAAAAAACCAAGTTATAAAAAACAAAATAAAAAA
TTTTTAGAACAACAAAACGGCGTCATTTTGTTCAAAATGA
Found at i:31863096 original size:105 final size:108
Alignment explanation
Indices: 31862945--31863161 Score: 325
Period size: 106 Copynumber: 2.0 Consensus size: 108
31862935 AAAGGTAAGC
* * *
31862945 AATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAATAAAATAAA
1 AATAGCGGCGTTTTTATATAAAAACGCCACAAAAAAATAAACCAATTTATAAAAAACAAAATAAA
* *
31863010 AAA-TTTTAGCATAACA-AAACGGTGTCATTTTGTTCAAAATGA
66 AAATTTTTAGAATAACAGAAA-GGCGTCATTTTGTTCAAAATGA
*
31863052 AATAGCGGCGTTTTTATA-AAAAACGCCGC-AAAAAATAAACCAATTTATAAAAAACAAAATAAA
1 AATAGCGGCGTTTTTATATAAAAACGCCACAAAAAAATAAACCAATTTATAAAAAACAAAATAAA
* *
31863115 AAATTTTTAGAATAGCAGAAAGGCGTCGTTTTGTTCAAAATGA
66 AAATTTTTAGAATAACAGAAAGGCGTCATTTTGTTCAAAATGA
31863158 AATA
1 AATA
31863162 ATTTTTGCGG
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
105 35 0.35
106 45 0.45
107 20 0.20
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (108 bp):
AATAGCGGCGTTTTTATATAAAAACGCCACAAAAAAATAAACCAATTTATAAAAAACAAAATAAA
AAATTTTTAGAATAACAGAAAGGCGTCATTTTGTTCAAAATGA
Found at i:31863397 original size:397 final size:390
Alignment explanation
Indices: 31862932--31863644 Score: 1164
Period size: 397 Copynumber: 1.8 Consensus size: 390
31862922 GCGTTTTTAT
31862932 GCTAAAGGTAAGCAATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAA
1 GCTAAAGGTAAGCAATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAA
* * * *
31862997 AAAATAAAATAAAAAATTTTAGCATAACAAAACGGTGTCATTTTGTTCAAAATGAAATAGCGGCG
66 AAAACAAAATAAAAAATTTTAACATAACAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCA
31863062 TTTTTATA-AAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAAAATTTTTAGA
131 TTTTTATATAAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAAT-AAAAATTTTTAGA
**
31863126 ATAGCAGAAA-GGCGTCGTTTTGTTCAAAATGAAATAATTTTTGCGGCGTTTTTCATAAACGCCG
195 ATAGCA-AAACGGCGTCGTTTTGTTCAAAATGAAA-AAAATTTGCGGCGTTTTT-AT-------G
* * * *
31863190 CCAAAGGTAAGCAATAGCGGTGTTTTTTATAAAAACGCCGC-AAAAAATAAATCGATTTATAAAA
250 CCAAAGGTAAGCAACAGCGGCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAA
31863254 AAAATTAGCATAGGAAAAACGATGTCATTTAGGCGTCGTTTTGTTCAAAATGAAAAAAGTCTTGC
315 AAAATTAGCATAGGAAAAACGATGTCATTTAGGCGTCGTTTTGTTCAAAATGAAAAAAGTCTTGC
31863319 ATAAAAACGCC
380 ATAAAAACGCC
*
31863330 GCTAAAGGTAAGCAATAGCGGCG-TTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTTTAA
1 GCTAAAGGTAAGCAATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAA
* *
31863394 AAAACAAAATAAAAATTTTTAACATAGCAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCA
66 AAAACAAAATAAAAAATTTTAACATAACAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCA
*
31863459 TTTTTTTATAAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAAATTTTTAGAA
131 TTTTTATATAAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAAATTTTTAGAA
*
31863524 TAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGTTTTTATGCTAAAGGTAAG
196 TAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGTTTTTATGCCAAAGGTAAG
31863589 CAACAGCGGCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAA
261 CAACAGCGGCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAA
31863645 TAAAATAAAA
Statistics
Matches: 297, Mismatches: 15, Indels: 15
0.91 0.05 0.05
Matches are distributed among these distances:
388 38 0.13
389 24 0.08
395 2 0.01
396 19 0.06
397 149 0.50
398 65 0.22
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (390 bp):
GCTAAAGGTAAGCAATAGCGGCGTTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAA
AAAACAAAATAAAAAATTTTAACATAACAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCA
TTTTTATATAAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAAATTTTTAGAA
TAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGTTTTTATGCCAAAGGTAAG
CAACAGCGGCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAAAATTAGCAT
AGGAAAAACGATGTCATTTAGGCGTCGTTTTGTTCAAAATGAAAAAAGTCTTGCATAAAAACGCC
Found at i:31863453 original size:106 final size:106
Alignment explanation
Indices: 31863343--31863556 Score: 333
Period size: 106 Copynumber: 2.0 Consensus size: 106
31863333 AAAGGTAAGC
* *
31863343 AATAGCGGC-GTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTTTAAAAAACAAAATAAA
1 AATAGCGGCAGTTTTTTATAAAAACGCCAC-AAAAAATAAACCAATTTATAAAAAACAAAATAAA
*
31863407 AATTTTTA-ACATAGCAAAACGGTGTCATTTTGTTAAAAATGA
65 AATTTTTAGA-ATAGCAAAACGGCGTCATTTTGTTAAAAATGA
* *
31863449 AATAGCGGCATTTTTTTATAAAAACGCCGCAAAAAATAAACCAATTTATAAAAAACAAAATAAAA
1 AATAGCGGCAGTTTTTTATAAAAACGCCACAAAAAATAAACCAATTTATAAAAAACAAAATAAAA
* *
31863514 ATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGA
66 ATTTTTAGAATAGCAAAACGGCGTCATTTTGTTAAAAATGA
31863555 AA
1 AA
31863557 AAAATTTGCG
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
106 80 0.81
107 19 0.19
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (106 bp):
AATAGCGGCAGTTTTTTATAAAAACGCCACAAAAAATAAACCAATTTATAAAAAACAAAATAAAA
ATTTTTAGAATAGCAAAACGGCGTCATTTTGTTAAAAATGA
Found at i:31863498 original size:248 final size:244
Alignment explanation
Indices: 31863285--31863884 Score: 752
Period size: 248 Copynumber: 2.4 Consensus size: 244
31863275 ATGTCATTTA
* * * *
31863285 GGCGTCGTTTTGTTCAAAATGAAAAAAGTCTTGCATAAAAACGCCGCTAAAGGTAAGCAATAGCG
1 GGCGTCGTTTTGTTCAAAATGAAAAAAAT-TTGCAGAAAAACGACGCTAAAGGTAAGCAACAGCG
* *
31863350 GCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTTTAAAAAACAAAAT-AAAAATTTTT
65 GCGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAGTTTT
31863414 AACATAGCAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCATTTTTTTATAAAAACGCCGC
130 AACATAGCAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCATTTTTTTATAAAAACGCCGC
31863479 AAAAAATAAACCAATTTATAAAAAACAAAATAAAAATTTTTAGAATAGCAAAAC
195 AAAAAATAAACCAATTTATAAAAAACAAAATAAAAA----TAGAATAGCAAAAC
* ******* *
31863533 GGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCGGCGTTTTTATGCTAAAGGTAAGCAACAGCGG
1 GGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCAGAAAAACGACGCTAAAGGTAAGCAACAGCGG
*
31863598 CGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAGTTTTA
66 CGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAGTTTTA
* * * **
31863663 GCATAGCAAAACGGTGTCATTTTGTTCAAAATGAAATAGTGGTTTTTTTTTATAAAAACGCCGCA
131 ACATAGCAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCATTTTTTTATAAAAACGCCGCA
*
31863728 AAAAATAAACCAAATTATAAAAAACAAAATAAAAAAATTTAGAATAGCAAAAC
196 AAAAATAAACCAATTTATAAAAAACAAAAT--AAAAA--TAGAATAGCAAAAC
* ** * *
31863781 GGTGTCGTTTTTGTTCAAAATGAAAAAGGTTTTGCGGCGTTTTTATGCAAAACGCCGCTAAAGGT
1 GGCGTCG-TTTTGTTCAAAATGAAAAA-AATTT---GC------A-GAAAAACGACGCTAAAGGT
*
31863846 AAGCAATAGCGGCGTTTTTTATAAAAACGCCACAAAAAA
54 AAGCAACAGCGGCGTTTTTTATAAAAACGCCACAAAAAA
31863885 TAATTTCACT
Statistics
Matches: 302, Mismatches: 35, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
247 75 0.25
248 149 0.49
249 19 0.06
250 8 0.03
253 2 0.01
260 49 0.16
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (244 bp):
GGCGTCGTTTTGTTCAAAATGAAAAAAATTTGCAGAAAAACGACGCTAAAGGTAAGCAACAGCGG
CGTTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAGTTTTA
ACATAGCAAAACGGTGTCATTTTGTTAAAAATGAAATAGCGGCATTTTTTTATAAAAACGCCGCA
AAAAATAAACCAATTTATAAAAAACAAAATAAAAATAGAATAGCAAAAC
Found at i:31863785 original size:106 final size:109
Alignment explanation
Indices: 31863600--31863805 Score: 328
Period size: 107 Copynumber: 1.9 Consensus size: 109
31863590 AACAGCGGCG
* * * * *
31863600 TTTTTTATAAAAACGCCACAAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAGTTTTAGC
1 TTTTTTATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAACAAAATAAAAAAGATTTAGA
31863665 ATAGCAAAACGGTGTC-ATTTTGTTCAAAATGAAATAGTGGTTT
66 ATAGCAAAACGGTGTCGATTTTGTTCAAAATGAAATAGTGGTTT
*
31863708 TTTTTTATAAAAACGCCGC-AAAAAATAAACCAAATTATAAAAAACAAAATAAAAAA-ATTTAGA
1 TTTTTTATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAACAAAATAAAAAAGATTTAGA
*
31863771 ATAGCAAAACGGTGTCGTTTTTGTTCAAAATGAAA
66 ATAGCAAAACGGTGTCGATTTTGTTCAAAATGAAA
31863806 AAGGTTTTGC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
106 21 0.23
107 51 0.57
108 18 0.20
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (109 bp):
TTTTTTATAAAAACGCCACAAAAAAATAAACCAAATTATAAAAAACAAAATAAAAAAGATTTAGA
ATAGCAAAACGGTGTCGATTTTGTTCAAAATGAAATAGTGGTTT
Found at i:31869745 original size:43 final size:43
Alignment explanation
Indices: 31869652--31869899 Score: 263
Period size: 43 Copynumber: 5.8 Consensus size: 43
31869642 TTTTTGCAAG
* * *
31869652 AAGCGTCGCTAAAGGT-TT-ATTCCATAGCGGCGTTT-TGATAA
1 AAGCGCCGCTAAAGGTCTTGA-TCTATAGCGGCGTTTGTGAAAA
*
31869693 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAA
* * *
31869736 AAGCGCCGCTAAAGGTTTTGATCTATAGTGGCGTTTGTG-GAA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAA
** * * *
31869778 AATTGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTTG-TAG
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTG-TGAAAA
* * * *
31869821 AAGCACCGCTAAAGATCCTGATCTATAGCGGCGTTTGTGAAGA
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAA
* * * *
31869864 AAGCACCGCTAAAGGTCATGGTCTATAGAGGCGTTT
1 AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
31869900 ATTTTCAAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 15 0.09
42 52 0.30
43 107 0.61
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAAAA
Found at i:31869794 original size:85 final size:86
Alignment explanation
Indices: 31869675--31869899 Score: 267
Period size: 85 Copynumber: 2.6 Consensus size: 86
31869665 GGTTTATTCC
31869675 ATAGCGGCGTTT-TGATA-AAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAAAA
1 ATAGCGGCGTTTGTGA-AGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAAAA
* * **
31869738 GCGCCGCTAAAGGTTTTGATCT
65 GCACCGCTAAAGATCCTGATCT
* * ** * *** *
31869760 ATAGTGGCGTTTGTGGA-AAATTGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTGTTGTAGAAG
1 ATAGCGGCGTTTGTGAAGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAAAAG
31869824 CACCGCTAAAGATCCTGATCT
66 CACCGCTAAAGATCCTGATCT
* * * *
31869845 ATAGCGGCGTTTGTGAAGAAAGCACCGCTAAAGGTCATGGTCTATAGAGGCGTTT
1 ATAGCGGCGTTTGTGAAGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT
31869900 ATTTTCAAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
85 84 0.72
86 32 0.28
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (86 bp):
ATAGCGGCGTTTGTGAAGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTAAAAAAAG
CACCGCTAAAGATCCTGATCT
Found at i:31873599 original size:21 final size:21
Alignment explanation
Indices: 31873573--31873614 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31873563 TCTCGAAATG
31873573 TTACACTCTCTTCTTTAAAGC
1 TTACACTCTCTTCTTTAAAGC
31873594 TTACACTCTCTTCTTTAAAGC
1 TTACACTCTCTTCTTTAAAGC
31873615 AACTAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.43
Consensus pattern (21 bp):
TTACACTCTCTTCTTTAAAGC
Found at i:31876250 original size:22 final size:22
Alignment explanation
Indices: 31876222--31876263 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
31876212 ATCATTAGTC
31876222 GGTGATCG-TTTGGTAAATTGTT
1 GGTGATCGATTT-GTAAATTGTT
31876244 GGTGATCGATTTGTAAATTG
1 GGTGATCGATTTGTAAATTG
31876264 ATTTCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.43
Consensus pattern (22 bp):
GGTGATCGATTTGTAAATTGTT
Found at i:31876383 original size:10 final size:10
Alignment explanation
Indices: 31876370--31876395 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31876360 TTTTTAATTT
31876370 TAAAATTTTA
1 TAAAATTTTA
31876380 TAAAATTTTA
1 TAAAATTTTA
31876390 TAAAAT
1 TAAAAT
31876396 AAAAAGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:31876503 original size:22 final size:22
Alignment explanation
Indices: 31876475--31876519 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
31876465 TGTCTCGTTA
31876475 AAATCTTATTAAGATAAAAACC
1 AAATCTTATTAAGATAAAAACC
31876497 AAATCTTATTAAGATAAAAACC
