Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 291 of 345
Found at i:98964102 original size:31 final size:31
Alignment explanation
Indices: 98964066--98964126 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
98964056 TAAAATAATT
98964066 ATTAAATTATTCGAAAA-TTCTTATTTAAATG
1 ATTAAATTATTC-AAAAGTTCTTATTTAAATG
*
98964097 ATTAAATTATTCAAAAGTTTTTATTTAAAT
1 ATTAAATTATTCAAAAGTTCTTATTTAAAT
98964127 TATTGAGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (31 bp):
ATTAAATTATTCAAAAGTTCTTATTTAAATG
Found at i:98976846 original size:24 final size:26
Alignment explanation
Indices: 98976818--98976866 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
98976808 CTTGTTTTAA
* *
98976818 TATTTG-TTT-TTATGTTTTGAAATG
1 TATTTGATTTATTATATTTTAAAATG
98976842 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
98976867 TTTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:98987326 original size:3 final size:3
Alignment explanation
Indices: 98987318--98987350 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
98987308 ACTTTTAGTT
98987318 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
98987351 AATAAAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98990696 original size:15 final size:15
Alignment explanation
Indices: 98990649--98990696 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
98990639 TCAATCTTTC
* *
98990649 TTATATATATATAGA
1 TTATATATATTTATA
*
98990664 TTATATAGATTT-TA
1 TTATATATATTTATA
*
98990678 TTATATATTTTTATA
1 TTATATATATTTATA
98990693 TTAT
1 TTAT
98990697 TTATTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTATATATATTTATA
Found at i:98990698 original size:23 final size:23
Alignment explanation
Indices: 98990667--98990724 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
98990657 ATATAGATTA
* *
98990667 TATAGATTTTATTATAT-ATTTT
1 TATATATTTTATTATATGATTTG
98990689 TATAT-TATTTATTATATGATTTG
1 TATATAT-TTTATTATATGATTTG
98990712 TATATATTTTATT
1 TATATATTTTATT
98990725 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 14 0.45
23 15 0.48
24 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (23 bp):
TATATATTTTATTATATGATTTG
Found at i:98990699 original size:22 final size:22
Alignment explanation
Indices: 98990674--98990720 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
98990664 TTATATAGAT
*
98990674 TTTATTATAT-ATTTTTATATTA
1 TTTATTATATGATTTGTATA-TA
98990696 TTTATTATATGATTTGTATATA
1 TTTATTATATGATTTGTATATA
98990718 TTT
1 TTT
98990721 TATTTGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTATTATATGATTTGTATATA
Found at i:99003049 original size:203 final size:206
Alignment explanation
Indices: 99002700--99003573 Score: 1386
Period size: 203 Copynumber: 4.3 Consensus size: 206
99002690 GCAGATCTGG
*
99002700 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAA-AAATCGAA-ACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
99002763 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* *
99002828 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGATGGAGAGC-ACACATAGCAGATCTGACCTTC
131 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAACACATAGCAGATCTGGCCTTC
* *
99002892 AGATGTTTATA
196 AGATGATTAGA
99002903 CTGAAGCAAGATCCAAGAT-ATTTGGCATCCTTGTGCTTACAAGGAACAAATC-AAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
99002966 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
99003031 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTT
131 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCA-ACACATAGCAGATCTGGCCTT
99003096 CAGATGATTAGA
195 CAGATGATTAGA
* * * * *
99003108 CTGAAAC-AG-----AGATGATTTGGCATCATTGTGTTTACAAGGAACAAATC-AAAATCATAGA
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGC
*
99003166 TGATTTGGCTTTCACGTGCTTACGAT-AAGCAAATATAAGATGATTTGGCA--TCTGTATTGTCA
65 TGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
*
99003228 GAGAACAAA-CAAAGTTTGGCGTCTTCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCT
130 GAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCA-ACACATAGCAGATCTGGCCT
* *
99003292 TCAGATGTTTATA
194 TCAGATGATTAGA
*
99003305 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
99003370 GATTTGGCTTTCACGTGCTTGCGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
99003435 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGGAGACACATAGCAGATCTGGCCTA
131 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCA-ACACATAGCAGATCTGGCCTT
99003500 CAGATGATTAGA
195 CAGATGATTAGA
** *
99003512 CTGAAGC-AGATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAGACATAG
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAG
99003574 TAGATTTTAC
Statistics
Matches: 620, Mismatches: 34, Indels: 31
0.91 0.05 0.05
Matches are distributed among these distances:
197 70 0.11
198 23 0.04
199 4 0.01
200 57 0.09
201 31 0.05
202 28 0.05
203 202 0.33
204 28 0.05
205 36 0.06
206 72 0.12
207 69 0.11
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAACACATAGCAGATCTGGCCTTC
AGATGATTAGA
Found at i:99003468 original size:404 final size:403
Alignment explanation
Indices: 99002714--99003573 Score: 1442
Period size: 404 Copynumber: 2.1 Consensus size: 403
99002704 AGCAAGATCC
* * * * *
99002714 AAGATGGTTTGGCATCCTTGTGCTTACAAGGAA-AAATCGAAACATAGCTGATTTGGCTTTCACG
1 AAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCAAAACATAGATGATTTGGCTTTCACG
*
99002778 TGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGT
66 TGCTTACGATGAAGCAAATATAAGATGATTTGGCA-CTCTGTATTGTCAGAGAACAAATCAAAGT
*
99002843 TTGGCGTCTCCATATTCGATGGAGAGCACACATAGCAGATCTGACCTTCAGATGTTTATACTGAA
130 TTGGCGTCTCCATATTCGACGGAGAGCACACATAGCAGATCTGACCTTCAGATGTTTATACTGAA
99002908 GCAAGATCCAAGATATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGACATAGCTGATTTGG
195 GCAAGATCCAAGATATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGACATAGCTGATTTGG
99002973 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
260 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
*
99003038 ATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGA
325 ATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTACAGATGA
99003103 TTAGACTGAAACAG
390 TTAGACTGAAACAG
99003117 -AGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCAAAATCATAGATGATTTGGCTTTCAC
1 AAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCAAAA-CATAGATGATTTGGCTTTCAC
99003181 GTGCTTACGAT-AAGCAAATATAAGATGATTTGGCA-TCTGTATTGTCAGAGAACAAA-CAAAGT
65 GTGCTTACGATGAAGCAAATATAAGATGATTTGGCACTCTGTATTGTCAGAGAACAAATCAAAGT
* *
99003243 TTGGCGTCTTCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTG
130 TTGGCGTCTCCATATTCGACGGAGAGC--ACACATAGCAGATCTGACCTTCAGATGTTTATACTG
*
99003308 AAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTGAT
193 AAGCAAGATCCAAGAT-ATTTGGCATCCTTGTGCTTACAAGGAACAAATC-AAGACATAGCTGAT
*
99003373 TTGGCTTTCACGTGCTTGCGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
256 TTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
99003438 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGGAGACACATAGCAGATCTGGCCTACAG
321 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTACAG
*
99003503 ATGATTAGACTGAAGCAG
386 ATGATTAGACTGAAACAG
* *
99003521 ATCCAAGATGATTTGGCATTATTGTGTTTACAAGGAACAAATCGAAGACATAG
1 ----AAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATC-AAAACATAG
99003574 TAGATTTTAC
Statistics
Matches: 429, Mismatches: 16, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
400 31 0.07
401 21 0.05
402 80 0.19
403 63 0.15
404 189 0.44
409 42 0.10
410 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (403 bp):
AAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCAAAACATAGATGATTTGGCTTTCACG
TGCTTACGATGAAGCAAATATAAGATGATTTGGCACTCTGTATTGTCAGAGAACAAATCAAAGTT
TGGCGTCTCCATATTCGACGGAGAGCACACATAGCAGATCTGACCTTCAGATGTTTATACTGAAG
CAAGATCCAAGATATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTACAGATGAT
TAGACTGAAACAG
Found at i:99037606 original size:39 final size:40
Alignment explanation
Indices: 99037559--99037690 Score: 189
Period size: 40 Copynumber: 3.3 Consensus size: 40
99037549 GGACTAAGAT
*
99037559 CCGAAGGCATTTGTGCGAGATACTAATTACGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTAATTACGGGCTAAGTC
*
99037598 CCGAAGGCATTTGTGCGAGTTACTAAATT-CGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACT-AATTACGGGCTAAGTC
* *
99037638 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTAATTA-CGGGCTAAGTC
99037678 CCGAAGGCATTTG
1 CCGAAGGCATTTG
99037691 AATGAGTAGC
Statistics
Matches: 84, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.37
40 51 0.61
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAATTACGGGCTAAGTC
Found at i:99037712 original size:79 final size:79
Alignment explanation
Indices: 99037559--99037723 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
99037549 GGACTAAGAT
* **
99037559 CCGAAGGCATTTGTGCGAGATACTAATTACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
99037624 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
99037638 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAATAA-CGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
99037701 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
99037717 CCGAAGG
1 CCGAAGG
99037724 TACATGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.04
79 49 0.67
80 21 0.29
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:99050260 original size:11 final size:10
Alignment explanation
Indices: 99050246--99050279 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
99050236 CTAAACAAGT
99050246 ATTTAACATA
1 ATTTAACATA
99050256 CATTTAACATA
1 -ATTTAACATA
99050267 A-TTAACATA
1 ATTTAACATA
99050276 ATTT
1 ATTT
99050280 GTATTTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 3 0.14
11 10 0.45
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAACATA
Found at i:99071875 original size:37 final size:37
Alignment explanation
Indices: 99071825--99071903 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
99071815 TTATTACGAA
* *
99071825 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
* *
99071862 GTCTTACCCGGACAAAATTCCCACATGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
99071899 GTCTT
1 GTCTT
99071904 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:99072100 original size:47 final size:47
Alignment explanation
Indices: 99072022--99072553 Score: 684
Period size: 47 Copynumber: 11.4 Consensus size: 47
99072012 CCCTTCGGGA
* * * * * * * *
99072022 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
99072069 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