1 AAATCTTATTAAGATAAAAACC
31876519 A
1 A
31876520 TGTGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.27
Consensus pattern (22 bp):
AAATCTTATTAAGATAAAAACC
Found at i:31883896 original size:50 final size:50
Alignment explanation
Indices: 31883785--31884094 Score: 251
Period size: 50 Copynumber: 5.8 Consensus size: 50
31883775 ATTTTTGTAA
* * * * *
31883785 AGAGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCATTGAGATTATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
31883841 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT-----G
* *
31883896 TCCCATGTAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 ----A-G--AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
31883953 AGAGGTCCCATGTAGGACCATGTCTAGGAGATGGCGTTAGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
31884003 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
31884053 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31884095 GTACAAGAAA
Statistics
Matches: 213, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
50 120 0.56
52 1 0.00
53 4 0.02
55 1 0.00
56 38 0.18
59 1 0.00
60 1 0.00
62 47 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:31883910 original size:12 final size:12
Alignment explanation
Indices: 31883893--31883918 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31883883 CCGAGATGAG
31883893 AGGTCCCATGTA
1 AGGTCCCATGTA
31883905 AGGTCCCATGTA
1 AGGTCCCATGTA
31883917 AG
1 AG
31883919 ACCATGTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (12 bp):
AGGTCCCATGTA
Found at i:31883918 original size:62 final size:62
Alignment explanation
Indices: 31883843--31883966 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
31883833 AGATTATTAG
*
31883843 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
31883905 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
31883967 GGACCATGTC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (62 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTA
Found at i:31883996 original size:112 final size:116
Alignment explanation
Indices: 31883790--31884011 Score: 317
Period size: 112 Copynumber: 1.9 Consensus size: 116
31883780 TGTAAAGAGA
*
31883790 TCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCATTGAGATTATTAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCA-CGAGATTA-TAGAGGTCCCATGTA
* *
31883855 AGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGG
64 AGACCATGTCTAGGACATGGCGTTAGCACCGAGATGAGAGGTCCCATGTAAGG
* * * *
31883908 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAGA-TA-AGAGGTCCCATGTAGG
1 TCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCACGAGATTATAGAGGTCCCATGTAAG
* *
31883969 ACCATGTCTAGGAGATGGCGTTAGCACCTAGATGAGAGGTCCC
66 ACCATGTCTAGGACATGGCGTTAGCACCGAGATGAGAGGTCCC
31884012 CCGTAAGACC
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
112 54 0.57
114 2 0.02
115 4 0.04
117 1 0.01
118 34 0.36
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (116 bp):
TCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCACGAGATTATAGAGGTCCCATGTAAG
ACCATGTCTAGGACATGGCGTTAGCACCGAGATGAGAGGTCCCATGTAAGG
Found at i:31888144 original size:15 final size:15
Alignment explanation
Indices: 31888124--31888153 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31888114 ACCATGGTAA
*
31888124 ATTTGTGAAATGTTG
1 ATTTGTAAAATGTTG
31888139 ATTTGTAAAATGTTG
1 ATTTGTAAAATGTTG
31888154 CATAGGCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (15 bp):
ATTTGTAAAATGTTG
Found at i:31889460 original size:150 final size:152
Alignment explanation
Indices: 31889213--31889519 Score: 381
Period size: 150 Copynumber: 2.0 Consensus size: 152
31889203 GACACACGGG
** *
31889213 TGTGTGCTTGGCCGTGTAACCTAACTCGGAGAGTTACACGGGCACAGACACGGGCTGGGACACGA
1 TGTGTGCTTGGCCGTGTAACCTAACTCAAAGAGTTACACGAGCACAGACACGGGCTGGGACACGA
* * *
31889278 CCGCGTGTCCCTATTTCGATTGTTACATGGCCTAAGACATGGACATGT-GTCTCAG-CTGTGTGT
66 CCGCGTGTCCCTATTTCAATTGTTACACGGCCTAAGACA-CGA-ATGTCGTCTCAGTC-GTGTGT
31889341 GTCACACGGCCT-GACACACGAGCA
128 GTCACACGGCCTGGACACACGAGCA
* * * * * *
31889365 TGTG-GCTTGGCCGTGTGACCTAACTTAAAGAGTTACACGAGCACGGGCATGGG-TGGGACACGG
1 TGTGTGCTTGGCCGTGTAACCTAACTCAAAGAGTTACACGAGCACAGACACGGGCTGGGACACGA
* * * *
31889428 CCGTGTGTCCCTATTTCAATTGTTACACGGCCTGAGACACGAGTGTGCGTCTTAGTCGTGTGTGT
66 CCGCGTGTCCCTATTTCAATTGTTACACGGCCTAAGACACGAATGT-CGTCTCAGTCGTGTGTGT
* *
31889493 CACACGGCCTGGCCACACGGGCA
130 CACACGGCCTGGACACACGAGCA
31889516 TGTG
1 TGTG
31889520 ACCCTTGCAG
Statistics
Matches: 133, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
148 3 0.02
149 2 0.02
150 68 0.51
151 56 0.42
152 4 0.03
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (152 bp):
TGTGTGCTTGGCCGTGTAACCTAACTCAAAGAGTTACACGAGCACAGACACGGGCTGGGACACGA
CCGCGTGTCCCTATTTCAATTGTTACACGGCCTAAGACACGAATGTCGTCTCAGTCGTGTGTGTC
ACACGGCCTGGACACACGAGCA
Found at i:31894737 original size:50 final size:50
Alignment explanation
Indices: 31894656--31894900 Score: 258
Period size: 50 Copynumber: 4.9 Consensus size: 50
31894646 CAAATAACAT
* * * * *
31894656 GCCACGAAGGCTTTCCTGAGAATTTTCCACAAAGGCTTTTAAGAGGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
** * * *
31894706 GCTGCAAAGGCTTTCCATAGAATTTACCACAAA-GCCTTTCTAGAGGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTC-AGAAGATTC
* * *
31894756 ACCACAAAGGCTTTCTAGAGAATTCACCACAAAGGCTTTTCAGAAGATTC
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
* * * *
31894806 GCCACAAAGGATTTCCAAATAATTTTTCCACAAAGGCTTTTCAGAAGATTC
1 GCCACAAAGGCTTTCCAGAGAA-TTTACCACAAAGGCTTTTCAGAAGATTC
*** * * *
31894857 ATGACAAAGGCTTTCCAGAGAATTCACCGCAAAGACTTTTCAGA
1 GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGA
31894901 CATCTATGTT
Statistics
Matches: 159, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 5 0.03
50 106 0.67
51 48 0.30
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCACAAAGGCTTTCCAGAGAATTTACCACAAAGGCTTTTCAGAAGATTC
Found at i:31894738 original size:25 final size:25
Alignment explanation
Indices: 31894657--31894900 Score: 186
Period size: 25 Copynumber: 9.7 Consensus size: 25
31894647 AAATAACATG
* * **
31894657 CCACGAAGGCTTTCCTGAGAATTTT
1 CCACAAAGGCTTTCCAGAGAATTCA
** * *
31894682 CCACAAAGGCTTTTAAGAGGATTCG
1 CCACAAAGGCTTTCCAGAGAATTCA
** * *
31894707 CTGCAAAGGCTTTCCATAGAATTTA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
31894732 CCACAAAGCCTTTCTAGAGGATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
*
31894757 CCACAAAGGCTTTCTAGAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* *
31894782 CCACAAAGGCTTTTCAGA-AGATTCG
1 CCACAAAGGCTTTCCAGAGA-ATTCA
* * * **
31894807 CCACAAAGGATTTCCAAATAATTTTT
1 CCACAAAGGCTTTCCAGAGAA-TTCA
*
31894833 CCACAAAGGCTTTTCAGA-AGATTCA
1 CCACAAAGGCTTTCCAGAGA-ATTCA
**
31894858 TGACAAAGGCTTTCCAGAGAATTCA
1 CCACAAAGGCTTTCCAGAGAATTCA
* * *
31894883 CCGCAAAGACTTTTCAGA
1 CCACAAAGGCTTTCCAGA
31894901 CATCTATGTT
Statistics
Matches: 169, Mismatches: 45, Indels: 10
0.75 0.20 0.04
Matches are distributed among these distances:
24 1 0.01
25 148 0.88
26 20 0.12
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
CCACAAAGGCTTTCCAGAGAATTCA
Found at i:31909426 original size:27 final size:27
Alignment explanation
Indices: 31909396--31909449 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
31909386 ATATATAATT
31909396 ATTA-TAAAATAATTAAATTTTACTTAA
1 ATTATTAAAAT-ATTAAATTTTACTTAA
* * *
31909423 ATTATTAACATGTTGAATTTTACTTAA
1 ATTATTAAAATATTAAATTTTACTTAA
31909450 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTTTACTTAA
Found at i:31909643 original size:16 final size:18
Alignment explanation
Indices: 31909609--31909645 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
31909599 AAATTATGTG
31909609 TTTTAATTCATAATATAA
1 TTTTAATTCATAATATAA
*
31909627 TTTTAA-TC-TAATTTAA
1 TTTTAATTCATAATATAA
31909643 TTT
1 TTT
31909646 GGGTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 2 0.11
18 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATTCATAATATAA
Found at i:31911629 original size:27 final size:27
Alignment explanation
Indices: 31911353--31911621 Score: 268
Period size: 27 Copynumber: 10.0 Consensus size: 27
31911343 GTTATGACCA
*
31911353 AAATACCCTAATAGGGTAAAATGACTG
1 AAATACCCTCATAGGGTAAAATGACTG
*
31911380 AAATA-CCTCCATAGCGTAAAATGACTG
1 AAATACCCT-CATAGGGTAAAATGACTG
*
31911407 AAATACCC-CTATAGGATAAAATGACTG
1 AAATACCCTC-ATAGGGTAAAATGACTG
*
31911434 AAATACCCTCATATGGTAAAATGA-TCG
1 AAATACCCTCATAGGGTAAAATGACT-G
* * *
31911461 AAACATCCCT-ATCGGGTAAAATAACT-
1 AAATA-CCCTCATAGGGTAAAATGACTG
* *
31911487 AAATTACCCTTATAGGGTAAAATGACCG
1 AAA-TACCCTCATAGGGTAAAATGACTG
*
31911515 AATTATCCC-CATAGGGTAAAATGACTG
1 AAATA-CCCTCATAGGGTAAAATGACTG
* * * *
31911542 AATTACCCCCATAAGGT-AAATGATTG
1 AAATACCCTCATAGGGTAAAATGACTG
*
31911568 AACTATCCC-CATAGGGTAAAATGA-TCG
1 AAATA-CCCTCATAGGGTAAAATGACT-G
31911595 AAATACCCTCATAGGGTAAAATGACTG
1 AAATACCCTCATAGGGTAAAATGACTG
31911622 TTATACCCCT
Statistics
Matches: 203, Mismatches: 22, Indels: 34
0.78 0.08 0.13
Matches are distributed among these distances:
26 38 0.19
27 151 0.74
28 14 0.07
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACTG
Found at i:31911832 original size:26 final size:26
Alignment explanation
Indices: 31911783--31911837 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
31911773 TGGAGGAAGT
* * * *
31911783 ATACTGTTAGTGGCAGTTTTGCTGCG
1 ATACGGTTACTGGCAGCTTCGCTGCG
*
31911809 ATACGGTTACTGGCAGCTTCGCTGTG
1 ATACGGTTACTGGCAGCTTCGCTGCG
31911835 ATA
1 ATA
31911838 TTGGTGTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (26 bp):
ATACGGTTACTGGCAGCTTCGCTGCG
Found at i:31912642 original size:18 final size:21
Alignment explanation
Indices: 31912619--31912656 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
31912609 GCTGTGGAAT
31912619 GAGTTT-T-GAAAA-TATTTG
1 GAGTTTCTGGAAAACTATTTG
31912637 GAGTTTCTGGAAAACTATTT
1 GAGTTTCTGGAAAACTATTT
31912657 TTGAAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 1 0.06
20 5 0.29
21 5 0.29
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (21 bp):
GAGTTTCTGGAAAACTATTTG
Found at i:31914195 original size:27 final size:26
Alignment explanation
Indices: 31914157--31914509 Score: 427
Period size: 27 Copynumber: 13.1 Consensus size: 26
31914147 TTACACTGTT
*
31914157 ATGACTGAAATACACCCATAGGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
*
31914184 ATGATCGAAATACCCCCATAGGATAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
31914211 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
*
31914238 ATGACCAAAATACCCCCATAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
* *
31914265 ATAACAGAAATACCCCCATATGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
* *
31914292 ATGACCGAATTACCCCCATAAGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
* *
31914319 ATGACCGAATTACCCCCACAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
** *
31914346 ATGACTGAAATACCCCTGTTGGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
*
31914373 ATGATTGAAATACCCCCATAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
*
31914400 ATGACTGAAATACCCCCATTGGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
* *
31914427 ATGACTGAATTACCCCCATAAGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
*
31914454 ATGACAGAAATACCCCTATAGGGTAAA
1 ATGAC-GAAATACCCCCATAGGGTAAA
*
31914481 ATGATTGAAATACCCCCATAGGGTAAA
1 ATGA-CGAAATACCCCCATAGGGTAAA
31914508 AT
1 AT
31914510 AACTGTTATA
Statistics
Matches: 286, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 282 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (26 bp):
ATGACGAAATACCCCCATAGGGTAAA
Found at i:31914715 original size:26 final size:26
Alignment explanation
Indices: 31914686--31914756 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
31914676 ATACTTTTAG
31914686 TGGCAGCTTTGCTGCGATAC-AGTTAC
1 TGGCAGCTTTGCTGCGATACTAG-TAC
* * *
31914712 TGGCAGCCTCGTTGCGATACTAGTAC
1 TGGCAGCTTTGCTGCGATACTAGTAC
31914738 TGGCAGCTTTGCTGCGATA
1 TGGCAGCTTTGCTGCGATA
31914757 TTGGTGTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTAGTAC
Found at i:31914906 original size:28 final size:28
Alignment explanation
Indices: 31914866--31914976 Score: 179
Period size: 28 Copynumber: 4.0 Consensus size: 28
31914856 CCAATATTGC
31914866 ATTGGGCTAAGGCCCACATTGTTACTAT
1 ATTGGGCTAAGGCCCACATTGTTACTAT
*
31914894 ATTGGGCTAAGGCCCACATTGTTACTGT
1 ATTGGGCTAAGGCCCACATTGTTACTAT
* *
31914922 ATTGGGCTAAGGCCCACATTGTTATTGT
1 ATTGGGCTAAGGCCCACATTGTTACTAT
*
31914950 ATTGGGCTAAGGCCCACACTG-TACTAT
1 ATTGGGCTAAGGCCCACATTGTTACTAT
31914977 TTCTGAAAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 4 0.05
28 74 0.95
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (28 bp):
ATTGGGCTAAGGCCCACATTGTTACTAT
Found at i:31914995 original size:33 final size:33
Alignment explanation
Indices: 31914953--31915053 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
31914943 TTATTGTATT
* *
31914953 GGGCTAAGGCCCACACTGTACTATTTCTGAAAA
1 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
31914986 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
1 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
*
31915019 GGGCTAAGGCCCACACTTTACTGTTTTTGAAAA
1 GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
31915052 GG
1 GG
31915054 ACTTAGCCCC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 65 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (33 bp):
GGGCTAAGGCCCACACTTTACTGTTTCTGAAAA
Found at i:31922375 original size:16 final size:15
Alignment explanation
Indices: 31922348--31922381 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31922338 GTAACTCGTG
*
31922348 TATAATTATATTTAT
1 TATAATTATATTAAT
31922363 TATAATATATATTAAT
1 TATAAT-TATATTAAT
31922379 TAT
1 TAT
31922382 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:31923191 original size:25 final size:26
Alignment explanation
Indices: 31923138--31923191 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
31923128 TTCTCCTCAA
* *
31923138 TTTCAATTTTATTTAATTATTTAGCT
1 TTTCAATTTTATTTAATTATTAAGAT
*
31923164 TTTCAA-TTTATTTAATTATTAATAT
1 TTTCAATTTTATTTAATTATTAAGAT
31923189 TTT
1 TTT
31923192 ATACTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTTAATTATTAAGAT
Found at i:31933042 original size:58 final size:58
Alignment explanation
Indices: 31932945--31933260 Score: 334
Period size: 58 Copynumber: 5.4 Consensus size: 58
31932935 GACTATAGAC
** * *
31932945 TATGAAAA-GGATGGTGGCGACCATCAACTATGAAAAGGGATGGTGGTAACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
* * * *
31933002 TATAAAAAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATC-AA
1 TATGAAAAGGGATGGTTTCGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
* * ** * *
31933059 CTATGAAAAGAGAGGGTCACGACCATCAACTATGAAAAGGGAGGGTGACGACCATC-AA
1 -TATGAAAAGGGATGGTTTCGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
* * * *
31933117 TGAATGAAAAGCGATGGTTTCGACCAATGAA-TATGAAAACGGATGGTGACGACCATCGAA
1 T--ATGAAAAGGGATGGTTTCGACC-ATCAACTATGAAAAGGGATGGTGATGACCATCGAA
* ** * * * *
31933177 TATGTAAAGGGATGGTGACGATCATCAATTATGAAAACGAATGGTGATGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
*
31933235 AATGAAAAGGGATGGTTTCGACCATC
1 TATGAAAAGGGATGGTTTCGACCATC
31933261 GTTTAGAAGA
Statistics
Matches: 214, Mismatches: 38, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
57 14 0.07
58 151 0.71
59 42 0.20
60 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (58 bp):
TATGAAAAGGGATGGTTTCGACCATCAACTATGAAAAGGGATGGTGATGACCATCGAA
Found at i:31933155 original size:88 final size:87
Alignment explanation
Indices: 31933060--31933221 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 87
31933050 GACCATCAAC
31933060 TATGAAAA-GAGAGGGTCACGACCATC-AACTATGAAAAGGGAGGGTGACGACCATCAATGAATG
1 TATGAAAACG-GAGGGTCACGACCATCGAA-TATGAAAAGGGAGGGTGACGACCATCAAT-AATG
31933123 AAAAGCG-ATGGTTTCGACCAATGAA
63 AAAA-CGAATGGTTTCGACCAATGAA
* * * * * *
31933148 TATGAAAACGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGATCATCAATTATGAAA
1 TATGAAAACGGAGGGTCACGACCATCGAATATGAAAAGGGAGGGTGACGACCATCAATAATGAAA
31933213 ACGAATGGT
66 ACGAATGGT
31933222 GATGACCATC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
86 2 0.03
87 12 0.18
88 48 0.74
89 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (87 bp):
TATGAAAACGGAGGGTCACGACCATCGAATATGAAAAGGGAGGGTGACGACCATCAATAATGAAA
ACGAATGGTTTCGACCAATGAA
Found at i:31933175 original size:146 final size:144
Alignment explanation
Indices: 31932943--31933213 Score: 332
Period size: 146 Copynumber: 1.9 Consensus size: 144
31932933 TCGACTATAG
* * *
31932943 ACTATGAAAAGGATGGTGGCGACCATCAACTATGAAAAGGGATGGTGGTAACCATCGAATATAAA
1 ACTATGAAAAGGAGGGTGACGACCATCAACTATGAAAAGCGATGGTGGTAACCATCGAATATAAA
* ** * * *
31933008 AAGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGATGACCATCAACTATGAAAAGAGAG
66 AACGGATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGAGAG
31933073 GGTCACGACCATCA
131 GGTCACGACCATCA
* *
31933087 ACTATGAAAAGGGAGGGTGACGACCATCAA-TGAATGAAAAGCGATGGT-TTCGACCAAT-GAAT
1 ACTATGAAAA-GGAGGGTGACGACCATCAACT--ATGAAAAGCGATGGTGGT-AACC-ATCGAAT
* * * * *
31933149 ATGAAAACGGATGGTGACGACCATCGAATATGTAAAGGGATGGTGACGATCATCAATTATGAAAA
61 ATAAAAACGGATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAA
31933214 CGAATGGTGA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
144 11 0.10
145 18 0.17
146 75 0.71
147 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (144 bp):
ACTATGAAAAGGAGGGTGACGACCATCAACTATGAAAAGCGATGGTGGTAACCATCGAATATAAA
AACGGATAGTGACGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGAGAG
GGTCACGACCATCA
Found at i:31933260 original size:29 final size:29
Alignment explanation
Indices: 31932904--31933261 Score: 277
Period size: 29 Copynumber: 12.3 Consensus size: 29
31932894 GACGTATAGA
* * *
31932904 CGACCATCGATTAATGAAAAGGGATAGTTT
1 CGACCATCGAAT-ATGAAAAGGGATGGTGT
* * * *
31932934 CGACTATAGACTATGAAAA-GGATGGTGG
1 CGACCATCGAATATGAAAAGGGATGGTGT
31932962 CGACCATC-AACTATGAAAAGGGATGGTGGT
1 CGACCATCGAA-TATGAAAAGGGATGGT-GT
* * * *
31932992 -AACCATCGAATATAAAAAGGGATAGTTT
1 CGACCATCGAATATGAAAAGGGATGGTGT
* *
31933020 CGACTATCGACTATGAAAAGGGATGGTGAT
1 CGACCATCGAATATGAAAAGGGATGGTG-T
* * **
31933050 -GACCATC-AACTATGAAAAGAGAGGGTCA
1 CGACCATCGAA-TATGAAAAGGGATGGTGT
* *
31933078 CGACCATC-AACTATGAAAAGGGAGGGTGA
1 CGACCATCGAA-TATGAAAAGGGATGGTGT
* *
31933107 CGACCATC-AATGAATGAAAAGCGATGGTTT
1 CGACCATCGAAT--ATGAAAAGGGATGGTGT
* *
31933137 CGACCAAT-GAATATGAAAACGGATGGTGA
1 CGACC-ATCGAATATGAAAAGGGATGGTGT
* *
31933166 CGACCATCGAATATGTAAAGGGATGGTGA
1 CGACCATCGAATATGAAAAGGGATGGTGT
* * *
31933195 CGATCATC-AATTATGAAAACGAATGGTGAT
1 CGACCATCGAA-TATGAAAAGGGATGGTG-T
* *
31933225 -GACCATCGAAAATGAAAAGGGATGGTTT
1 CGACCATCGAATATGAAAAGGGATGGTGT
31933253 CGACCATCG
1 CGACCATCG
31933262 TTTAGAAGAC
Statistics
Matches: 263, Mismatches: 48, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.00
28 28 0.11
29 196 0.75
30 33 0.13
31 5 0.02
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
CGACCATCGAATATGAAAAGGGATGGTGT
Found at i:31939286 original size:33 final size:33
Alignment explanation
Indices: 31939244--31939310 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
31939234 TTATTATTTT
*
31939244 AATGTCTACAGCATGTTAATAATCTAGTATAAA
1 AATGTCTACAACATGTTAATAATCTAGTATAAA
*
31939277 AATGTCTACAACATGTTAGTAATCTAGTATAAA
1 AATGTCTACAACATGTTAATAATCTAGTATAAA
31939310 A
1 A
31939311 TGACTAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (33 bp):
AATGTCTACAACATGTTAATAATCTAGTATAAA
Found at i:31940363 original size:30 final size:29
Alignment explanation
Indices: 31940286--31940512 Score: 233
Period size: 29 Copynumber: 7.8 Consensus size: 29
31940276 CGTATCGATT
* * * **
31940286 ACCATCGATTAATGAAATGGGATAGTTTCG
1 ACCATCGAAT-ATGAAAAGGGATGGTGACG
* *
31940316 ACTATCGACTATGAAAAGGGATGGTGACG
1 ACCATCGAATATGAAAAGGGATGGTGACG
*
31940345 ACCATC-AACTGGTGAAAAGGGATGGTGACG
1 ACCATCGAA-T-ATGAAAAGGGATGGTGACG
*
31940375 ACCATCGATTAATGAAAAGGGATGGTGACG
1 ACCATCGAAT-ATGAAAAGGGATGGTGACG
* **
31940405 ACTATCGAATATGAAAAGGGATGGTGATA
1 ACCATCGAATATGAAAAGGGATGGTGACG
* *
31940434 ACCTTCGAATATGATAA-GGATGGTGACG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* * *
31940462 GCCATCAAACATGAAAAGGGATGGTGACG
1 ACCATCGAATATGAAAAGGGATGGTGACG
* *
31940491 ACCATCGAAAATGAAAAAGGAT
1 ACCATCGAATATGAAAAGGGAT
31940513 TATTTTGACC
Statistics
Matches: 163, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
28 22 0.13
29 81 0.50
30 59 0.36
31 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTGACG
Found at i:31940408 original size:89 final size:87
Alignment explanation
Indices: 31940286--31940512 Score: 262
Period size: 89 Copynumber: 2.6 Consensus size: 87
31940276 CGTATCGATT
* * ** * *
31940286 ACCATCGATTAATGAAATGGGATAGTTTCGACTATCGACTATGAAAAGGGATGGTGACGACCATC
1 ACCATCGATTAATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATGGTGACAACCATC
*
31940351 -AACTGGTGAAAAGGGATGGTGACG
66 GAA-T-ATGAAAA-GGATGGTGACG
* *
31940375 ACCATCGATTAATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATGGTGATAACCTTC
1 ACCATCGATTAATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATGGTGACAACCATC
*
31940440 GAATATGATAAGGATGGTGACG
66 GAATATGAAAAGGATGGTGACG
* * * * *
31940462 GCCATC-A-AACATGAAAAGGGATGGTGACGACCATCGAAAATGAAAAAGGAT
1 ACCATCGATTA-ATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGAT
31940513 TATTTTGACC
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
85 1 0.01
86 39 0.32
87 16 0.13
88 5 0.04
89 58 0.48
90 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (87 bp):
ACCATCGATTAATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATGGTGACAACCATC
GAATATGAAAAGGATGGTGACG
Found at i:31940476 original size:57 final size:57
Alignment explanation
Indices: 31940319--31940512 Score: 219
Period size: 57 Copynumber: 3.3 Consensus size: 57
31940309 AGTTTCGACT
* * *
31940319 ATCGACTATGAAAAGGGATGGTGACGACCATCAACTGGTGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACCATCAAC--ATGAAAAGGGATGGTGACAACC
* * * *
31940378 ATCGATTAATGAAAAGGGATGGTGACGACTATCGAATATGAAAAGGGATGGTGATAACC
1 ATCGAAT-ATGAAAAGGGATGGTGACGACCATC-AACATGAAAAGGGATGGTGACAACC
* * * *
31940437 TTCGAATATGATAA-GGATGGTGACGGCCATCAAACATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTGACGACCATC-AACATGAAAAGGGATGGTGACAACC
* *
31940494 ATCGAAAATGAAAAAGGAT
1 ATCGAATATGAAAAGGGAT
31940513 TATTTTGACC
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
57 48 0.42
58 10 0.09
59 30 0.26
60 24 0.21
61 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.19
Consensus pattern (57 bp):
ATCGAATATGAAAAGGGATGGTGACGACCATCAACATGAAAAGGGATGGTGACAACC
Found at i:31951037 original size:27 final size:27
Alignment explanation
Indices: 31950871--31951036 Score: 223
Period size: 27 Copynumber: 6.3 Consensus size: 27
31950861 AGAGGTCGAT
*
31950871 AAATGACCGAAACACCCC-ATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
*
31950897 AAATGACCGAAATA-CCGTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
31950923 GAATGA-CGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
31950949 AAATGACCGAAATATCCCTATAAGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
*
31950976 AAATGACC-AAATTACCCCCATAGGGTA
1 AAATGACCGAAA-TACCCCTATAGGGTA
*
31951003 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
31951030 AAATGAC
1 AAATGAC
31951037 TATTATACCC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.07
26 44 0.36
27 65 0.54
28 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAGGGTA
Found at i:31951233 original size:26 final size:26
Alignment explanation
Indices: 31951204--31951271 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
31951194 GGAAGTATAA
* *
31951204 TGTTACTGGCAACTTTGCTACGATAG
1 TGTTACTGGCAGCTTTGCTACGATAC
* *
31951230 TGTTACTGGTAGCTATGCTACGATAC