99072116 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
99072163 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
99072210 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
99072257 CTTATCACATATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
99072304 CTTATCACACATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
99072351 CTTATCACACATATACACTTTCACATTCATCACA-C-ACT-TTCA--C
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATT-AGGC
* **** *** * ** *
99072394 ATTCATCACAT-CGGCCA-TTAGGCCTT-ATCACATATATGCCATTAGGC
1 CTT-ATCACATATATACACTTTCACATTCATCAC--ATCGGCTATTAGGC
99072441 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
99072488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
99072535 CTTATCACATATATACACT
1 CTTATCACATATATACACT
99072554 GTCTTGGCTG
Statistics
Matches: 427, Mismatches: 46, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
41 5 0.01
42 5 0.01
43 6 0.01
44 8 0.02
45 5 0.01
46 10 0.02
47 378 0.89
48 5 0.01
49 5 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:99072389 original size:19 final size:19
Alignment explanation
Indices: 99072365--99072403 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
99072355 TCACACATAT
99072365 ACACTTTCACATTCATCAC
1 ACACTTTCACATTCATCAC
99072384 ACACTTTCACATTCATCAC
1 ACACTTTCACATTCATCAC
99072403 A
1 A
99072404 TCGGCCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (19 bp):
ACACTTTCACATTCATCAC
Found at i:99072403 original size:17 final size:18
Alignment explanation
Indices: 99072360--99072403 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
99072350 CCTTATCACA
*
99072360 CATATACACTTTCACATT
1 CATACACACTTTCACATT
99072378 CATCACACACTTTCACATT
1 CAT-ACACACTTTCACATT
99072397 CAT-CACA
1 CATACACA
99072404 TCGGCCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 3 0.12
19 17 0.71
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (18 bp):
CATACACACTTTCACATT
Found at i:99072423 original size:22 final size:22
Alignment explanation
Indices: 99072398--99072451 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
99072388 TTTCACATTC
*
99072398 ATCACATCGGCCATTAGGCCTT
1 ATCACATAGGCCATTAGGCCTT
*
99072420 ATCACATATATGCCATTAGGCCTT
1 ATCAC--ATAGGCCATTAGGCCTT
99072444 ATCACATA
1 ATCACATA
99072452 TATACACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.29
24 20 0.71
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATAGGCCATTAGGCCTT
Found at i:99072437 original size:24 final size:24
Alignment explanation
Indices: 99072407--99072454 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99072397 CATCACATCG
99072407 GCCATTAGGCCTTATCACATATAT
1 GCCATTAGGCCTTATCACATATAT
99072431 GCCATTAGGCCTTATCACATATAT
1 GCCATTAGGCCTTATCACATATAT
99072455 ACACTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (24 bp):
GCCATTAGGCCTTATCACATATAT
Found at i:99087254 original size:20 final size:19
Alignment explanation
Indices: 99087209--99087255 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
99087199 GCCAGTAAAA
99087209 TATTTTTTGGAAAATGATT
1 TATTTTTTGGAAAATGATT
*
99087228 TAGTTTTCTGG-AAATGATT
1 TA-TTTTTTGGAAAATGATT
99087247 TACTTTTTT
1 TA-TTTTTT
99087256 AATGTTTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (19 bp):
TATTTTTTGGAAAATGATT
Found at i:99087387 original size:13 final size:13
Alignment explanation
Indices: 99087369--99087413 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
99087359 TATATATTAA
99087369 TAAATTTATATTT
1 TAAATTTATATTT
*
99087382 TAAATTT-TTTTT
1 TAAATTTATATTT
*
99087394 ATAAATTTATACTT
1 -TAAATTTATATTT
99087408 TAAATT
1 TAAATT
99087414 GTTTTTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.15
13 20 0.74
14 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TAAATTTATATTT
Found at i:99087397 original size:26 final size:26
Alignment explanation
Indices: 99087368--99087420 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
99087358 ATATATATTA
* *
99087368 ATAAATTTATATTTTAAATTTTTTTT
1 ATAAATTTATACTTTAAATTGTTTTT
99087394 ATAAATTTATACTTTAAATTGTTTTT
1 ATAAATTTATACTTTAAATTGTTTTT
99087420 A
1 A
99087421 CATATATTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
ATAAATTTATACTTTAAATTGTTTTT
Found at i:99088690 original size:21 final size:21
Alignment explanation
Indices: 99088666--99088707 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99088656 TCAATATCAT
99088666 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
99088687 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
99088708 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:99088741 original size:21 final size:21
Alignment explanation
Indices: 99088676--99088741 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 21
99088666 TATCCAACCA
*
99088676 AATAAATTCAATATCTAACAT
1 AATAAATTAAATATCTAACAT
*
99088697 AATAAATTCAACA-AGCTTAAAACAT
1 AATAAATT-AA-ATATC-T--AACAT
99088722 AATAAATTAAATATCTAACA
1 AATAAATTAAATATCTAACA
99088742 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
21 12 0.33
22 3 0.08
23 4 0.11
24 4 0.11
25 13 0.36
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTAAATATCTAACAT
Found at i:99093111 original size:19 final size:19
Alignment explanation
Indices: 99093073--99093111 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99093063 TACATTTTAT
* *
99093073 TTATAAATTTTATTATATA
1 TTATAAATTTTACTAAATA
*
99093092 TTATATATTTTACTAAATA
1 TTATAAATTTTACTAAATA
99093111 T
1 T
99093112 ATTATTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTATAAATTTTACTAAATA
Found at i:99093234 original size:21 final size:20
Alignment explanation
Indices: 99093210--99093286 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 20
99093200 TAAATAATAG
*
99093210 TATATATATATTATCCTTATT
1 TATATATAT-TTATCATTATT
99093231 TATATGATATTTATCGTATTATT
1 TATAT-ATATTTATC--ATTATT
* *
99093254 TATATTTCATTTTAT-TTTATT
1 TATATAT-A-TTTATCATTATT
99093275 TATATAT-TTTAT
1 TATATATATTTAT
99093287 TACATATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
18 5 0.11
21 21 0.45
22 5 0.11
23 11 0.23
24 5 0.11
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TATATATATTTATCATTATT
Found at i:99105336 original size:44 final size:44
Alignment explanation
Indices: 99105286--99105737 Score: 541
Period size: 44 Copynumber: 10.3 Consensus size: 44
99105276 TCACCGGTGA
*
99105286 CAGATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
99105330 CAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * * *
99105374 CTGATTTGGCGTCTCTATATTGTCAGAGAGTAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
99105418 AAAATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * * *
99105462 CTGATTTGGCATTTCTGTATGGTCAGAGAGCATATC-AACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GATAG
* * * * *
99105506 CAGATTTGGCATCTCTGTGTTGTTAGAGAACAGATCAAAGAT-G
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
99105549 ACAGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCAAAAATAG
1 -CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * * *
99105594 CTGATTTGGCATCTTTGTATGGTCAGAGAGCAGATC-AACGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GATAG
* * * * *
99105638 CAAATATGGCATCTCTGTGTTGTCAGAGAACAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
* * *
99105682 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAGGATAA
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
99105726 CAGATTTGGCGT
1 CAGATTTGGCGT
99105738 TCCGGAGTTT
Statistics
Matches: 348, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
43 5 0.01
44 338 0.97
45 5 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
Found at i:99105512 original size:132 final size:132
Alignment explanation
Indices: 99105287--99105735 Score: 598
Period size: 132 Copynumber: 3.4 Consensus size: 132
99105277 CACCGGTGAC
* ** * *
99105287 AGATTTGGCGTCTCTGTGTTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATTG
1 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATGG
* * * * ** *
99105352 TCAGAGAGCAGATCGAA-GATAGCTGATTTGGCGTCTCTATATTGTCAGAGAGTAGATCAAAAAT
66 TCAGAGAGCAGATC-AACGATAGCAGATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAGAT
99105416 AGA
130 AGA
* * *
99105419 AAATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATAGCTGATTTGGCATTTCTGTATGG
1 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATGG
* *
99105484 TCAGAGAGCATATCAACGATAGCAGATTTGGCATCTCTGTGTTGTTAGAGAACAGATCAAAGAT-
66 TCAGAGAGCAGATCAACGATAGCAGATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAGATA
99105548 GA
131 GA
* * * *
99105550 CAGATTTGGCGTCTCTGTATTGTTAGAGAGCAGATCAAAAATAGCTGATTTGGCATCTT-TGTAT
1 -AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCAT-TTCTGTAT
* * *
99105614 GGTCAGAGAGCAGATCAACGATAGCAAATATGGCATCTCTGTGTTGTCAGAGAACAGATCGAAGA
64 GGTCAGAGAGCAGATCAACGATAGCAGATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAGA
*
99105679 TAGC
129 TAGA
* * *
99105683 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATTGAGGATAACAGATTTGGC
1 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGC
99105736 GTTCCGGAGT
Statistics
Matches: 278, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
131 4 0.01
132 271 0.97
133 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (132 bp):
AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATTTCTGTATGG
TCAGAGAGCAGATCAACGATAGCAGATTTGGCATCTCTGTGTTGTCAGAGAACAGATCAAAGATA
GA
Found at i:99107390 original size:19 final size:21
Alignment explanation
Indices: 99107362--99107405 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
99107352 TACATTTTAT
99107362 TTATAAATTTTA-T-TATATA
1 TTATAAATTTTACTATATATA
*
99107381 TTATATATTTTACTATATATA
1 TTATAAATTTTACTATATATA
99107402 TTAT
1 TTAT
99107406 TCTTTGCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 1 0.05
21 10 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAATTTTACTATATATA
Found at i:99107865 original size:15 final size:17
Alignment explanation
Indices: 99107840--99107877 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
99107830 TGCTTAATAT
*
99107840 TTTTATATTTTTA-TTG
1 TTTTATATTTTGATTTG
99107856 TTTT-TATTTTGATTTG
1 TTTTATATTTTGATTTG
99107872 TTTTAT
1 TTTTAT
99107878 TAGGCATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
TTTTATATTTTGATTTG
Found at i:99109464 original size:17 final size:17
Alignment explanation
Indices: 99109438--99109470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
99109428 TTATTAATAG
99109438 AATTGAAGCAAATAGCA
1 AATTGAAGCAAATAGCA
*
99109455 AATTGCAGCAAATAGC
1 AATTGAAGCAAATAGC
99109471 GAACATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (17 bp):
AATTGAAGCAAATAGCA