1 TGTTACTGGCAGCTTTGCTACGATAC
*
31951256 TATTACTGGCAGCTTT
1 TGTTACTGGCAGCTTT
31951272 ACTGTGATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTACGATAC
Found at i:31951425 original size:33 final size:33
Alignment explanation
Indices: 31951376--31951448 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
31951366 TTGCACTATT
* *
31951376 ACACTGTACCGATACTGTATTGGGCTAAGGCCC
1 ACACTGTACCGATACTGAATAGGGCTAAGGCCC
* * *
31951409 ACACTGTACTGTTACTGAATAGGGCTCAGGCCC
1 ACACTGTACCGATACTGAATAGGGCTAAGGCCC
*
31951442 AGACTGT
1 ACACTGT
31951449 CACTCCTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (33 bp):
ACACTGTACCGATACTGAATAGGGCTAAGGCCC
Found at i:31955189 original size:3 final size:3
Alignment explanation
Indices: 31955181--31955208 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31955171 ATAAGTAAAA
31955181 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
31955209 TGGAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:31957839 original size:27 final size:28
Alignment explanation
Indices: 31957792--31957847 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
31957782 ACATGATAGT
*
31957792 AAAGAATAGCCTTTGTGGCAAACTCTGA
1 AAAGAATAGCCTTTGTAGCAAACTCTGA
31957820 AAAGAATA-CCTTTGTAGCAAACTCTGA
1 AAAGAATAGCCTTTGTAGCAAACTCTGA
31957847 A
1 A
31957848 TAGATTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
AAAGAATAGCCTTTGTAGCAAACTCTGA
Found at i:31957858 original size:27 final size:27
Alignment explanation
Indices: 31957792--31957858 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
31957782 ACATGATAGT
*
31957792 AAAGAATAGCCTTTGTGGCAAACTCTGA
1 AAAGAAT-GCCTTTGTAGCAAACTCTGA
*
31957820 AAAGAATACCTTTGTAGCAAACTCTGA
1 AAAGAATGCCTTTGTAGCAAACTCTGA
* *
31957847 ATAGATTGCCTT
1 AAAGAATGCCTT
31957859 AGTGGCGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
AAAGAATGCCTTTGTAGCAAACTCTGA
Found at i:31960331 original size:32 final size:32
Alignment explanation
Indices: 31960290--31960365 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 32
31960280 AATAATACAT
31960290 GGATACAAATGCCCTTAATGTAAGACCATATC
1 GGATACAAATGCCCTTAATGTAAGACCATATC
31960322 GGATAC--A-------AATGTAAGACCATATC
1 GGATACAAATGCCCTTAATGTAAGACCATATC
31960345 GGATACAAATGCCCTTAATGT
1 GGATACAAATGCCCTTAATGT
31960366 CCTTACGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 18
0.66 0.00 0.34
Matches are distributed among these distances:
23 22 0.63
25 1 0.03
30 1 0.03
32 11 0.31
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (32 bp):
GGATACAAATGCCCTTAATGTAAGACCATATC
Found at i:31960336 original size:23 final size:23
Alignment explanation
Indices: 31960306--31960355 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
31960296 AAATGCCCTT
31960306 AATGTAAGACCATATCGGATACA
1 AATGTAAGACCATATCGGATACA
31960329 AATGTAAGACCATATCGGATACA
1 AATGTAAGACCATATCGGATACA
31960352 AATG
1 AATG
31960356 CCCTTAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (23 bp):
AATGTAAGACCATATCGGATACA
Found at i:31960504 original size:20 final size:20
Alignment explanation
Indices: 31960479--31960517 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31960469 TACTTTCTTC
31960479 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
31960499 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
31960518 TAATAACTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:31960838 original size:50 final size:51
Alignment explanation
Indices: 31960773--31960958 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 51
31960763 CTGTACTGCA
* * * ** *
31960773 AATGCCATATGCCAGATATGGTCTTACATGA-GAGTTCTCATAC-CGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCAT-CTCGGTACC
* * *
31960823 CATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTGGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATCTCGGTACC
* * ** *
31960873 AACGCCATGTCCCAGACATGGTCTTACATG-GAACCTCTCATAACCTCAATAATACA
1 AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCAT---CTC---GGTACC
31960929 AATGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
31960959 GGGTCTCATG
Statistics
Matches: 109, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 3 0.03
50 71 0.65
51 1 0.01
53 2 0.02
56 32 0.29
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (51 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGGACCTCTCATCTCGGTACC
Found at i:31970131 original size:48 final size:48
Alignment explanation
Indices: 31970060--31970304 Score: 276
Period size: 48 Copynumber: 5.1 Consensus size: 48
31970050 TACTATGCGT
* * * *
31970060 ACCGATATTCTTTTATGACACAAGGGTGGCACAAACTGTGTACAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
* * *
31970108 ACCGATATTCTGTTATGATACAAGGGTGACACGGACTATGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
* *
31970156 ACCGATATTCTGTTATAATACAAGGGTGGCACAGACTGTGTGCAGGCT
1 ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
* ** * * *
31970204 ACCAATAACCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
* * * * * * *
31970252 ACCCAT-TATCTATTATTACACAAAGGTGGTACAGACTGTGTACAGGCC
1 ACCGATAT-TCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
31970300 ACCGA
1 ACCGA
31970305 GAAATTTGTT
Statistics
Matches: 163, Mismatches: 33, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 163 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (48 bp):
ACCGATATTCTGTTATGATACAAGGGTGGCACAGACTGTGTGCAGGCC
Found at i:31970224 original size:96 final size:96
Alignment explanation
Indices: 31970060--31970302 Score: 326
Period size: 96 Copynumber: 2.5 Consensus size: 96
31970050 TACTATGCGT
* * * * ** *
31970060 ACCGATATTCTTTTATGACACAAGGGTGGCACAAACTGTGTACAGGCCACCGATATTCTGTTATG
1 ACCGATATTCTATTATAACACAAGGGTGGCACAGACTGTGTACAGGCCACCAATAACCTGTTAAG
31970125 ATACAAGGGTGACACGGACTATGTGCAGGCC
66 ATACAAGGGTGACACGGACTATGTGCAGGCC
* * * *
31970156 ACCGATATTCTGTTATAATACAAGGGTGGCACAGACTGTGTGCAGGCTACCAATAACCTGTTAAG
1 ACCGATATTCTATTATAACACAAGGGTGGCACAGACTGTGTACAGGCCACCAATAACCTGTTAAG
*
31970221 ATACAAGGGTGGCACGGACTATGTGCAGGCC
66 ATACAAGGGTGACACGGACTATGTGCAGGCC
* * * *
31970252 ACCCAT-TATCTATTATTACACAAAGGTGGTACAGACTGTGTACAGGCCACC
1 ACCGATAT-TCTATTATAACACAAGGGTGGCACAGACTGTGTACAGGCCACC
31970303 GAGAAATTTG
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
95 1 0.01
96 126 0.99
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (96 bp):
ACCGATATTCTATTATAACACAAGGGTGGCACAGACTGTGTACAGGCCACCAATAACCTGTTAAG
ATACAAGGGTGACACGGACTATGTGCAGGCC
Found at i:31970657 original size:20 final size:20
Alignment explanation
Indices: 31970610--31970658 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
31970600 AATAAGCGTG
* *
31970610 GAAAGTAAAGAAATGGAAAT
1 GAAAATAAAGAAATCGAAAT
31970630 GAAAATAAAGAAATTCGAAA-
1 GAAAATAAAGAAA-TCGAAAT
*
31970650 GAATATAAA
1 GAAAATAAA
31970659 ATTGTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATAAAGAAATCGAAAT
Found at i:31974106 original size:39 final size:39
Alignment explanation
Indices: 31974048--31974188 Score: 212
Period size: 39 Copynumber: 3.6 Consensus size: 39
31974038 ATCCATAAAC
* *
31974048 ATGA-TATTGTGATCTATGCTTAAATTTTATGTGATTAT
1 ATGAGTATTGTGATATATGCTTAAATGTTATGTGATTAT
*
31974086 ATGAGTATTGTGATATATGCTTAAATGTTATGTGGTTAT
1 ATGAGTATTGTGATATATGCTTAAATGTTATGTGATTAT
*
31974125 ATGAGTATTGTGATATATACTTAAATGTTATGTGATTAT
1 ATGAGTATTGTGATATATGCTTAAATGTTATGTGATTAT
* **
31974164 ATGTGTAAGGTGATATATGCTTAAA
1 ATGAGTATTGTGATATATGCTTAAA
31974189 AGTGAATATG
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 4 0.04
39 89 0.96
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (39 bp):
ATGAGTATTGTGATATATGCTTAAATGTTATGTGATTAT
Found at i:31976342 original size:60 final size:60
Alignment explanation
Indices: 31976267--31976383 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
31976257 GTGCAGTCAA
* * * * * * *
31976267 GGGCACCAAATTGCAAACAGGGGCACAGACATGCAAATAGGGACATCGAAGTGTATACAG
1 GGGCACCAAAGTGCAAACAAGAGCACAAACATGCAAATAGAGACACCCAAGTGTATACAG
*
31976327 GGGCACCGAAGTGCAAACAAGAGCACAAACATGCAAATAGAGACACCCAAGTGTATA
1 GGGCACCAAAGTGCAAACAAGAGCACAAACATGCAAATAGAGACACCCAAGTGTATA
31976384 GAAAGACACT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.41, C:0.21, G:0.26, T:0.12
Consensus pattern (60 bp):
GGGCACCAAAGTGCAAACAAGAGCACAAACATGCAAATAGAGACACCCAAGTGTATACAG
Found at i:31976400 original size:60 final size:60
Alignment explanation
Indices: 31976278--31976413 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 60
31976268 GGCACCAAAT
* * * * * ** * *
31976278 TGCAAACAGGGGCACAGACATGCAAATAGGGACATCGAAGTGTATACAGGGGCACCGAAG
1 TGCAAACAAGGGCACAAACATGCAAATAGAGACACCCAAGTGTATACAAAGACACAGAAG
* *
31976338 TGCAAACAAGAGCACAAACATGCAAATAGAGACACCCAAGTGTATAGAAAGACACTAG-AG
1 TGCAAACAAGGGCACAAACATGCAAATAGAGACACCCAAGTGTATACAAAGACAC-AGAAG
*
31976398 TGCGAACAAGGGCACA
1 TGCAAACAAGGGCACA
31976414 GTAGTGCAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
60 61 0.98
61 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (60 bp):
TGCAAACAAGGGCACAAACATGCAAATAGAGACACCCAAGTGTATACAAAGACACAGAAG
Found at i:31979594 original size:16 final size:16
Alignment explanation
Indices: 31979569--31979599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31979559 CGTATTAATT
*
31979569 AATTTTTAAAATTTAA
1 AATTTATAAAATTTAA
31979585 AATTTATAAAATTTA
1 AATTTATAAAATTTA
31979600 TTAAAAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATAAAATTTAA
Found at i:31979725 original size:26 final size:26
Alignment explanation
Indices: 31979696--31979748 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
31979686 TAATGTCAAA
*
31979696 TCAATAAAATTAACCGAATTTAATTT
1 TCAACAAAATTAACCGAATTTAATTT
* *
31979722 TCAACAAAGTTAATCGAATTTAATTT
1 TCAACAAAATTAACCGAATTTAATTT
31979748 T
1 T
31979749 TTTCATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (26 bp):
TCAACAAAATTAACCGAATTTAATTT
Found at i:31981069 original size:9 final size:7
Alignment explanation
Indices: 31981030--31981056 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31981020 AAAAAATTAA
31981030 TAAATTT
1 TAAATTT
31981037 TAAATTT
1 TAAATTT
31981044 TAAATTT
1 TAAATTT
31981051 TAAATT
1 TAAATT
31981057 AATTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:31981272 original size:31 final size:33
Alignment explanation
Indices: 31981237--31981297 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
31981227 ACAAGAAATT
31981237 TAAAATAATTTTC-AAAAATTTA-AAATATTTA
1 TAAAATAATTTTCTAAAAATTTATAAATATTTA
* *
31981268 TAAAATATTTTTCTAAAATTTTATAAATAT
1 TAAAATAATTTTCTAAAAATTTATAAATAT
31981298 ATATTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 12 0.46
32 8 0.31
33 6 0.23
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (33 bp):
TAAAATAATTTTCTAAAAATTTATAAATATTTA
Found at i:31981295 original size:22 final size:22
Alignment explanation
Indices: 31981257--31981320 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
31981247 TTCAAAAATT
*
31981257 TAAAATATTTATAAAATATTTTTC
1 TAAAAT-TTTAT-AAATATTATTC
31981281 TAAAATTTTATAAATATATATTC
1 TAAAATTTTATAAATAT-TATTC
*
31981304 -AAAAATTTA-AAATATTA
1 TAAAATTTTATAAATATTA
31981321 AAAATTACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 2 0.05
21 6 0.16
22 14 0.38
23 9 0.24
24 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATTTTATAAATATTATTC
Found at i:31981308 original size:23 final size:24
Alignment explanation
Indices: 31981258--31981318 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
31981248 TCAAAAATTT
* *
31981258 AAAATATTTATAAA-ATATTTTTCT
1 AAAAT-TTTATAAATATATTATTCA
31981282 AAAATTTTATAAATATA-TATTCA
1 AAAATTTTATAAATATATTATTCA
31981305 AAAA-TTTA-AAATAT
1 AAAATTTTATAAATAT
31981319 TAAAAATTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 6 0.18
22 4 0.12
23 16 0.47
24 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAATTTTATAAATATATTATTCA
Found at i:31986456 original size:21 final size:21
Alignment explanation
Indices: 31986430--31986538 Score: 62
Period size: 21 Copynumber: 5.3 Consensus size: 21
31986420 TACTTCGATA
31986430 CCCCTGAATTGCACATATGTG
1 CCCCTGAATTGCACATATGTG
* * * *
31986451 CCCCTG-TTTGTAC-TTTGATA
1 CCCCTGAATTGCACATATG-TG
* *
31986471 CCTCTAAATTGCACATATGTG
1 CCCCTGAATTGCACATATGTG
* * * ** *
31986492 CCCCTG-TTTGTACTTCGGTA
1 CCCCTGAATTGCACATATGTG
* *
31986512 CCCTTGAATTGCACCTATGTG
1 CCCCTGAATTGCACATATGTG
31986533 CCCCTG
1 CCCCTG
31986539 TTTACACTCC
Statistics
Matches: 58, Mismatches: 26, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
19 3 0.05
20 23 0.40
21 29 0.50
22 3 0.05
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.35
Consensus pattern (21 bp):
CCCCTGAATTGCACATATGTG
Found at i:31986552 original size:41 final size:41
Alignment explanation
Indices: 31986352--31986541 Score: 256
Period size: 41 Copynumber: 4.6 Consensus size: 41
31986342 AATTATTCAC
* *
31986352 TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
** ** * *
31986393 TGAATTGCACATACATGCCATTGTTTGTACTTCGATACCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
* *
31986434 TGAATTGCACATATGTGCCCCTGTTTGTACTTTGATA-CCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
*
31986474 CTAAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
1 -TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
*
31986516 TGAATTGCACCTATGTGCCCCTGTTT
1 TGAATTGCACATATGTGCCCCTGTTT
31986542 ACACTCCGGT
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.02
41 125 0.96
42 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:31992084 original size:51 final size:50
Alignment explanation
Indices: 31992012--31992196 Score: 201
Period size: 51 Copynumber: 3.7 Consensus size: 50
31992002 GGTTCACATC
* * * *
31992012 GTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACACGTA
** * * * *
31992063 GTAGCCTGCACATAGTACTACACACGTGATTGAAATTATCCGGTACGCATA
1 GTAGCCTGCACATAGTACTACACACGTGA-CCATATCATCCGGTACACGTA
* * *
31992114 GTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTA
1 GTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACACGTA
* *
31992164 GTAGCCTACACATAGTACTAAACACGTGACCAT
1 GTAGCCTGCACATAGTACTACACACGTGACCAT
31992197 CACTTTCACT
Statistics
Matches: 107, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.35
51 66 0.62
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
GTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACACGTA
Found at i:31992216 original size:101 final size:99
Alignment explanation
Indices: 31992007--31992192 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 99
31991997 TGTTCGGTTC
* * *
31992007 ACATCGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGTACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTAC
* *
31992072 ACATAGTACTACACACGTGATTGAAATTATCCGGT
65 ACATAGTACTAAACACGTGAATGAAATTATCCGGT
* *
31992107 ACGCATAGTAGCCTGTACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGTACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCT
31992171 ACACATAGTACTAAACACGTGA
63 ACACATAGTACTAAACACGTGA
31992193 CCATCACTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
100 5 0.06
101 39 0.51
102 33 0.43
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTGTACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTACA
CATAGTACTAAACACGTGAATGAAATTATCCGGT
Found at i:31996608 original size:14 final size:15
Alignment explanation
Indices: 31996575--31996608 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31996565 ATTGATATTA
31996575 TTATTATTTCCTTTC
1 TTATTATTTCCTTTC
*
31996590 CTATTATTT-CTTTC
1 TTATTATTTCCTTTC
31996604 TTATT
1 TTATT
31996609 TCTTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTATTTCCTTTC
Found at i:32004462 original size:67 final size:67
Alignment explanation
Indices: 32004379--32004514 Score: 229
Period size: 67 Copynumber: 2.0 Consensus size: 67
32004369 AAAGAGGTGC
* * *
32004379 TAATCATCCTAGGAAGGCCTTTCCTGGAAACAGGAA-GGACTTTAGTTGATGTGCAGAAAGACGA
1 TAATCATCCTAAGAAGGCCTTTCCTGGAAACAGGAAGGGA-TTTAATTGATGTACAGAAAGACGA
32004443 GCT
65 GCT
32004446 TAATCATCCTAAGAAGGCCTTTCCTGGAAACAGGAAGGGATTTAATTGATGTACAGAAAGACGAG
1 TAATCATCCTAAGAAGGCCTTTCCTGGAAACAGGAAGGGATTTAATTGATGTACAGAAAGACGAG
32004511 CT
66 CT
32004513 TA
1 TA
32004515 CCATATGTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
67 62 0.95
68 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (67 bp):
TAATCATCCTAAGAAGGCCTTTCCTGGAAACAGGAAGGGATTTAATTGATGTACAGAAAGACGAG
CT
Found at i:32010635 original size:25 final size:25
Alignment explanation
Indices: 32010603--32010658 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
32010593 ACCCCCAAAC
* *
32010603 AAATTTTGACAGTTTTACCC-TGTTA
1 AAATTTTGACAATTTT-CCCTTGGTA
32010628 AAATTTTGACAATTTTCCCTTGGTA
1 AAATTTTGACAATTTTCCCTTGGTA
32010653 AAATTT
1 AAATTT
32010659 CAAGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (25 bp):
AAATTTTGACAATTTTCCCTTGGTA
Found at i:32015777 original size:40 final size:40
Alignment explanation
Indices: 32015712--32015819 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
32015702 GAGTTACTGC
* * * * *
32015712 AGTATAAATAGGGGCACGTAAGTGCATTCAGGGGTAAC-AA
1 AGTACAAATAGGGGCACATATGTGCATTCAAGGAT-ACTAA
*
32015752 AGTACAAATAGGGGCACATATGTGCATTCAAGGATACTGA
1 AGTACAAATAGGGGCACATATGTGCATTCAAGGATACTAA
* *
32015792 ACTACAAACAGGGGCACATATGTGCATT
1 AGTACAAATAGGGGCACATATGTGCATT
32015820 AATTCAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (40 bp):
AGTACAAATAGGGGCACATATGTGCATTCAAGGATACTAA
Found at i:32020455 original size:25 final size:25
Alignment explanation
Indices: 32020427--32020496 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
32020417 ATTTCATTTA
* *
32020427 GAAAATGTTCTCCTTATTAAAGTAG
1 GAAAATATTCTCCTTCTTAAAGTAG
* *
32020452 GAAAGTATTCTCCTTCTAAAAGTAG
1 GAAAATATTCTCCTTCTTAAAGTAG
*
32020477 GAAAATATTATCCTTCTTAA
1 GAAAATATTCTCCTTCTTAA
32020497 TTTAAGAGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (25 bp):
GAAAATATTCTCCTTCTTAAAGTAG
Found at i:32021750 original size:39 final size:39
Alignment explanation
Indices: 32021574--32021750 Score: 201
Period size: 39 Copynumber: 4.5 Consensus size: 39
32021564 ATTCACTTTT
* ** *
32021574 AAGCATATATCACATTACAAATATAATCACATATCACATTT
1 AAGCATATATCACAATACTCATATAATCACATA--ACATTC
** * * *
32021615 TCGCATAGATCACAATACACATATAATCACATATCATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
32021654 AAGCATATGTCACAATACTCATATAGTCACATAATATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
32021693 ATGCATATATCACAATACTTATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
32021732 AAACATATATCACAATACT
1 AAGCATATATCACAATACT
32021751 AATAAACATC
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 86 0.75
41 28 0.25
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:32023919 original size:17 final size:17
Alignment explanation
Indices: 32023885--32023924 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
32023875 CCCAGTGCAC
* *
32023885 TGAC-ATGAATATGTAA
1 TGACAATGAAAATGAAA
32023901 TGACAATGAAAATGAAA
1 TGACAATGAAAATGAAA
32023918 TGACAAT
1 TGACAAT
32023925 TTGTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (17 bp):
TGACAATGAAAATGAAA
Found at i:32034511 original size:21 final size:22
Alignment explanation
Indices: 32034487--32034535 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
32034477 CCCATTGCTT
*
32034487 GTGGCTATACAA-TTGTTTGCA
1 GTGGCTATACAATTTATTTGCA
*
32034508 GTGGCTATATAATTTATTTGCA
1 GTGGCTATACAATTTATTTGCA
32034530 GTGGCT
1 GTGGCT
32034536 CCATCTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (22 bp):
GTGGCTATACAATTTATTTGCA
Found at i:32039621 original size:26 final size:24
Alignment explanation
Indices: 32039591--32039642 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
32039581 ACATTTTGTG
*
32039591 AAATTATATTTAATAATAATTATTTT
1 AAATTATATATAATAAT-A-TATTTT
* *
32039617 AAATTGTATATAATCATATATTTT
1 AAATTATATATAATAATATATTTT
32039641 AA
1 AA
32039643 TAAATATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
25 1 0.04
26 14 0.61
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTATATATAATAATATATTTT
Found at i:32040023 original size:18 final size:17
Alignment explanation
Indices: 32039995--32040029 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32039985 NNNNNNNNNA
*
32039995 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32040012 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32040030 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32040259 original size:44 final size:45
Alignment explanation
Indices: 32040194--32040284 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
32040184 ACCTCTATTC
* * *
32040194 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
32040238 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
32040283 CA
1 CA
32040285 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:32040286 original size:16 final size:16
Alignment explanation
Indices: 32040265--32040300 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32040255 GATTAGCTAT
32040265 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32040281 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32040297 TACA
1 TACA
32040301 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:32041245 original size:27 final size:28
Alignment explanation
Indices: 32041188--32041316 Score: 181
Period size: 27 Copynumber: 4.7 Consensus size: 28
32041178 TCAAGGTCTA
* *
32041188 CCACAAAGGCTTCCTTTAATAGTGATAG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
* *
32041216 CCACAAAGGCTTCC-TTAACAAAGATTG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
*
32041243 CCACAAAGTCTTCCTTTAATAGAGATTG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
*
32041271 -CACAAAGGCTTCCTTTAATAGACATTG
1 CCACAAAGGCTTCCTTTAATAGAGATTG
*
32041298 CCACAAAGACTTCCTTTAA
1 CCACAAAGGCTTCCTTTAA
32041317 CAGTGATTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 47 0.53
28 42 0.47
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (28 bp):
CCACAAAGGCTTCCTTTAATAGAGATTG
Found at i:32041256 original size:55 final size:55
Alignment explanation
Indices: 32041188--32041323 Score: 184
Period size: 55 Copynumber: 2.5 Consensus size: 55
32041178 TCAAGGTCTA
* *
32041188 CCACAAAGGCTTCCTTTAATAGTGATAGCCACAAAGGCTTCC-TTAACAAAGATTG
1 CCACAAAGACTTCCTTTAATAGTGATAG-CACAAAGGCTTCCTTTAACAAACATTG
* * * * *
32041243 CCACAAAGTCTTCCTTTAATAGAGATTGCACAAAGGCTTCCTTTAATAGACATTG
1 CCACAAAGACTTCCTTTAATAGTGATAGCACAAAGGCTTCCTTTAACAAACATTG
*
32041298 CCACAAAGACTTCCTTTAACAGTGAT
1 CCACAAAGACTTCCTTTAATAGTGAT
32041324 TTAGGCGATA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 13 0.18
55 58 0.82
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (55 bp):
CCACAAAGACTTCCTTTAATAGTGATAGCACAAAGGCTTCCTTTAACAAACATTG
Found at i:32041634 original size:53 final size:53
Alignment explanation
Indices: 32041430--32041634 Score: 205
Period size: 53 Copynumber: 3.9 Consensus size: 53
32041420 TTAAATATTT
* * * * *
32041430 CTATATGATGTCATAACCCACTAGTTATGGTCATACATGATATGATTTTTTTC
1 CTATATGATGCCATAACCCACCAGTTATGGTCTTACATGATATGGTCTTTTTC
* * * ** *
32041483 C-ATATAATACCATAACCCATCAGTTACAGTCTTACATGATATAGTCTTTTTC
1 CTATATGATGCCATAACCCACCAGTTATGGTCTTACATGATATGGTCTTTTTC
* * * * ** * * *
32041535 GTATATGATGCAATAACGCACCAGTTAAGACCTTACAAGATGTGGTCTTCTTC
1 CTATATGATGCCATAACCCACCAGTTATGGTCTTACATGATATGGTCTTTTTC
* *
32041588 CTATATGATGCCATAACCCACCAATTATGGTCTTACACGATATGGTC
1 CTATATGATGCCATAACCCACCAGTTATGGTCTTACATGATATGGTC
32041635 CTTCAGTGCC
Statistics
Matches: 117, Mismatches: 34, Indels: 2
0.76 0.22 0.01
Matches are distributed among these distances:
52 40 0.34
53 77 0.66
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (53 bp):
CTATATGATGCCATAACCCACCAGTTATGGTCTTACATGATATGGTCTTTTTC
Found at i:32051324 original size:6 final size:6
Alignment explanation
Indices: 32051313--32051355 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