Found at i:99116324 original size:20 final size:20
Alignment explanation
Indices: 99116276--99116317 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
99116266 TTACAATATT
*
99116276 TTAATTATTT-GTTAATAAA
1 TTAATTATTTACTTAATAAA
*
99116295 TTAATTATTTACTTAATATA
1 TTAATTATTTACTTAATAAA
99116315 TTA
1 TTA
99116318 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATTATTTACTTAATAAA
Found at i:99118440 original size:14 final size:14
Alignment explanation
Indices: 99118373--99118488 Score: 55
Period size: 14 Copynumber: 8.1 Consensus size: 14
99118363 AATTTACTTT
*
99118373 TTAATATAGTTATAA
1 TTAATATA-TTATTA
*
99118388 TTTTATATATTATT-
1 -TTAATATATTATTA
*
99118402 TTAA-AT-TTTTTA
1 TTAATATATTATTA
* * *
99118414 TTTATAAAATATTA
1 TTAATATATTATTA
99118428 TTAATATATTATT-
1 TTAATATATTATTA
99118441 TTAA-ATATTAGTTACA
1 TTAATATATTA-TT--A
99118457 TTAAATATATTA-TA
1 TT-AATATATTATTA
*
99118471 TGTTATATATTATATA
1 T-TAATATATTAT-TA
99118487 TT
1 TT
99118489 TTAAATTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
11 4 0.05
12 11 0.14
13 10 0.13
14 24 0.32
15 6 0.08
16 13 0.17
17 2 0.03
18 6 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (14 bp):
TTAATATATTATTA
Found at i:99121389 original size:11 final size:11
Alignment explanation
Indices: 99121355--99121410 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
99121345 TAGTTTTATG
*
99121355 TTATAATAT-T
1 TTATTATATAT
* *
99121365 TTATTATGTTT
1 TTATTATATAT
99121376 TTATTATATAT
1 TTATTATATAT
99121387 TTATT-TA-A-
1 TTATTATATAT
99121395 TTATTATATAT
1 TTATTATATAT
99121406 TTATT
1 TTATT
99121411 TAATTATTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 10 0.26
11 20 0.53
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TTATTATATAT
Found at i:99121398 original size:19 final size:19
Alignment explanation
Indices: 99121376--99121418 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
99121366 TATTATGTTT
99121376 TTATTATATATTTATTTAA
1 TTATTATATATTTATTTAA
99121395 TTATTATATATTTATTTAA
1 TTATTATATATTTATTTAA
99121414 TTATT
1 TTATT
99121419 TCTGATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTATATATTTATTTAA
Found at i:99122326 original size:21 final size:20
Alignment explanation
Indices: 99122292--99122331 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99122282 CGGGCCCAGA
*
99122292 AATAAGTCCAAAAACAAAAAT
1 AATAAATCCAAAAA-AAAAAT
99122313 AATAAATCCCAAAAAAAAA
1 AATAAAT-CCAAAAAAAAA
99122332 CGAAGTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.70, C:0.15, G:0.03, T:0.12
Consensus pattern (20 bp):
AATAAATCCAAAAAAAAAAT
Found at i:99122547 original size:17 final size:19
Alignment explanation
Indices: 99122450--99122540 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
99122440 ATAATCTTCA
99122450 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
99122469 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
99122488 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99122505 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99122523 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
99122541 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99122566 original size:22 final size:22
Alignment explanation
Indices: 99122450--99122563 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
99122440 ATAATCTTCA
99122450 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
99122469 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
99122488 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99122505 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99122523 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
99122545 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
99122564 GATTTAATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
17 13 0.15
18 20 0.24
19 31 0.37
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:99133441 original size:42 final size:42
Alignment explanation
Indices: 99133390--99133479 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
99133380 CTCCTGTGAG
* *
99133390 AACCCGCAAAACGCCTTGTGACGAAAGGGGTTCAGGGTTGAA
1 AACCCGCAAAACGCCTTGTGACCAAAGGGGTTCAGAGTTGAA
** **
99133432 AACCCGCAAAGGGCCTTGTGACCAAAGGGGTTTTGAGTTGAA
1 AACCCGCAAAACGCCTTGTGACCAAAGGGGTTCAGAGTTGAA
99133474 AACCCG
1 AACCCG
99133480 AAAGGGCAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (42 bp):
AACCCGCAAAACGCCTTGTGACCAAAGGGGTTCAGAGTTGAA
Found at i:99134715 original size:92 final size:89
Alignment explanation
Indices: 99134428--99134731 Score: 248
Period size: 92 Copynumber: 3.4 Consensus size: 89
99134418 GAAACAGATC
** * *
99134428 TGGCATCTCCATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTT
1 TGGCATCTCTGTATTAGACAGG-GAGCAGATCGAAGACATAGCAGATCTGACCTTC--ATGTTTT
* *
99134492 CACATTAAAGTAGATCCAAGATG---ATT
63 -ACA-TGAAGCAGATCCAAGATGACAATT
** * * * * * *
99134518 TGGCATC-CTTGCGTT-TACAAGGAGCAGATCAAAGACATAGCAGATTTGGCATCTC-TGTACTG
1 TGGCATCTC-TGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGT--T-
* * * *
99134580 TTAGA-GAA-CAAATCGAAGATAACAGATT
61 TTACATGAAGCAGATCCAAGATGACA-ATT
99134608 TGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGTTTAC
1 TGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGT-TTTAC
99134673 ATCGAAGCAGATCCAAGATGACATATT
65 AT-GAAGCAGATCCAAGATGACA-ATT
*
99134700 TGGCATCTCTGTATTAGACAGGGAGCAAATCG
1 TGGCATCTCTGTATTAGACAGGGAGCAGATCG
99134732 GAGATAACAG
Statistics
Matches: 166, Mismatches: 32, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
86 9 0.05
87 5 0.03
89 36 0.22
90 31 0.19
91 38 0.23
92 47 0.28
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
TGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTTTTACA
TGAAGCAGATCCAAGATGACAATT
Found at i:99134802 original size:44 final size:45
Alignment explanation
Indices: 99134538--99134876 Score: 328
Period size: 44 Copynumber: 7.5 Consensus size: 45
99134528 GCGTTTACAA
* * * **
99134538 GGAGCAGATCAAAGACATAGCAGATTTGGCATCTCTGTACT-GTTAG
1 GGAGCAGATCGAAG--ATAACAGATTTGGCATCTCTGTATTAGACAG
* * *
99134584 AGAACAAATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
1 GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
* * * * * * *
99134629 GGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTGTT-TACATC
1 GGAGCAGATCGAAG--ATAACAGATTTGGCATCTC-TGTATTAGACA-G
* * * *
99134676 GAAGCAGATCCAAGATGACATATTTGGCATCTCTGTATTAGACAG
1 GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
* * *
99134721 GGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGG
1 GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
* * * *
99134766 GGAGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGG
1 GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
*
99134810 GGAGCAGATCG-AGATAACAGATTTGGCGTCTCTGTATTAGACAG
1 GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
* *
99134854 GGAGCAGATCAAAGATAGCAGAT
1 GGAGCAGATCGAAGATAACAGAT
99134877 ATCGCCTTCC
Statistics
Matches: 238, Mismatches: 46, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
43 3 0.01
44 97 0.41
45 89 0.37
46 20 0.08
47 29 0.12
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (45 bp):
GGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAG
Found at i:99134848 original size:88 final size:90
Alignment explanation
Indices: 99134558--99134876 Score: 308
Period size: 92 Copynumber: 3.6 Consensus size: 90
99134548 AAAGACATAG
* ** * * * * *
99134558 CAGATTTGGCATCTCTGTACT-GTTAGAGAACAAATCGAAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
* * *
99134622 TAGACAGGGAGCAGATCGAAGACATAG
66 TAGACAGGGAGCAAATCG--GAGATAA
* * * * * * * * *
99134649 CAGATCTGACCT-TCATGTGTT-TACATCGAAGCAGATCCAAGAT-GACATATTTGGCATCTCTG
1 CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCAAAGATAG-CAGATTTGGCATCTCTG
99134711 TATTAGACAGGGAGCAAATCGGAGATAA
63 TATTAGACAGGGAGCAAATCGGAGATAA
* ** *
99134739 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
* *
99134803 TAGACGGGGAGCAGATC-GAGATAA
66 TAGACAGGGAGCAAATCGGAGATAA
*
99134827 CAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGAT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGAT
99134877 ATCGCCTTCC
Statistics
Matches: 184, Mismatches: 37, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
88 45 0.24
89 40 0.22
90 34 0.18
91 18 0.10
92 47 0.26
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (90 bp):
CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTAT
TAGACAGGGAGCAAATCGGAGATAA
Found at i:99135322 original size:17 final size:19
Alignment explanation
Indices: 99135225--99135315 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
99135215 ATAATCTTCA
99135225 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
99135244 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
99135263 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99135280 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99135298 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
99135316 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99135341 original size:22 final size:22
Alignment explanation
Indices: 99135225--99135338 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
99135215 ATAATCTTCA
99135225 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
99135244 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
99135263 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99135280 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99135298 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
99135320 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
99135339 GATTTAATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
17 13 0.15
18 20 0.24
19 31 0.37
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:99135639 original size:18 final size:18
Alignment explanation
Indices: 99135604--99135639 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99135594 CATGTTTCCC
* *
99135604 TAATTTTTTTATATTTTT
1 TAATTTTTTAATAATTTT
99135622 TAATTTTTTAATAATTTT
1 TAATTTTTTAATAATTTT
99135640 AGTATCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TAATTTTTTAATAATTTT
Found at i:99136879 original size:11 final size:11
Alignment explanation
Indices: 99136837--99136902 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
99136827 TTAAATAAAA
99136837 AATATAT-TATT
1 AATATATATA-T
*
99136848 AA-ATATTTAT
1 AATATATATAT
99136858 AATATATATAT
1 AATATATATAT
99136869 AATA-ATCATAT
1 AATATAT-ATAT
*
99136880 TATATATA-AT
1 AATATATATAT
*
99136890 -ATGTATATAT
1 AATATATATAT
99136900 AAT
1 AAT
99136903 GGAAAAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 6 0.13
10 13 0.28
11 25 0.54
12 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (11 bp):
AATATATATAT
Found at i:99136897 original size:18 final size:17
Alignment explanation
Indices: 99136839--99136897 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 17
99136829 AAATAAAAAA
99136839 TATATTAT-TA-AATATT
1 TATATTATATATAATA-T
99136855 TATAATATATATATAATAAT
1 TAT-AT-TATATATAAT-AT
*
99136875 CATATTATATATAATAT
1 TATATTATATATAATAT
99136892 GTATAT
1 -TATAT
99136898 ATAATGGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 17 0.49
19 4 0.11
20 6 0.17
21 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATATTATATATAATAT
Found at i:99143355 original size:6 final size:6
Alignment explanation
Indices: 99143344--99143383 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
99143334 AGGTTTCTAA
*
99143344 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGA AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
99143384 AAAAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:99143389 original size:18 final size:18
Alignment explanation
Indices: 99143350--99143389 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
99143340 CTAAAAATGG
* **
99143350 AAATGGAAATGGAAATGG
1 AAATGGAAATGAAAATAA
99143368 AAATGGAAATGAAAATAA
1 AAATGGAAATGAAAATAA
99143386 AAAT
1 AAAT
99143390 AAAAATTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAATGGAAATGAAAATAA
Found at i:99154080 original size:37 final size:37
Alignment explanation
Indices: 99154033--99154104 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
99154023 AAAAACTTGG
99154033 TTAATTAATTTTGTATTACTGGTTCAAGTTGTAATAA
1 TTAATTAATTTTGTATTACTGGTTCAAGTTGTAATAA
99154070 TTAATTAATTTTGTATTACTGGTTCAAGTTGTAAT
1 TTAATTAATTTTGTATTACTGGTTCAAGTTGTAAT
99154105 TAGTAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.50
Consensus pattern (37 bp):
TTAATTAATTTTGTATTACTGGTTCAAGTTGTAATAA
Found at i:99155787 original size:26 final size:26
Alignment explanation
Indices: 99155758--99155865 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
99155748 TGGTACAAAT
99155758 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
99155784 TGATAATGGATTAGGCAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99155810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99155836 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99155862 TGAT
1 TGAT
99155866 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99157314 original size:28 final size:26
Alignment explanation
Indices: 99157283--99157346 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
99157273 AATTACTTGA
* **
99157283 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
99157311 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
99157337 ATACCCCTAG
1 ATACCCCTAG
99157347 GATTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:99157493 original size:27 final size:26
Alignment explanation
Indices: 99157451--99157591 Score: 156
Period size: 27 Copynumber: 5.2 Consensus size: 26
99157441 AGGAAGCGTC
*
99157451 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
99157478 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
99157505 CTGGTGGCTATGCCACGTTTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* * *
99157532 CTAGTGGATCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
99157559 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
99157586 CTGGTG
1 CTGGTG
99157592 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
26 9 0.10
27 84 0.89
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:99157533 original size:54 final size:53
Alignment explanation
Indices: 99157451--99157591 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
99157441 AGGAAGCGTC
*
99157451 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGATCTACCACATATATCTGTT
* * *
99157505 CTGGTGGCTATGCCACGTTTATCTGATCTAGTGGATCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGATCTACCACATATATCTGTT
* *
99157559 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
99157592 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.08
54 71 0.92
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGATCTACCACATATATCTGTT
Found at i:99157602 original size:27 final size:26
Alignment explanation
Indices: 99157451--99157609 Score: 124
Period size: 27 Copynumber: 5.9 Consensus size: 26
99157441 AGGAAGCGTC
* * *
99157451 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
* *
99157478 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * ** *
99157505 CTGGTGGCTATGCCACGTTTATCTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
*
99157532 CTAGTGGA-TCTGCCACATATATCTGTT
1 CTGGT-GACTCTGCCACA-ATATCTGTT
*
99157559 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
99157586 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
99157610 GCAGCCTCGC
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
26 10 0.09
27 95 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:99160338 original size:27 final size:27
Alignment explanation
Indices: 99160298--99160456 Score: 177
Period size: 27 Copynumber: 5.9 Consensus size: 27
99160288 AGGAAGCGTC
*
99160298 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
99160325 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
* *
99160352 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
99160379 TTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
99160406 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
*
99160433 CTGGTGACT-TCGCCACAA-TATCTG
1 CTGGTGGCTCT-GCCACAATTATCTG
99160457 GCAGCCTCAC
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 12 0.10
27 100 0.86
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:99160384 original size:54 final size:53
Alignment explanation
Indices: 99160298--99160455 Score: 221
Period size: 54 Copynumber: 2.9 Consensus size: 53
99160288 AGGAAGCGTC
99160298 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
99160352 CTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* * *
99160406 CTGGTGGCTCTGCCACAATATCTGTATCTGGTGACT-TCGCCACA-ATATCT
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTGGCTCT-GCCACATATATCT
99160456 GGCAGCCTCA
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
53 14 0.15
54 81 0.85
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:99160448 original size:81 final size:80
Alignment explanation
Indices: 99160299--99160456 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
99160289 GGAAGCGTCC
*
99160299 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGGCTATG
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTATG
*
99160364 CCACGATTATCTGATT
66 CCAC-AATATCTGATT
* * *
99160380 TGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-
1 TGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTAT-TCTGGTGACTA
99160442 TCGCCACAATATCTG
64 T-GCCACAATATCTG
99160457 GCAGCCTCAC
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTCTGGTGACTATG
CCACAATATCTGATT
Found at i:99161683 original size:21 final size:20
Alignment explanation
Indices: 99161647--99161697 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
99161637 ACATGTATTA
*
99161647 GATATTAAATAGATATTTAT
1 GATATTAAAAAGATATTTAT
99161667 GATATTATAAAAGATATTTAT
1 GATATTA-AAAAGATATTTAT
*
99161688 TA-ATTAAAAA
1 GATATTAAAAA
99161698 ATTATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 11 0.39
21 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
GATATTAAAAAGATATTTAT
Found at i:99161698 original size:20 final size:21
Alignment explanation
Indices: 99161647--99161698 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
99161637 ACATGTATTA
*
99161647 GATATT-AAATAGATATTTAT
1 GATATTAAAAAAGATATTTAT
*
99161667 GATATTATAAAAGATATTTAT
1 GATATTAAAAAAGATATTTAT
*
99161688 TA-ATTAAAAAA
1 GATATTAAAAAA
99161699 TTATATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (21 bp):
GATATTAAAAAAGATATTTAT
Found at i:99162456 original size:17 final size:18
Alignment explanation
Indices: 99162434--99162468 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99162424 GATATGATAC
*
99162434 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
99162451 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
99162469 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:99162757 original size:22 final size:21
Alignment explanation
Indices: 99162722--99162804 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 21
99162712 AAAAGGTATC
* *
99162722 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
99162743 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99162766 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99162785 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
99162803 TA
1 TA
99162805 TATCATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99162765 original size:23 final size:22
Alignment explanation
Indices: 99162722--99162779 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
99162712 AAAAGGTATC
* *
99162722 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
99162743 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
99162766 TGCATATCATATCT
1 TACAAATCATATCT
99162780 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:99162782 original size:19 final size:19
Alignment explanation
Indices: 99162758--99162848 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
99162748 AATCATATCT
99162758 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99162777 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99162795 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
*
99162812 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
99162831 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
99162849 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
18 15 0.22
19 37 0.55
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99162827 original size:54 final size:53
Alignment explanation
Indices: 99162758--99162860 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 53
99162748 AATCATATCT
* *
99162758 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATATCTAAGATTATATCATA
1 TCTAAAATTGCATATCATATCTAAGATTGCATATCAT-T-GAAGATTATATCATA
99162812 TCTAAAATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
1 TCTAAAATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATAT
99162861 TTCCATATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 10 0.22
54 31 0.67
55 5 0.11
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.38
Consensus pattern (53 bp):
TCTAAAATTGCATATCATATCTAAGATTGCATATCATTGAAGATTATATCATA