32051303 CTATATATAC
* *
32051313 AATTTT AATTTTT TATTATT TATTTT AATTTT AATTTT AATTT
1 AATTTT AA-TTTT AATT-TT AATTTT AATTTT AATTTT AATTT
32051356 CAGGTTGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 22 0.67
7 11 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
AATTTT
Found at i:32056257 original size:24 final size:23
Alignment explanation
Indices: 32056229--32056302 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 23
32056219 GTTTGGACCC
*
32056229 ATAGCTCATGATAGCATACCGATT
1 ATAGCTCGTG-TAGCATACCGATT
* *
32056253 ATAGCTCGTGTGAGCGTACTGATTT
1 ATAGCTCGTGT-AGCATACCGA-TT
*
32056278 ATAGCTCGTGGGAGCATACCGATT
1 ATAGCTCGT-GTAGCATACCGATT
32056302 A
1 A
32056303 CAACTCCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
23 1 0.02
24 20 0.49
25 19 0.46
26 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (23 bp):
ATAGCTCGTGTAGCATACCGATT
Found at i:32056283 original size:25 final size:25
Alignment explanation
Indices: 32056241--32056301 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
32056231 AGCTCATGAT
*
32056241 AGCATACCGA-TTATAGCTCGTGTG
1 AGCATACCGATTTATAGCTCGTGGG
* *
32056265 AGCGTACTGATTTATAGCTCGTGGG
1 AGCATACCGATTTATAGCTCGTGGG
32056290 AGCATACCGATT
1 AGCATACCGATT
32056302 ACAACTCCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (25 bp):
AGCATACCGATTTATAGCTCGTGGG
Found at i:32060494 original size:9 final size:9
Alignment explanation
Indices: 32060474--32060507 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
32060464 GGTTTATCGA
32060474 TTTATTTCAT
1 TTTATTT-AT
32060484 TTTATTTA-
1 TTTATTTAT
32060492 TTTATTTAT
1 TTTATTTAT
32060501 TTTATTT
1 TTTATTT
32060508 CTCTAGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:32060507 original size:786 final size:783
Alignment explanation
Indices: 32058985--32060554 Score: 2793
Period size: 786 Copynumber: 2.0 Consensus size: 783
32058975 CCAAAACCTC
**
32058985 TATAAGTAAGAAATTAGAAGTTGAATCTAATCAAGTTGTCCTACATTCCTTCAAAAACCCTCGTA
1 TATAAGTAAGAAATTAGAAGTTGAATCTAATCAAGTTGTCCTACACGCCTTCAAAAACCCTCGTA
* *
32059050 GTTTAGAACTAACTTTAGTTTATTTTCTTTTTGGTTTTAAAATACTTTTTTGTTGTTCTTCTTCA
66 GTTTAAAACTAACTTTAGTTTATTTTCTTTTTGGTTTTAAAATACTTTTGTGTTGTTCTTCTTCA
32059115 ATCAATTTTGATTCAAGGACTTGTTTATTTAATTAAAGCATTTTGTTTATATTTTCCTTTGCATT
131 ATCAATTTTGATTCAAGGACTTGTTTATTTAATTAAAGCATTTTGTTTATATTTTCCTTTGCATT
*
32059180 CGTATTATTTGGTTATTCCAATTGAGAATTTTGCTACTTCATTCCCATTCGATACTCAATCCAAA
196 CGTATTATTTGGTTATTCCAATTGAGAATTTTGCTACTTCATCCCCATTCGATACTCAATCCAAA
*
32059245 ATTATTCAGATATATTTTATTCTCTGGATCAATCGTGTTTCTCACATGGTTTGTTCAATAAAAGT
261 ATTATTCAGATATATTTTATTCTCTGAATCAATCGTGTTTCTCACATGGTTTGTTCAATAAAAGT
* * *
32059310 TGAGATTATGAATAACAGGAGTAGCTAAATCCCTTTGGGGGATTAATGAGTAGGTGAGAATGTAA
326 TGAGATTATGAATAACAGGAGTAGCTAAATCCCTTAGGGGGATTAACGAGTAGATGAGAATGTAA
*
32059375 GTAACCGAGGATTTGGTATTTCTCTGGATGGATTAGTTGGTATAAATTATGTGTTCTGAAACTGT
391 GTAACCGAGGATTTGGGATTTCTCTGGATGGATTAGTTGGTATAAATTATGTGTTCTGAAACTGT
32059440 TAAGCTTGACAACCCTAATAAATGATCATAGGGTAGATTAAATCGGAAGATAAGTCAAACCGAGT
456 TAAGCTTGACAACCCTAATAAATGATCATAGGGTAGATTAAATCGGAAGATAAGTCAAACCGAGT
* * *
32059505 AAATCGTAATTTATCTTGGTTGAGAAAGTGGTGTCTGAATATGAATAAGTATAAACCAATCGATT
521 AAATCGTAATTTATCTTGGTTGAGAAAGTGGTGTCTGAAGATAAACAAGTATAAACCAATCGATT
32059570 AAGTTAATTAGAGCTGGAAGGTAGTAATTGCTTGATCAGTGACTAATCTACTCTAGTCCCCCAAT
586 AAGTTAATTAGAGCTGGAAGGTAGTAATTGCTTGATCAGTGACTAATCTACTCTAGTCCCCCAAT
32059635 TTGATGTTAGTTGCAAACCCTGAAGCGAGTTAATCTTCCTAATTGGTTTAACGATTTATTCCATT
651 TTGATGTTAGTTGCAAACCCTGAAGCGAGTTAATCTTCCTAATTGGTTTAACGATTTATTCCA--
32059700 TTTTTGATTTATTTATTTATTTTATTTCTCTAATCTATTTTATGGTCCATCGCAATATAGGAATT
714 -TTTTGATTTATTTATTTATTTTATTTCTCTAATCTATTTTATGGTCCATCGCAATATAGGAATT
32059765 AACTAT
778 AACTAT
* * * *
32059771 TATAAGTAAGACATTAGGAGTTGAATGTAATCAAGTTGTCCTACACGCCTTCAGAAACCCTCGTA
1 TATAAGTAAGAAATTAGAAGTTGAATCTAATCAAGTTGTCCTACACGCCTTCAAAAACCCTCGTA
*
32059836 GTTTAAAACTAATTTTAGTTTATTTTCTTTTTGGTTTTAAAATACTTTTGTGTTGTTCTTCTTCA
66 GTTTAAAACTAACTTTAGTTTATTTTCTTTTTGGTTTTAAAATACTTTTGTGTTGTTCTTCTTCA
*
32059901 ATCGATTTTGATTCAAGGACTTGTTTATTTAATTAAAGCATTTTGTTTATATTTTCCTTTGCATT
131 ATCAATTTTGATTCAAGGACTTGTTTATTTAATTAAAGCATTTTGTTTATATTTTCCTTTGCATT
* *
32059966 CGTATTATTTGGTTATTCCAATTGAGAATTTTTCTACTTCGTCCCCATTCGATACTCAATCCAAA
196 CGTATTATTTGGTTATTCCAATTGAGAATTTTGCTACTTCATCCCCATTCGATACTCAATCCAAA
*
32060031 ATTATTCAGATATATTTTCTTCTCTGAATCAATCGTGTTTCTCACATGGTTTGTTCAATAAAAGT
261 ATTATTCAGATATATTTTATTCTCTGAATCAATCGTGTTTCTCACATGGTTTGTTCAATAAAAGT
*
32060096 TGAGATTATGAATAACATGAGTAGCTAAATCCCTTAGGGGGATTAACGAGTAGATGAGAATGTAA
326 TGAGATTATGAATAACAGGAGTAGCTAAATCCCTTAGGGGGATTAACGAGTAGATGAGAATGTAA
* * *
32060161 GTAACGGAGGATTTGGGATTTCTTTGGATGGATTAGTTGGTATAAATTATGTGTTCTGAAATTGT
391 GTAACCGAGGATTTGGGATTTCTCTGGATGGATTAGTTGGTATAAATTATGTGTTCTGAAACTGT
*
32060226 TAAGCTTGACAACCCTAATAAATGATCATAGGGTAGATTAAATTGGAAGATAAGTCAAACCGAGT
456 TAAGCTTGACAACCCTAATAAATGATCATAGGGTAGATTAAATCGGAAGATAAGTCAAACCGAGT
* *
32060291 AAATTGTAATTTATCTTGGTTGAGAAAGTGGTGTC-GAAGATAAACAAGTATTAACCAATCGATT
521 AAATCGTAATTTATCTTGGTTGAGAAAGTGGTGTCTGAAGATAAACAAGTATAAACCAATCGATT
*
32060355 AAGTTAATTAGAGCTGGAAGGTAGTATTTGCTTGATCAGTGACTAATCTACTCTAGTCCCCCAAT
586 AAGTTAATTAGAGCTGGAAGGTAGTAATTGCTTGATCAGTGACTAATCTACTCTAGTCCCCCAAT
* *
32060420 TTGATGTTAGTTGCAAACCCTGAAGCGAGTTAATCTTCCTAATTGGTTTATCGATTTATTTCATT
651 TTGATGTTAGTTGCAAACCCTGAAGCGAGTTAATCTTCCTAATTGGTTTAACGATTTATTCCATT
* *
32060485 TT-ATTTATTTATTTATTTTATTTCTCTAGTCTATTTTATGGTCCATCGTAATATAGGAATTAAC
716 TTGATTTATTTATTTATTTTATTTCTCTAATCTATTTTATGGTCCATCGCAATATAGGAATTAAC
32060549 TAT
781 TAT
32060552 TAT
1 TAT
32060555 TACTTAGAAT
Statistics
Matches: 750, Mismatches: 34, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
781 66 0.09
782 4 0.01
785 150 0.20
786 530 0.71
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (783 bp):
TATAAGTAAGAAATTAGAAGTTGAATCTAATCAAGTTGTCCTACACGCCTTCAAAAACCCTCGTA
GTTTAAAACTAACTTTAGTTTATTTTCTTTTTGGTTTTAAAATACTTTTGTGTTGTTCTTCTTCA
ATCAATTTTGATTCAAGGACTTGTTTATTTAATTAAAGCATTTTGTTTATATTTTCCTTTGCATT
CGTATTATTTGGTTATTCCAATTGAGAATTTTGCTACTTCATCCCCATTCGATACTCAATCCAAA
ATTATTCAGATATATTTTATTCTCTGAATCAATCGTGTTTCTCACATGGTTTGTTCAATAAAAGT
TGAGATTATGAATAACAGGAGTAGCTAAATCCCTTAGGGGGATTAACGAGTAGATGAGAATGTAA
GTAACCGAGGATTTGGGATTTCTCTGGATGGATTAGTTGGTATAAATTATGTGTTCTGAAACTGT
TAAGCTTGACAACCCTAATAAATGATCATAGGGTAGATTAAATCGGAAGATAAGTCAAACCGAGT
AAATCGTAATTTATCTTGGTTGAGAAAGTGGTGTCTGAAGATAAACAAGTATAAACCAATCGATT
AAGTTAATTAGAGCTGGAAGGTAGTAATTGCTTGATCAGTGACTAATCTACTCTAGTCCCCCAAT
TTGATGTTAGTTGCAAACCCTGAAGCGAGTTAATCTTCCTAATTGGTTTAACGATTTATTCCATT
TTGATTTATTTATTTATTTTATTTCTCTAATCTATTTTATGGTCCATCGCAATATAGGAATTAAC
TAT
Found at i:32062680 original size:9 final size:9
Alignment explanation
Indices: 32062666--32062695 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
32062656 TGTCTTTAGG
32062666 GAATAAATT
1 GAATAAATT
32062675 GAATAAATT
1 GAATAAATT
32062684 GAATAAATT
1 GAATAAATT
32062693 GAA
1 GAA
32062696 AGTTGTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (9 bp):
GAATAAATT
Found at i:32068104 original size:45 final size:45
Alignment explanation
Indices: 32068043--32068157 Score: 140
Period size: 45 Copynumber: 2.6 Consensus size: 45
32068033 ACGACGTACT
* * * *
32068043 AGTACAGTGTGGATAAACCACTCATCGGTGCAGATAAAAGTTGCC
1 AGTACGGTGTGAATAAACCACTCAACGGTGCAGATAAAAGTTGCA
* * * *
32068088 AGTATGGTGTGAATAAATCACTCAACGGTGTAGATAAAATTTGCA
1 AGTACGGTGTGAATAAACCACTCAACGGTGCAGATAAAAGTTGCA
* *
32068133 AGTACGGTGTGCATAAACCATTCAA
1 AGTACGGTGTGAATAAACCACTCAA
32068158 TGATGCAAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (45 bp):
AGTACGGTGTGAATAAACCACTCAACGGTGCAGATAAAAGTTGCA
Found at i:32073919 original size:25 final size:25
Alignment explanation
Indices: 32073861--32073984 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 25
32073851 TAGGGTGACA
*
32073861 GATTTATAGCTCGTGAGAGCATACC
1 GATTTATAGCTCGTAAGAGCATACC
* * *
32073886 AATTTATAGCTCGTAAGAGCTTACT
1 GATTTATAGCTCGTAAGAGCATACC
* * *
32073911 GATTCATAGCTCCG-GAGAGCCTACC
1 GATTTATAGCT-CGTAAGAGCATACC
* *
32073936 GATCTT-CAGCTC-AAATGAGCATACC
1 GAT-TTATAGCTCGTAA-GAGCATACC
* * * *
32073961 AATTCATAGCTTGTATGAGCATAC
1 GATTTATAGCTCGTAAGAGCATAC
32073985 ATGTACATGA
Statistics
Matches: 74, Mismatches: 19, Indels: 12
0.70 0.18 0.11
Matches are distributed among these distances:
24 3 0.04
25 67 0.91
26 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (25 bp):
GATTTATAGCTCGTAAGAGCATACC
Found at i:32075637 original size:51 final size:50
Alignment explanation
Indices: 32075507--32075689 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 50
32075497 AAACTGATGG
** *
32075507 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGGTAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGGTAGA
* * * *
32075557 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGG-ATAGCTTCA-A
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAAT-G-GT-AGA
** * * * *
32075608 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAA-CGTGATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGGT-A-GA
* *
32075659 TCACATGTGTAGTACTATGTGCAGACTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
32075690 TATGAACCGA
Statistics
Matches: 107, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.04
50 37 0.35
51 64 0.60
52 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCATACCGGAATGGTAGA
Found at i:32075938 original size:16 final size:16
Alignment explanation
Indices: 32075917--32075948 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32075907 TGATTGAAAG
*
32075917 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
32075933 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
32075949 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:32083315 original size:18 final size:17
Alignment explanation
Indices: 32083288--32083322 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
32083278 TCAGAACTAG
32083288 AAAAGATTCATAATGTC
1 AAAAGATTCATAATGTC
32083305 AAAATGATTCATAATGTC
1 AAAA-GATTCATAATGTC
32083323 TGTCACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
AAAAGATTCATAATGTC
Found at i:32084734 original size:25 final size:25
Alignment explanation
Indices: 32084706--32084759 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
32084696 TCATTAGGGT
*
32084706 TACCGATTTATAGCTCATAAGAGCA
1 TACCGATTCATAGCTCATAAGAGCA
* *
32084731 TACCGGTTCATAGCTCATGAGAGCA
1 TACCGATTCATAGCTCATAAGAGCA
32084756 TACC
1 TACC
32084760 AATCTTCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (25 bp):
TACCGATTCATAGCTCATAAGAGCA
Found at i:32098547 original size:21 final size:22
Alignment explanation
Indices: 32098497--32098548 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
32098487 CTGGGACTAG
32098497 AATCTTTTTTACCCAGGGCCTT
1 AATCTTTTTTACCCAGGGCCTT
32098519 AATCTTTTTTACCCAGGGCCTT
1 AATCTTTTTTACCCAGGGCCTT
32098541 -A-CTTTTTT
1 AATCTTTTTT
32098549 CTCATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 22 0.73
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.46
Consensus pattern (22 bp):
AATCTTTTTTACCCAGGGCCTT
Found at i:32105510 original size:22 final size:24
Alignment explanation
Indices: 32105465--32105512 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
32105455 TAAACTTTAA
32105465 TATATAATTATATTATTTATAATT
1 TATATAATTATATTATTTATAATT
32105489 TATAT-ATTA-ATT-TTTATCAATT
1 TATATAATTATATTATTTAT-AATT
32105511 TA
1 TA
32105513 GCTTAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATAATTATATTATTTATAATT
Found at i:32129950 original size:33 final size:36
Alignment explanation
Indices: 32129847--32129958 Score: 112
Period size: 33 Copynumber: 3.2 Consensus size: 36
32129837 AACTATAAAG
*
32129847 GCCGAATGC--ACATAT-T-CACTATTACCCACCTAT
1 GCCGAATGCATACATATATACACTA-TATCCACCTAT
* *