Found at i:99163258 original size:45 final size:45
Alignment explanation
Indices: 99163196--99163395 Score: 226
Period size: 45 Copynumber: 4.5 Consensus size: 45
99163186 GGAAGGCGAT
* * * * *
99163196 ATCTGCTATCTTTGATCTGCTCTCGGTCTAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
99163241 ATCTGTTACCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
99163286 ATCTGCTT-T-TTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-TTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * *
99163330 ATATGTTATCTCCGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
99163375 ATCT-TTCATCTTGGATCTGCT
1 ATCTGTT-ATCTTCGATCTGCT
99163396 TCGATCTGCT
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.02
44 39 0.30
45 88 0.67
46 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:99163323 original size:89 final size:89
Alignment explanation
Indices: 99163210--99163378 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 89
99163200 GCTATCTTTG
* * * * *
99163210 ATCTGCTCTCGGTCTAATATAGAGACGCCAAATCTGTTACCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATATGTTACCTCCGATCTGCTCCCCGTCTAATAC
*
99163275 AGAGACACCAAATCTGCTTTTTCA
66 AAAGACACCAAATCTGCTTTTTCA
* * *
99163299 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATATGTTATCTCCGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATATGTTACCTCCGATCTGCTCCCCGTCTAATAC
**
99163364 AAAGATGCCAAATCT
66 AAAGACACCAAATCT
99163379 TTCATCTTGG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATATGTTACCTCCGATCTGCTCCCCGTCTAATAC
AAAGACACCAAATCTGCTTTTTCA
Found at i:99163527 original size:78 final size:78
Alignment explanation
Indices: 99163394--99163666 Score: 390
Period size: 78 Copynumber: 3.5 Consensus size: 78
99163384 CTTGGATCTG
* *
99163394 CTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCTTGGATTTGCTTCAATGAAGGTT
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGG-T
*
99163459 CA-ATCTGTTATGT
65 CAGATCTGCTATGT
*
99163472 CTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
1 CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
* *
99163537 AGGTCTGCTGTGT
66 AGATCTGCTATGT
*
99163550 CTTCGATCTG-TCCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGT
1 CTTCGATCTGCT-CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGT
*
99163614 CAGATCTACTATGT
65 CAGATCTGCTATGT
* * * *
99163628 CTTCGATTTGCTCTCCGTCGAATA-TGAAGATGCCAAATC
1 CTTCGATCTGCTCCCCGTCTAATACAG-AGATGCCAAATC
99163667 TGTTTCTTCG
Statistics
Matches: 176, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 5 0.03
78 170 0.97
79 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
CTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
AGATCTGCTATGT
Found at i:99168352 original size:93 final size:93
Alignment explanation
Indices: 99168239--99168410 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
99168229 CGCCCATAAG
* *
99168239 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99168304 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
99168332 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99168397 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
99168411 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:99168407 original size:46 final size:46
Alignment explanation
Indices: 99168232--99168407 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
99168222 TGTAACCCGC
* * *
99168232 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
99168278 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
99168328 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
99168371 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
99168408 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:99175808 original size:93 final size:93
Alignment explanation
Indices: 99175695--99175866 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
99175685 CGCCCATAAG
* *
99175695 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99175760 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
99175788 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
99175853 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
99175867 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:99175863 original size:46 final size:46
Alignment explanation
Indices: 99175688--99175863 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
99175678 TGTAACCCGC
* * *
99175688 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
99175734 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
99175784 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
99175827 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
99175864 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:99185993 original size:22 final size:21
Alignment explanation
Indices: 99185958--99186033 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
99185948 AAAAGGTATC
* *
99185958 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
99185979 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99186002 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99186021 TGC-AATCATATCT
1 TACAAATCATATCT
99186034 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99186092 original size:17 final size:19
Alignment explanation
Indices: 99185994--99186084 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
99185984 AATCATATCT
99185994 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99186013 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99186031 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
99186048 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
99186067 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
99186085 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99186241 original size:21 final size:20
Alignment explanation
Indices: 99186203--99186242 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
99186193 TTGGACTTCG
**
99186203 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
99186223 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
99186243 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:99189167 original size:50 final size:50
Alignment explanation
Indices: 99189049--99189280 Score: 353
Period size: 50 Copynumber: 4.7 Consensus size: 50
99189039 CTGGTACGCA
* * ** *
99189049 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAGTACACG
99189098 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAG-TACACG
*
99189148 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAGTACACG
* * *
99189198 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAGTACACG
99189247 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
99189281 CACAATAGCT
Statistics
Matches: 167, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
49 77 0.46
50 90 0.54
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAGTACACG
Found at i:99189246 original size:99 final size:100
Alignment explanation
Indices: 99189049--99189280 Score: 353
Period size: 99 Copynumber: 2.3 Consensus size: 100
99189039 CTGGTACGCA
* * ** *
99189049 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCAGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAGTAGCCTGCACTT
* *
99189113 AGTACTACACACGTGACCTAACCATCTGATACACG
66 AGTACTACACACGCGACCTAACAATCTGATACACG
*
99189148 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAGTAGCCTGCACTT
*
99189213 AGTACTACACATGCGACC-AACAATCT-AGTACACG
66 AGTACTACACACGCGACCTAACAATCTGA-TACACG
99189247 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
99189281 CACAATAGCT
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
98 1 0.01
99 78 0.64
100 43 0.35
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCAATACACGTAGTAGCCTGCACTT
AGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:99189959 original size:30 final size:30
Alignment explanation
Indices: 99189924--99189983 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
99189914 CTTTAATACC
99189924 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
99189954 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
99189984 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:99194851 original size:50 final size:50
Alignment explanation
Indices: 99194740--99194923 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
99194730 CTGGTACGCA
* * * * *
99194740 TAGTAGCCTGCACTTAGTACTGCATATGCGACC-AATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGATACACG
** *
99194789 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGATACACG
* * * * *
99194839 TAGTAGCCTGCACTTAGTACTCCACACGTGATCGAAGTTATCAGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCAGATACACG
*
99194890 TAGTAGCCTACACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
99194924 CACAATAGCT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 29 0.25
50 46 0.40
51 39 0.34
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGATACACG
Found at i:99194906 original size:101 final size:99
Alignment explanation
Indices: 99194740--99194923 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
99194730 CTGGTACGCA
* * * * * *
99194740 TAGTAGCCTGCACTTAGTACTGCATATGCGACCAATTATCCGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTCCACACGCGACCAATTATCAGATACACATAGTAGCCTACACTTA
99194805 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
* * *
99194839 TAGTAGCCTGCACTTAGTACTCCACACGTGATCGAAGTTATCAGGTACACATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTCCACACGCGA-CCAA-TTATCAGATACACATAGTAGCCTACACT
99194904 TAGTACTACACACGTGACCT
64 TAGTACTACACACGTGACCT
99194924 CACAATAGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 27 0.36
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTCCACACGCGACCAATTATCAGATACACATAGTAGCCTACACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:99195603 original size:30 final size:30
Alignment explanation
Indices: 99195545--99195603 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
99195535 CTTTAATACG
*
99195545 AACTTTGGCAAAATTACCATTTTTCCCCTA
1 AACTTTGGCAAAATTACCATTTTACCCCTA
* *
99195575 AACTTTTGCATAATTA-CACTTTTACCCCT
1 AACTTTGGCAAAATTACCA-TTTTACCCCT
99195604 GGGCTCGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACCATTTTACCCCTA
Found at i:99196902 original size:46 final size:46
Alignment explanation
Indices: 99196852--99197085 Score: 310
Period size: 46 Copynumber: 5.1 Consensus size: 46
99196842 AAATGTGTAG
* *
99196852 GACCATGGTTGAAAGATACCATAGCAACATGATAGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* *
99196898 GACCATGGTTGAAAGATACCATGGCAGCGTGACATG-AAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATAA
*
99196944 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAAATGAATAA
* *
99196991 GAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
* * * * * * *
99197037 GACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAA
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
99197082 GACC
1 GACC
99197086 GTGGATGGGA
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
45 12 0.07
46 111 0.67
47 43 0.26
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAA
Found at i:99197020 original size:24 final size:24
Alignment explanation
Indices: 99196947--99197021 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
99196937 TGAATAAGAC
99196947 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
* *
99196971 CATGACG-GGAAA-ATGA--ATAAG-AA
1 CATG--GTTGAAAGAT-ACCAT-GGCAA
99196994 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
99197018 CATG
1 CATG
99197022 ACAGAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 11 0.29
24 15 0.39
25 5 0.13
26 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:99197024 original size:93 final size:92
Alignment explanation
Indices: 99196852--99197067 Score: 308
Period size: 93 Copynumber: 2.3 Consensus size: 92
99196842 AAATGTGTAG
* * *
99196852 GACCATGGTTGAAAGATACCATAGCAACATGATAGAAAATGAATAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGAACATGGTTGAAAGATAC
* *
99196917 CATGGCAGCGTGACATG-AAATGAATAA
66 CATGGCAACATGACA-GAAAATGAATAA
*
99196944 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGAATAAGAACATGGTTGAAAGATA
1 GACCATGGTTGAAAGATACCATGGCAACATGA-GAGAAAATGAATAAGAACATGGTTGAAAGATA
*
99197009 CCATGGCAACATGACAGAAAATGAGTAA
65 CCATGGCAACATGACAGAAAATGAATAA
* * * *
99197037 GACCATAGTTGAAAGACACTATGGCATCATG
1 GACCATGGTTGAAAGATACCATGGCAACATG
99197068 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
92 32 0.29
93 79 0.71
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
GACCATGGTTGAAAGATACCATGGCAACATGAGAGAAAATGAATAAGAACATGGTTGAAAGATAC
CATGGCAACATGACAGAAAATGAATAA
Found at i:99197369 original size:16 final size:17
Alignment explanation
Indices: 99197348--99197380 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99197338 ATGATGGAAC
99197348 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99197364 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99197381 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99202359 original size:29 final size:31
Alignment explanation
Indices: 99202327--99202384 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
99202317 CTATTTTAAC
99202327 AATAA-TTA-TATTTAATATA-AGTAAAAAAA
1 AATAATTTATTATTTAATATAGA-TAAAAAAA
99202356 AATAATTTATTATTTAATATAGATAAAAA
1 AATAATTTATTATTTAATATAGATAAAAA
99202385 TTCTTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 3 0.12
31 17 0.65
32 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
AATAATTTATTATTTAATATAGATAAAAAAA
Found at i:99203944 original size:22 final size:23
Alignment explanation
Indices: 99203891--99203944 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
99203881 TTTTATGTAT
*
99203891 TTTTTAATTTATTAAATAATATA
1 TTTTTAATTTATAAAATAATATA
* *
99203914 TTTTAAATTT-TAAAAT-ATTTA
1 TTTTTAATTTATAAAATAATATA
99203935 TTTATTAATT
1 TTT-TTAATT
99203945 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.27
22 10 0.38
23 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTAATTTATAAAATAATATA
Found at i:99203984 original size:21 final size:20
Alignment explanation
Indices: 99203934--99203985 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 20
99203924 TAAAATATTT
99203934 ATTT-ATTAA-TTAAATAAA
1 ATTTGATTAATTTAAATAAA
* *
99203952 AATTGGTCTAATTTATAATAAA
1 ATTTGAT-TAATTTA-AATAAA
99203974 ATTTGATTAATT
1 ATTTGATTAATT
99203986 ATGAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 3 0.12
21 8 0.31
22 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (20 bp):
ATTTGATTAATTTAAATAAA
Found at i:99216590 original size:21 final size:22
Alignment explanation
Indices: 99216564--99216622 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
99216554 GTTTTAAGAA
*
99216564 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
99216585 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
99216607 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
99216623 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:99216637 original size:26 final size:24
Alignment explanation
Indices: 99216593--99216642 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
99216583 ATTTGTTTTA
*
99216593 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
99216617 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
99216643 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:99224426 original size:43 final size:43
Alignment explanation
Indices: 99224357--99224438 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
99224347 GTTACATGAA
* **
99224357 TCGCATCTATTATGAACTTGGACCTCTCAACGAGCTCGGGTGC
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGGTGC
* *
99224400 TCGCATCTATAATGAACTCAGTCCTCTTAACGAGCTCGG
1 TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGG
99224439 ATGCCATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (43 bp):
TCGCATCTATAATGAACTCAGACCTCTCAACGAGCTCGGGTGC
Found at i:99230445 original size:779 final size:779
Alignment explanation
Indices: 99228948--99231266 Score: 4404
Period size: 779 Copynumber: 3.0 Consensus size: 779
99228938 AAGGACATTT
* *
99228948 CTTACATACTTTATCAGCTATCACATGCTTTCCTAGCAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
99229013 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
99229078 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
* *
99229143 ACTTGCGTCTTCGCGTGCATGTATGGCATAAGCTCTAGTCGGAGCCCTAGCTTCGAACCTCACTG
196 ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
99229208 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
*
99229273 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATTATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
99229338 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
99229403 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
456 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
99229468 TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
99229533 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
99229598 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
*
99229663 AAGCTCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
99229727 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
1 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
* *
99229792 TAGACTCGACAGGTATATTCATACCAGACGCCAATTTCATACACACATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
99229857 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
*
99229922 ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTTACTG
196 ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
*
99229987 CTATGTCTCGCGTCATATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
*
99230052 AAGTTGCGCCACTCGGTCTTAGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
99230117 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
*
99230182 ACGCCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
456 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
*
99230247 TAGCCTGAGATCTAAAACCCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
*
99230312 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTAGAACGACAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
*
99230377 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCATTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
*
99230442 AAGCCCGTTCTACAAGTACCACTAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
*
99230506 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTATGAATTATG
1 CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
* *
99230571 TAGACTCGACAGGTATATTCATACTAGATGCAAATTTCATACACATATACAAATGAGTGGAGCCA
66 TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
*
99230636 GGGTCTATCAAAGCAATAACATTTGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
131 GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
*
99230701 ACTTGCGTCTTCGCGTGCACGTATGGTATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
196 ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
*
99230766 CTATGTCTCGCGTCACATTTTACTATCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
261 CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
99230831 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
326 AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
99230896 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
391 ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
*
99230961 ACGTCTACCACATTACGGACATTCAGCCTTAGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
456 ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
99231026 TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
521 TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
*
99231091 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGATAATGACTTACTCATGTACCT
586 TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
*
99231156 CTTTTTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
651 CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
*
99231221 AAGCCCGTTCTACAAGTACCACAAATTCTTTCAACTCGAGAATACC
716 AAGCCCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACC
99231267 CACTAATGTC
Statistics
Matches: 1504, Mismatches: 36, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
779 1504 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (779 bp):
CTTACATACTTTATCAACTATCACATGCTTTCCTAACAGGTTAGACACCTTAATTACGAATTATG
TAGACTCGACAGGTATATTCATACTAGATGCCAATTTCATACACACATACAAATGAGTGGAGCCA
GGGTCTATCAAAGCAATAACATTAGTATCATAGAGAGAAAATTTACCAGTGATCACATCAGGAGA
ACTTGCGTCTTCGCGTGCACGTATGGCATAAGCTCTAGCCGGAGCCCTAGCTTCGAACCTCACTG
CTATGTCTCGCGTCACATTTTACTACCGGACCTATTCCCGACATTTCTCGAGGGTCTTCCCCTAG
AAGTTGCGCCACTCGGTCTTGGATTCTAGAATCTTTCTTTTTCCATCATCTCGGGACAGTCCTTT
ATAAAGTGGTCTAAAGAACCACATTTAAAACATGATCCTTCACTCACTCTATAGTTACCAGAATG
ACGTCTACCACATTACGGACATTCAGCCTTGGAAGGTTTAGCGTTACCCACGCTTGCCACAGACG
TAGCCTGAGATCTAAAACTCGAATTTTTCTTTTTACGATTCCCATATGAATGTCCAATTGACATA
TGTGAAAGAGAATACATCTCTCTAGATTTCTTAGACTGGAACGACAATGACTTACTCATGTACCT
CTTTCTTATATCTCTTGCATTAGACTCGGCCTTCTTCCTTTCTTTAACCAAGCCTTCGTCTTTAC
AAGCCCGTTCTACAAGTACCACAAATTCTTTCGACTCGAGAATACCTTTATCAACTATCACATG
Found at i:99235619 original size:36 final size:36
Alignment explanation
Indices: 99235579--99235650 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