32129880 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACAC-TATATCCACCTAT
*
32129917 GCCGAATGCATACA-A-ATATA-TATATCCACCTAT
1 GCCGAATGCATACATATATACACTATATCCACCTAT
*
32129950 GTCGAATGC
1 GCCGAATGC
32129959 CTAAATATGC
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
33 28 0.42
35 10 0.15
36 2 0.03
37 25 0.37
38 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (36 bp):
GCCGAATGCATACATATATACACTATATCCACCTAT
Found at i:32130203 original size:41 final size:41
Alignment explanation
Indices: 32130153--32130362 Score: 339
Period size: 41 Copynumber: 5.1 Consensus size: 41
32130143 AATTCATCAT
*
32130153 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
32130194 ATTCAGATCACCGGAACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
32130235 ATTCAGATCACCGGTACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
32130276 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTA
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
32130317 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
32130358 ATTCA
1 ATTCA
32130363 ATTCATCAAT
Statistics
Matches: 155, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 155 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:32140838 original size:98 final size:98
Alignment explanation
Indices: 32140669--32140863 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
32140659 ATACAATAAA
* * *
32140669 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACGCCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
32140734 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* * *
32140767 ACTTTAAAAGAACATCCACTTATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGTACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
*
32140832 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
32140864 CATGATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:32142366 original size:19 final size:19
Alignment explanation
Indices: 32142339--32142449 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
32142329 AATCATATCT
32142339 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
32142358 TCAAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
32142377 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
32142396 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32142415 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32142434 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
32142450 CTCAAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:32142681 original size:44 final size:45
Alignment explanation
Indices: 32142634--32142920 Score: 226
Period size: 44 Copynumber: 6.6 Consensus size: 45
32142624 CAATCTGCCT
*
32142634 CACTGCAACTTCAGGAG-GATAAGACTTGCTTGTTTAGTCTGCTT
1 CACTGCAACTTCAGGAGAGATAAGACTTGCTTGTTTAGTCTGCTC
* * **
32142678 CACTGCAACTTCAGG-GAGATAAGACTAG-ATG-CGA-TCTGCTC
1 CACTGCAACTTCAGGAGAGATAAGACTTGCTTGTTTAGTCTGCTC
* * * * *
32142719 TA-TGCAACTTCA-GAGAGATAAGATCTAAG-GT-TTTAATCCGCTC
1 CACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTGTTTAGTCTGCTC
* * * * *
32142762 CACTGCAACTTCAAG-GAGATAGGA-TT-ATCGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGAGAGATAAGACTTGCT-TG-TTTAGTCTGCTC
* * * *
32142806 CACTGCAACTTCAGG-GAGATAAGACTTGCCATCTTCAGTCTGCCC
1 CACTGCAACTTCAGGAGAGATAAGACTTG-CTTGTTTAGTCTGCTC
* **
32142851 CACTGCAACTTCAAGAG-GATAAGACTTGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGAGAGATAAGACTTGCTTGTTTAGTCTGCTC
32142895 CACTGCAACTTCA-GAGAGATAAGACT
1 CACTGCAACTTCAGGAGAGATAAGACT
32142921 ACTGGCTTCA
Statistics
Matches: 195, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.01
40 19 0.10
41 9 0.05
42 6 0.03
43 13 0.07
44 109 0.56
45 37 0.19
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
CACTGCAACTTCAGGAGAGATAAGACTTGCTTGTTTAGTCTGCTC
Found at i:32143292 original size:44 final size:44
Alignment explanation
Indices: 32143190--32143689 Score: 151
Period size: 44 Copynumber: 11.4 Consensus size: 44
32143180 GAATTACTGG
* * * * **
32143190 CTTCAATGTACTCCACTA-TAAC-CAGGGAGGTAAAATCCGCCAT
1 CTTCAATCTACTCCACTACT-ACTCAGGGAGATAAGATCTGAAAT
* * *
32143233 CTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAAAT
* ** *
32143277 CTTCAATCTATTCCACT-CTTGTCCAGGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTACTACT-CAGGGAGA-TAAG-A-T-CTGAAAT
* * * * **
32143320 CTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGAAAT
* * *
32143365 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAAAT
* * ** ****
32143409 CTTCAATCTATTCCACT-GTTGTCCAGGGA-AGT-AGAAT-TGCTGG
1 CTTCAATCTACTCCACTACTACT-CAGGGAGA-TAAG-ATCTGAAAT
* * * * **
32143452 CTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGAAAT
* * * * *
32143497 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGACAT
1 CTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAAAT
* * ** *
32143541 CTTCAATCTATTCCACT-GTTGTCCAGGGA-AGT-AGAATTACTG---G
1 CTTCAATCTACTCCACTACTACT-CAGGGAGA-TAAG-A-T-CTGAAAT
* * * * **
32143584 CTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTACT-A-CTCAGGGAGATAAGATCTGAAAT
* * * *
32143629 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAT
1 CTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAAAT
* *
32143673 CTTCAACCTATTCCACT
1 CTTCAATCTACTCCACT
32143690 GTTGTCCAGG
Statistics
Matches: 325, Mismatches: 92, Indels: 79
0.66 0.19 0.16
Matches are distributed among these distances:
42 6 0.02
43 85 0.26
44 171 0.53
45 54 0.17
46 9 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
CTTCAATCTACTCCACTACTACTCAGGGAGATAAGATCTGAAAT
Found at i:32143367 original size:88 final size:89
Alignment explanation
Indices: 32143257--32143645 Score: 226
Period size: 88 Copynumber: 4.4 Consensus size: 89
32143247 ACTACTACTT
* * ** *
32143257 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTCTTGTC-CAGGGAAGTAGAATTACTGGC
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTCTTGTCACAGGGAAGTAGAATTACTGGC
*
32143321 TTCAATGTACTCCACTATAACCAC
66 TTCAATCTACTCCACTATAACCAC
* **
32143345 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTAC-TG-CTTAGGG-AGATA-AGA-T-CT
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACT-CTTGTCACAGGGAAG-TAGA-ATTACT
* * * ***
32143404 GAAATCTTCAATCTATTCCACTGTTGTC-C
63 G---GCTTCAATCTACTCCACTATAACCAC
* * *** * * *** * * * ***
32143433 AGGGAAGTAGAAT-TGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCAT
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTCTTGTCACAGGGAAGTAGAAT-TACTGG
* * * **
32143497 CTTCGATCTGCTCCACTACT--GCTT
65 CTTCAATCTACTCCACTA-TAACCAC
* * * * *
32143521 AGGGAGATAAGATCTGACATCTTCAATCTATTCCACTGTTGTC-CAGGGAAGTAGAATTACTGGC
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTCTTGTCACAGGGAAGTAGAATTACTGGC
*
32143585 TTCAATGTACTCCACTATAACCAC
66 TTCAATCTACTCCACTATAACCAC
* *
32143609 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT
1 AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACT
32143646 ACTGCTTAGG
Statistics
Matches: 215, Mismatches: 67, Indels: 38
0.67 0.21 0.12
Matches are distributed among these distances:
86 4 0.02
87 41 0.19
88 128 0.60
89 40 0.19
90 1 0.00
91 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (89 bp):
AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTCTTGTCACAGGGAAGTAGAATTACTGGC
TTCAATCTACTCCACTATAACCAC
Found at i:32143808 original size:44 final size:44
Alignment explanation
Indices: 32143759--32144099 Score: 123
Period size: 44 Copynumber: 7.8 Consensus size: 44
32143749 AAAATCTACC
*
32143759 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
* * * * * * * **
32143803 ATCTTCAACCTTCTCCGCTGCTGCTGAGGGAGACAAG-GCTTGGT
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGAA
** * * **
32143847 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCC
1 ATCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-GAA
* *
32143891 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-A
* * * * * * * **
32143935 ATTTTCAATTTTCTCCACT-GTAGCTCAGGGAGATGAG-GCTTGGT
1 ATCTTCAATCTGCTCCACTACT-GCTTAGGGAGATAAGATC-TGAA
** * * **
32143979 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCC
1 ATCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-GAA
* *
32144023 TTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-A
* * * *
32144067 ATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
1 ATCTTCAATCTGCTCCACTACTGCTTAGGGAGA
32144100 CAAGGCTTGG
Statistics
Matches: 207, Mismatches: 65, Indels: 50
0.64 0.20 0.16
Matches are distributed among these distances:
42 12 0.06
43 13 0.06
44 163 0.79
45 9 0.04
46 10 0.05
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:32143833 original size:132 final size:132
Alignment explanation
Indices: 32142920--32143810 Score: 1543
Period size: 132 Copynumber: 6.8 Consensus size: 132
32142910 GAGATAAGAC
* * * * ** *
32142920 TACTGGCTTCAAGGTACTCCACTGTAACCATAGAGAGGTAAAATCCACCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* * **
32142985 ACTACTGCTTTGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143050 AT
131 AT
* * * * *
32143052 TACTGGCTTCAATGTACTCCACTGTACCCACAGAGAGGTAAAATCCGCCATCTTCGATCTGTTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
*
32143117 ACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143182 AT
131 AT
*
32143184 TACTGGCTTCAATGTACTCCACTATAA-C-CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* *
32143247 ACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTCTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143312 AT
131 AT
*
32143314 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
32143379 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143444 AT
131 AT
*
32143446 TGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
*
32143511 ACTACTGCTTAGGGAGATAAGATCTGACATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143576 AT
131 AT
32143578 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
*
32143643 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
32143708 AT
131 AT
*
32143710 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
32143775 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAA
32143811 CCTTCTCCGC
Statistics
Matches: 730, Mismatches: 27, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
130 124 0.17
131 2 0.00
132 604 0.83
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
AT
Found at i:32143896 original size:132 final size:132
Alignment explanation
Indices: 32143760--32144173 Score: 679
Period size: 132 Copynumber: 3.1 Consensus size: 132
32143750 AAATCTACCA
*
32143760 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAACCTTCTCCGCTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAACCTTCTCCACTGC
*
32143824 TGCTGAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
65 TGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
32143889 CCG
130 CCG
* * **
32143892 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAATTTTCTCCACTG-T
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCT
**
32143956 AGCTCAGGGAGATGAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
66 -GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCG
*
32144021 CCT
130 CCG
32144024 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCT
* * *
32144089 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATTTTCTTCCCACTATCTTGGAAAGATAAGATTCTC
66 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
32144154 CG
131 CG
*
32144156 TTTTCGATCTGCTCCACT
1 TCTTCGATCTGCTCCACT
32144174 GTCAATGCAG
Statistics
Matches: 260, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
131 2 0.01
132 257 0.99
133 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCT
GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGC
CG
Found at i:32143898 original size:264 final size:260
Alignment explanation
Indices: 32142920--32144097 Score: 1377
Period size: 264 Copynumber: 4.5 Consensus size: 260
32142910 GAGATAAGAC
* * * * ** *