99235569 AAATAGAGTA
*
99235579 TATAACTCTTTCTGCTTCGGTCATTGAGTTAGAGCC
1 TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
*
99235615 TATAACTCTTTTTGCTTCGGTCATTGAGGTAGAGCC
1 TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
99235651 ACTGAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (36 bp):
TATAACTCTTTCTGCTTCGGTCATTGAGGTAGAGCC
Found at i:99237194 original size:14 final size:16
Alignment explanation
Indices: 99237157--99237196 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
99237147 AAAACCTTCT
99237157 TTTTAT-TTATAAAAG
1 TTTTATATTATAAAAG
*
99237172 TTATATATTAT-AAA-
1 TTTTATATTATAAAAG
99237186 TTTTATATTAT
1 TTTTATATTAT
99237197 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTATATTATAAAAG
Found at i:99243584 original size:12 final size:12
Alignment explanation
Indices: 99243554--99243578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99243544 CTGGTAGGTG
99243554 TCGAATAAACCA
1 TCGAATAAACCA
99243566 TCGAATAAACCA
1 TCGAATAAACCA
99243578 T
1 T
99243579 TCAATATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.24, G:0.08, T:0.20
Consensus pattern (12 bp):
TCGAATAAACCA
Found at i:99245192 original size:60 final size:59
Alignment explanation
Indices: 99245104--99245242 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 59
99245094 CAGTGTTAAT
* *
99245104 TGGGCCTTAGTCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAAC-AGAGTATAC
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATACAAGT--CGAGA-TATAC
* * *
99245165 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATATAC
*
99245224 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
99245243 CACAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
59 26 0.38
60 33 0.49
61 9 0.13
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATACAAGTCGAGATATAC
Found at i:99245257 original size:20 final size:20
Alignment explanation
Indices: 99245232--99245271 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
99245222 ATTGGGCCTT
99245232 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
99245252 GCCCATTTCAATACAGTTGG
1 GCCCATATCAACACAGTTGG
99245272 CCTATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:99245611 original size:25 final size:27
Alignment explanation
Indices: 99245579--99245639 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
99245569 AAATTAACCC
* *
99245579 TAGGGGTATAACGGTCA-TTT-GTACT
1 TAGGGGTATAACGGTAATTTTCATACT
*
99245604 TAGGGGTAAAACGGTAATTTTCATACT
1 TAGGGGTATAACGGTAATTTTCATACT
99245631 TAGGGGTAT
1 TAGGGGTAT
99245640 TTTAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 15 0.50
26 3 0.10
27 12 0.40
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.34
Consensus pattern (27 bp):
TAGGGGTATAACGGTAATTTTCATACT
Found at i:99252109 original size:20 final size:21
Alignment explanation
Indices: 99252065--99252110 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
99252055 TTAGGGACTA
99252065 ATTAATCTAGTTTAATTTAGT
1 ATTAATCTAGTTTAATTTAGT
*
99252086 -TTAATCATGGTTT-ATTTA-T
1 ATTAATC-TAGTTTAATTTAGT
99252105 ATTAAT
1 ATTAAT
99252111 TTAACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
ATTAATCTAGTTTAATTTAGT
Found at i:99255451 original size:26 final size:26
Alignment explanation
Indices: 99255422--99255503 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
99255412 TGATACAAAT
99255422 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99255448 TGATAATGGGTTAGGTAAATGATT-CA
1 TGATAATGGGTTAGGTAAATG-TTCCA
99255474 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99255500 TGAT
1 TGAT
99255504 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
25 2 0.04
26 50 0.93
27 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99256707 original size:15 final size:16
Alignment explanation
Indices: 99256680--99256715 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
99256670 TCGGCAAAAG
99256680 CGAAAAGCCGAAATGC
1 CGAAAAGCCGAAATGC
99256696 CGAAAA-CCGAAATGC
1 CGAAAAGCCGAAATGC
99256711 C-AAAA
1 CGAAAA
99256716 TCGGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 10 0.50
16 6 0.30
ACGTcount: A:0.50, C:0.25, G:0.19, T:0.06
Consensus pattern (16 bp):
CGAAAAGCCGAAATGC
Found at i:99261138 original size:25 final size:25
Alignment explanation
Indices: 99261109--99261237 Score: 210
Period size: 25 Copynumber: 5.2 Consensus size: 25
99261099 TGATACAAAT
99261109 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
99261134 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
99261159 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
99261184 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
99261209 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
99261234 TGAT
1 TGAT
99261238 GGAATTTCAT
Statistics
Matches: 101, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
24 4 0.04
25 78 0.77
26 19 0.19
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.37
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:99263199 original size:533 final size:533
Alignment explanation
Indices: 99262193--99263220 Score: 1984
Period size: 533 Copynumber: 1.9 Consensus size: 533
99262183 ACATTGACAA
99262193 AAATTTGTTAATGAGTTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGC
1 AAATTTGTTAATGAGTTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGC
99262258 CGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATTAACGTGTTAGTAAACC
66 CGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATTAACGTGTTAGTAAACC
* *
99262323 AATTGTAGGCGGTTCGTGTGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACAC
131 AATTGTAAGCGGTTCGTGCGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACAC
99262388 CGTCTTTCTTAGTCTAGATCGGCAAAAGCCGAAAAGCCGAAATGCCGAAAACCGGTATTTTGTAG
196 CGTCTTTCTTAGTCTAGATCGGCAAAAGCCGAAAAGCCGAAATGCCGAAAACCGGTATTTTGTAG
99262453 ATTTGCGAGTGTGCGAATGCTCGTAAGGTAAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTG
261 ATTTGCGAGTGTGCGAATGCTCGTAAGGTAAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTG
99262518 GACTGCAAAGTGCATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAAATCGGAATG
326 GACTGCAAAGTGCATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAAATCGGAATG
99262583 ATGGGCCAACGGGCCCAATTCGGTAAGAACCCTCGGTACGTGATTATGTTAGTACGTGAAAAGTA
391 ATGGGCCAACGGGCCCAATTCGGTAAGAACCCTCGGTACGTGATTATGTTAGTACGTGAAAAGTA
*
99262648 GGAATATGCATGAAAAACCCTAAAATGGATAAATTACTGATGGTACGGGTTAGGTAAATGTTTAA
456 GGAATATGCATGAAAAACCCTAAAATAGATAAATTACTGATGGTACGGGTTAGGTAAATGTTTAA
99262713 TGCTTAATGGGCC
521 TGCTTAATGGGCC
99262726 AAATTTGTTAATGAGTTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGC
1 AAATTTGTTAATGAGTTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGC
*
99262791 CGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATTAACGTGTTAGTAATCC
66 CGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATTAACGTGTTAGTAAACC
99262856 AATTGTAAGCGGTTCGTGCGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACAC
131 AATTGTAAGCGGTTCGTGCGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACAC
99262921 CGTCTTTCTTAGTCTAGATCGGCAAAAGCCGAAAAGCCGAAATGCCGAAAACCGGTATTTTGTAG
196 CGTCTTTCTTAGTCTAGATCGGCAAAAGCCGAAAAGCCGAAATGCCGAAAACCGGTATTTTGTAG
* *
99262986 ATTTGTGAGTGTGCGAATGCTCGTGAGGTAAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTG
261 ATTTGCGAGTGTGCGAATGCTCGTAAGGTAAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTG
**
99263051 GACTGCAAAGTGCATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAAATTTGAATG
326 GACTGCAAAGTGCATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAAATCGGAATG
99263116 ATGGGCCAACGGGCCCAATTCGGTAAGAACCCTCGGTACGTGATTATGTTAGTACGTGAAAAGTA
391 ATGGGCCAACGGGCCCAATTCGGTAAGAACCCTCGGTACGTGATTATGTTAGTACGTGAAAAGTA
99263181 GGAATATGCATGAAAAACCCTAAAATAGATAAATTACTGA
456 GGAATATGCATGAAAAACCCTAAAATAGATAAATTACTGA
99263221 AATACCTTTA
Statistics
Matches: 487, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
533 487 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (533 bp):
AAATTTGTTAATGAGTTGCTTATTGATTTCTTATAAGCTTACTATGATCTGTAGGTGTGGTTGGC
CGAATATTGTAAGGGGTTAATACGTAGTTTGTATTTGAATAGTTAGATTAACGTGTTAGTAAACC
AATTGTAAGCGGTTCGTGCGTGGATCTCGTCAGCATATCGTCGCAAACAGGTGTGTAACTAACAC
CGTCTTTCTTAGTCTAGATCGGCAAAAGCCGAAAAGCCGAAATGCCGAAAACCGGTATTTTGTAG
ATTTGCGAGTGTGCGAATGCTCGTAAGGTAAATCGATTAATGTTTTTGGTAAGCTGCAATGTTTG
GACTGCAAAGTGCATGATTTCTGTGCCCTCGATATTTTTGGGCTTAATGGGCCAAAATCGGAATG
ATGGGCCAACGGGCCCAATTCGGTAAGAACCCTCGGTACGTGATTATGTTAGTACGTGAAAAGTA
GGAATATGCATGAAAAACCCTAAAATAGATAAATTACTGATGGTACGGGTTAGGTAAATGTTTAA
TGCTTAATGGGCC
Found at i:99264913 original size:30 final size:30
Alignment explanation
Indices: 99264878--99264935 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
99264868 TATGCACTTC
99264878 CACACGAGTA-ATCCACACACCCGTGTGTGA
1 CACACGAGTAGA-CCACACACCCGTGTGTGA
* **
99264908 CACACGGGTAGACCACACGTCCGTGTGT
1 CACACGAGTAGACCACACACCCGTGTGT
99264936 CATGGCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (30 bp):
CACACGAGTAGACCACACACCCGTGTGTGA
Found at i:99266766 original size:46 final size:44
Alignment explanation
Indices: 99266665--99266835 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 44
99266655 TAATTTGTGT
* * * *
99266665 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-TATTGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGA-CA-A
* *
99266713 GCCAGTGTAAGACATGTCCGGGACATGTATCGGC-ATCGAGACGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTA-CGAGAC--AA
* * *
99266759 GCCAGTGTAAGACATGTCTAGGACATGCATCTGCTACGAGACAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACAA
*
99266803 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
99266836 AACATGGATA
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 12 0.12
45 13 0.12
46 53 0.51
47 14 0.13
48 12 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACAA
Found at i:99266868 original size:50 final size:50
Alignment explanation
Indices: 99266806--99267038 Score: 240
Period size: 50 Copynumber: 4.7 Consensus size: 50
99266796 GAGACATGTC
* * *
99266806 AGTGTAAGACCATGTCTGGGACATGGCATCAACATG-GA-TACGCAAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATGTAAGTACG--AGAGCT
* * * * **
99266856 ATTGTAATACCATATTTGAAACATGGCATCAGCATGTAAGTACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATGTAAGTACGAGAGCT
* * *
99266906 AGTATAAAACCATGTCTAGGACATGGCATCAGCATGTAAGTACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATGTAAGTACGAGAGCT
* * * * * *
99266956 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTCG-ATG-AGGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-GTAAGTACGAGAGCT
*
99267005 AGTGTAAGACCTTGTCTGGGACATGGCATCAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCA
99267039 ACTTAACCCA
Statistics
Matches: 151, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
49 37 0.25
50 108 0.72
51 2 0.01
52 4 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATGTAAGTACGAGAGCT
Found at i:99281164 original size:25 final size:24
Alignment explanation
Indices: 99281130--99281200 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
99281120 TGTCCATGCT
99281130 TTTATTAAATTCAAATAAAGCAATA
1 TTTATTAAATTCAAATAAAG-AATA
* * *
99281155 TTTATTAAATTACAATTTAAGTATA
1 TTTATTAAATT-CAAATAAAGAATA
**
99281180 TAAATTCAAATTCAAATAAAG
1 TTTATT-AAATTCAAATAAAG
99281201 TTTAATTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 25 0.68
26 12 0.32
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTATTAAATTCAAATAAAGAATA
Found at i:99281224 original size:6 final size:6
Alignment explanation
Indices: 99281204--99281252 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
99281194 AATAAAGTTT
* * *
99281204 AATTGA AAGTG- AATTGA AATTAA AATTGA AATTGA AA-TGA AATTCA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA
99281250 AAT
1 AAT
99281253 AAAATATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (6 bp):
AATTGA
Found at i:99281230 original size:23 final size:23
Alignment explanation
Indices: 99281204--99281252 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
99281194 AATAAAGTTT
*
99281204 AATTGAAAGTGAATTGAAATTAA
1 AATTGAAAGTGAAATGAAATTAA
* *
99281227 AATTGAAATTGAAATGAAATTCA
1 AATTGAAAGTGAAATGAAATTAA
99281250 AAT
1 AAT
99281253 AAAATATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (23 bp):
AATTGAAAGTGAAATGAAATTAA
Found at i:99281396 original size:17 final size:16
Alignment explanation
Indices: 99281374--99281412 Score: 69
Period size: 17 Copynumber: 2.4 Consensus size: 16
99281364 AGAGAAAAAG
99281374 TGAAATGAAATTCAAA
1 TGAAATGAAATTCAAA
99281390 TTGAAATGAAATTCAAA
1 -TGAAATGAAATTCAAA
99281407 TGAAAT
1 TGAAAT
99281413 TAAAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (16 bp):
TGAAATGAAATTCAAA
Found at i:99281832 original size:30 final size:30
Alignment explanation
Indices: 99281786--99281853 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
99281776 TCGTTTACTA
*
99281786 TCGATCACCTCCAATCA-ATGTCGATCA-CAG
1 TCGATCACCACCAATCACA-GTCGATCATC-G
* *
99281816 TCGATCACCACTAATCACAGTGGATCATCG
1 TCGATCACCACCAATCACAGTCGATCATCG
99281846 TCGATCAC
1 TCGATCAC
99281854 TACTGTTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (30 bp):
TCGATCACCACCAATCACAGTCGATCATCG
Found at i:99285073 original size:13 final size:13
Alignment explanation
Indices: 99285055--99285080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99285045 GATGGACATT
99285055 ATCTACGTTGCAA
1 ATCTACGTTGCAA
99285068 ATCTACGTTGCAA
1 ATCTACGTTGCAA
99285081 GGGCATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
ATCTACGTTGCAA
Found at i:99286566 original size:16 final size:17
Alignment explanation
Indices: 99286519--99286568 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
99286509 CTTTAGTTTG
99286519 TAATTATTTTGTTTAATA
1 TAATTATTTT-TTTAATA
99286537 TAAATTTAATTTTTTTAA-A
1 T-AA-TT-ATTTTTTTAATA
99286556 TAATTATTTTTTT
1 TAATTATTTTTTT
99286569 GGATAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 8 0.28
17 2 0.07
18 3 0.10
19 4 0.14
20 7 0.24
21 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TAATTATTTTTTTAATA
Found at i:99286701 original size:89 final size:89
Alignment explanation
Indices: 99286600--99286832 Score: 287
Period size: 89 Copynumber: 2.6 Consensus size: 89
99286590 TTAATAGAAC
* *
99286600 AAATATATAATTCAAAAAAATAATAATACGGA-AC-AAATTAAATTTATAGATACAAGAAAATAC
1 AAATATAAAATTCAAAAAAATAATAATAC--ATACTAAATTAAATTTACAGATACAAGAAAATAC
* *
99286663 AAACATTCTAGAATATTAATACACGA
64 AAACATTCTAAAAAATTAATACACGA
* * *
99286689 AAATATAAAATTC-GAACAATAAATAATACATACTAAATTAAATTTACGGATACAAGAAAATACA
1 AAATATAAAATTCAAAAAAAT-AATAATACATACTAAATTAAATTTACAGATACAAGAAAATACA
99286753 AACATTCTAAAAAATTAATACACGA
65 AACATTCTAAAAAATTAATACACGA
* * **
99286778 AAATATAAAATTC-GAACAATAAATAATAC-TGACTAAATTTGATTTACAGATACAA
1 AAATATAAAATTCAAAAAAAT-AATAATACAT-ACTAAATTAAATTTACAGATACAA
99286833 AAATAGTACA
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
87 1 0.01
88 8 0.06
89 121 0.93
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.26
Consensus pattern (89 bp):
AAATATAAAATTCAAAAAAATAATAATACATACTAAATTAAATTTACAGATACAAGAAAATACAA
ACATTCTAAAAAATTAATACACGA
Found at i:99291263 original size:40 final size:40
Alignment explanation
Indices: 99291208--99291421 Score: 324
Period size: 40 Copynumber: 5.3 Consensus size: 40
99291198 CGTTTTTTAC
*
99291208 TAAAACGCCGCTAAAAA-CAGGGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-GG
* *
99291248 TAAAACGCTGCT-AAAACCAGAGCATTAGCGGCGCTTTCAG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-GG
99291288 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGG
* *
99291328 GAAAACGCCGCTAAAAACCAGAGCATTAGCTGCGCTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGG
* *
99291368 GAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTGG
99291409 TAAAACGCCGCTA
1 TAAAACGCCGCTA
99291422 CAAATCCCAT
Statistics
Matches: 160, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 4 0.03
40 115 0.72
41 41 0.26
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (40 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGG
Found at i:99291605 original size:14 final size:14
Alignment explanation
Indices: 99291583--99291622 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
99291573 TTAATTATCA
* *
99291583 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
99291597 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
99291611 ATATGGTTTAAG
1 TTATGGTTTAAG
99291623 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:99292504 original size:15 final size:15
Alignment explanation
Indices: 99292484--99292515 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
99292474 TTTAATTTAG
*
99292484 AAGATAAATGTATAT
1 AAGATAAATATATAT
99292499 AAGATAAATATATAT
1 AAGATAAATATATAT
99292514 AA
1 AA
99292516 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:99292554 original size:24 final size:24
Alignment explanation
Indices: 99292487--99292554 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
99292477 AATTTAGAAG
* *
99292487 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
99292512 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
99292536 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
99292555 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:99294131 original size:18 final size:17
Alignment explanation
Indices: 99294110--99294152 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
99294100 ATCTTAATGA
99294110 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
99294128 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
99294145 TCGATGAT
1 T-GATGAT
99294153 TATACCCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:99297466 original size:21 final size:21
Alignment explanation
Indices: 99297437--99297476 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99297427 GTTTTTATAT
*
99297437 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
99297458 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
99297477 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:99297928 original size:470 final size:470
Alignment explanation
Indices: 99297049--99298300 Score: 2434
Period size: 470 Copynumber: 2.7 Consensus size: 470
99297039 TTCTCTCCAA
* *
99297049 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACAGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
* *
99297114 CGAGCTGCAGGATATAATGGATCCTCCATAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
99297179 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTT-CA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
99297243 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTAT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTAT
99297308 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
99297373 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
99297438 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
391 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
99297503 GCTTGCTTGTCCATT
456 GCTTGCTTGTCCATT
99297518 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
99297583 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATTTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
99297648 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
99297713 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTAT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTAT
99297778 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
261 TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
99297843 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
99297908 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
391 TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
99297973 GCTTGCTTGTCCATT
456 GCTTGCTTGTCCATT
99297988 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
99298053 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
99298118 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
*
99298183 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTTT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTA-TTTTA
99298248 TTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAA
260 TTATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAA
99298301 TTTTGTTATA
Statistics
Matches: 774, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
469 187 0.24
470 530 0.68
471 57 0.07
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (470 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
ATTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTAT
TATATTAAACATGTTTGATTTTAATATTTAATATTTTTAAATGTCTTTAAAAGTTATAACTAATT
TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATT
TTGGTTCAACTTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTA
GCTTGCTTGTCCATT
Found at i:99297936 original size:21 final size:21
Alignment explanation
Indices: 99297907--99297946 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99297897 GTTTTTATAT
*
99297907 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
99297928 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
99297947 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Done.