32142920 TACTGGCTTCAAGGTACTCCACTGTAACCATAGAGAGGTAAAATCCACCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* * * * *
32142985 ACTACTGCTTTGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTCAGGGAAGTAGA
* * * *
32143050 ATTACTGGCTTCAATGTACTCCACTGTACCCACAGAGAGGTAAAATCCGCCATCTTCGATCTGTT
131 ATTACTGGCTTCAATGTACTCCAC--TATCCA-GGAGAGGT-AAATTCGCCATCTTCGATCTGCT
*
32143115 CCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
192 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
32143180 GAAT
257 GAAT
*
32143184 TACTGGCTTCAATGTACTCCACTATAA-C-CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
*
32143247 ACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACT-CTTG-TCCAGGGAAGTA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGC-TGCT-CAGGGAAGTA
*
32143310 GAATTACTGGCTTCAATGTACTCCACTATAACCACAGG-GAGGTAAAATCTGCCATCTTCGATCT
129 GAATTACTGGCTTCAATGTACTCCACTAT---C-CAGGAGAGGTAAATTC-GCCATCTTCGATCT
*
32143374 ACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
189 GCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAA
32143439 GTAGAAT
254 GTAGAAT
*
32143446 TGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* *
32143511 ACTACTGCTTAGGGAGATAAGATCTGACATCTTCAATCTATTCCACTGTTG-TCCAGGGAAGTAG
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCT-CAGGGAAGTAG
*
32143575 AATTACTGGCTTCAATGTACTCCACTATAACCACAGG-GAGGTAAAATCTGCCATCTTCGATCTG
130 AATTACTGGCTTCAATGTACTCCACTAT---C-CAGGAGAGGTAAATTC-GCCATCTTCGATCTG
*
32143639 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAG
190 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAG
32143704 TAGAAT
255 TAGAAT
*
32143710 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* * * **
32143775 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCT-TCTCCGCTGCTGCTGAGGGAGACAA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTAT-TCCACTGCTGCTCAGGGA-AGTA
** ** * * * ** * * *
32143839 GGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGC
129 GAATTACTGGCTTCAATGTAC-T-CCACTATCCAGGAGAGGTAA-ATTCGCCATCTTCGATCTGC
* * *
32143904 TCCACTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAAT-TTTCTCCACTGTAG-CTCAGGG-
191 TCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAATCTAT-TCCACTGTTGTC-CAGGGA
**
32143965 AGATGAGGCT
253 AG-T-AGAAT
** * * * ** * * * *
32143975 TGGTGGCTTAAATCTGCTTCCCACTAT---C-TTGGAAAGATAAGAT-TCGCCTTCTTCGATCTG
1 TACTGGCTTCAATGTAC-T-CCACTATAACCACAGG-GAGGTAAAATCT-GCCATCTTCGATCTG
*
32144035 CTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAACCT-TCTCCACTGCTGCTCAGGGA
62 CTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAATCTAT-TCCACTGCTGCTCAGGGA
32144098 GACAAGGCTT
Statistics
Matches: 819, Mismatches: 68, Indels: 54
0.87 0.07 0.06
Matches are distributed among these distances:
260 2 0.00
261 4 0.00
262 226 0.28
263 17 0.02
264 519 0.63
265 35 0.04
266 2 0.00
267 14 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (260 bp):
TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCTCAGGGAAGTAGA
ATTACTGGCTTCAATGTACTCCACTATCCAGGAGAGGTAAATTCGCCATCTTCGATCTGCTCCAC
TACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAAT
Found at i:32144030 original size:396 final size:391
Alignment explanation
Indices: 32142920--32144086 Score: 1383
Period size: 396 Copynumber: 3.0 Consensus size: 391
32142910 GAGATAAGAC
* * * * *
32142920 TACTGGCTTCAAGGTACTCCACTGTAACCATAGAGAGGTAAAATCCACCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTACTCC
* * * * ** **
32142985 ACTACTGCTTTGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTACCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGCTGTCCAGGGAACAAGA
* * * * * * *
32143050 ATTACTGGCTTCAATGTACTCCACTGTACCCACA-GAGAGGTAAAATCCGCCATCTTCGATCTGT
131 ATTGCTGGCTTAAATCTACTCCACTATA--CACAGGA-AGATAAAATCTGCCATCTTCGATCTGC
* *
32143114 TCCACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
193 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAGTCCAGGGAAGT
* * * *
32143179 AGAATTACTGGCTTCAATGTACTCCACTATA-ACCAGGGAGGTAAAATCCGCCATCTTCGATCTG
258 AGAATTACTGGCTTAAATCTACTCCACTATACA-CAGGAAGATAAAAT-CGCCATCTTCGATCTG
* * *
32143243 CTCCACTACTACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTCTTGTCCAGGGAAG
321 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAG
32143308 TAGAAT
386 TAGAAT
*
32143314 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTACTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTACTCC
* * **
32143379 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGCTGTCCAGGGAACAAGA
* * * *
32143444 ATTGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
131 ATTGCTGGCTTAAATCTACTCCACTAT-A-CACAGGAAGATAAAATCTGCCATCTTCGATCTGCT
* *
32143509 CCACTACTGCTTAGGGAGATAAGATCTGACATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTA
194 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAGTCCAGGGAAGTA
* * * *
32143574 GAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTG
259 GAATTACTGGCTTAAATCTACTCCACTAT-A-CACAGGAAGATAAAATC-GCCATCTTCGATCTG
32143639 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAG
321 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAG
32143704 TAGAAT
386 TAGAAT
*
32143710 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTACTCC
* *
32143775 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCT-TCTCCGCTGCTG-CTGAGGGAGACA
66 ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTAT-TCCACTGCTGTC-CAGGGA-ACA
** * * ** * *
32143838 AGGCTTGGTGGCTTAAATCTGCTTCCCACTAT-C-TTGGAAAGATAAGAT-TCGCCGTCTTCGAT
128 AGAATTGCTGGCTTAAATCTAC-T-CCACTATACACAGG-AAGATAAAATCT-GCCATCTTCGAT
* *
32143900 CTGCTCCACTACTGCTTAGGGAGATAAGATCT-ATAATTTTCAAT-TTTCTCCACTGTAG-CTCA
189 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAATCTAT-TCCACTGTAGTC-CA
** ** * ** * *
32143962 GGG-AGATGAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT-C-TTGGAAAGATAAGATTCGCCT
251 GGGAAG-T-AGAATTACTGGCTTAAATCTAC-T-CCACTATACACAGG-AAGATAA-AATCGCCA
32144024 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAACCT-TCTCCACTG
310 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA-AATCTTCAACCTAT-TCCACTG
32144087 CTGCTCAGGG
Statistics
Matches: 692, Mismatches: 57, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
394 268 0.39
395 19 0.03
396 353 0.51
397 36 0.05
398 2 0.00
399 14 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (391 bp):
TACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTACCATCTTCGATCTACTCC
ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGCTGTCCAGGGAACAAGA
ATTGCTGGCTTAAATCTACTCCACTATACACAGGAAGATAAAATCTGCCATCTTCGATCTGCTCC
ACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTAGTCCAGGGAAGTAGA
ATTACTGGCTTAAATCTACTCCACTATACACAGGAAGATAAAATCGCCATCTTCGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAACCTATTCCACTGTTGTCCAGGGAAGTAGAA
T
Found at i:32145454 original size:6 final size:6
Alignment explanation
Indices: 32145453--32145493 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
32145443 ATTTTTTGTT
*
32145453 TTTTTG TTTTTG TTTTTG TTTTTG -TTTTG TTTTTT TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
32145494 AATCTGAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:32146255 original size:24 final size:25
Alignment explanation
Indices: 32146205--32146261 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
32146195 AGAAGATCTG
*
32146205 AAAGAATGAAAATATAATTATTTAA
1 AAAGAATGAAAATATAATTATTCAA
*
32146230 AAAGAAT-AAAATAT-ATTGGTTCAA
1 AAAGAATGAAAATATAATT-ATTCAA
*
32146254 AATGAATG
1 AAAGAATG
32146262 CAAAGATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 17 0.63
25 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (25 bp):
AAAGAATGAAAATATAATTATTCAA
Found at i:32151155 original size:98 final size:98
Alignment explanation
Indices: 32150986--32151180 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
32150976 ATACAATAAA
* * *
32150986 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACGCCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
*
32151051 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
* *
32151084 ACTTTAAAAGAACATCCACTTATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
*
32151149 CCTTTAGAATCTCAAACTCGAAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGAAATATTTCCTT
32151181 CATGATTTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTGAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGAAATATTTCCTTT
Found at i:32152685 original size:19 final size:19
Alignment explanation
Indices: 32152658--32152768 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
32152648 AATCATATCT
32152658 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
32152677 TCAAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
32152696 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
32152715 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32152734 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
32152753 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
32152769 CTCAAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:32153017 original size:10 final size:10
Alignment explanation
Indices: 32153002--32153026 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32152992 TTTATAATAA
32153002 ATTTTGATTT
1 ATTTTGATTT
32153012 ATTTTGATTT
1 ATTTTGATTT
32153022 ATTTT
1 ATTTT
32153027 CGACAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:32156567 original size:15 final size:15
Alignment explanation
Indices: 32156547--32156579 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32156537 ACAAAAACAG
*
32156547 TTCGAATCTTCAAGC
1 TTCGAACCTTCAAGC
32156562 TTCGAACCTTCAAGC
1 TTCGAACCTTCAAGC
32156577 TTC
1 TTC
32156580 ACCCTACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (15 bp):
TTCGAACCTTCAAGC
Found at i:32157366 original size:30 final size:30
Alignment explanation
Indices: 32157332--32157390 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
32157322 TTGAAAATTT
*
32157332 ATTTTAATTTTGA-GACTAAATTGAATTTTG
1 ATTTT-ATTTTAAGGACTAAATTGAATTTTG
* *
32157362 ATTTTGTTTTAAGGATTAAATTGAATTTT
1 ATTTTATTTTAAGGACTAAATTGAATTTT
32157391 CAATATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (30 bp):
ATTTTATTTTAAGGACTAAATTGAATTTTG
Found at i:32158713 original size:65 final size:65
Alignment explanation
Indices: 32158609--32158739 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 65
32158599 CAAATAAGGG
*
32158609 TCACACGACTGTATGATGGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
1 TCACACGACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
* * *
32158674 TCACAC-AGCTGTATGATAGGTTGAGGCCGTTTGGAGCTAAGTGACATGGTCGTGTTGTCAACTG
1 TCACACGA-CTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTG
32158738 A
65 A
32158739 T
1 T
32158740 GTCATGTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 1 0.02
65 60 0.98
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (65 bp):
TCACACGACTGTATGATAGGTTGAGGCCATTTGGAGCTAAATGACATGGTCATGTTGTCAACTGA
Found at i:32160996 original size:3 final size:3
Alignment explanation
Indices: 32160988--32161033 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
32160978 ATAAAGAAGG
32160988 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32161034 GGATTAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32162697 original size:39 final size:41
Alignment explanation
Indices: 32162606--32162697 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
32162596 CTCAGTCTGC
* *
32162606 TCCGCTGCAACCTCAGAGAGATAAGACCTGATGTGATCTAC
1 TCCGCTGCAACTTCAGAGAGATAAGACCTGATGTGATCTAA
* * * *
32162647 TCTGCTGCAACTTCAGAGAGATAAGATCT-AT-TGTTTTAA
1 TCCGCTGCAACTTCAGAGAGATAAGACCTGATGTGATCTAA
*
32162686 TCCGCTCCAACT
1 TCCGCTGCAACT
32162698 GCAACTTCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 15 0.35
40 2 0.05
41 26 0.60
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (41 bp):
TCCGCTGCAACTTCAGAGAGATAAGACCTGATGTGATCTAA
Done.