Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006886.1 Hibiscus syriacus cultivar Beakdansim tig00017557_pilon, whole genome shotgun sequence
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: 181885
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2351 original size:95 final size:94
Alignment explanation
Indices: 2171--2356 Score: 293
Period size: 95 Copynumber: 2.0 Consensus size: 94
2161 TATAATTTTA
2171 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGA
* * * *
2236 TGATATTCAACTAGCCTGATAAAGGTAAT
66 TAAGATTCAACTAACATGATAAAGGTAAT
2265 TATACTATACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAATGCCCCGGCTTTATG
1 TATA-TATACAATAAAGCTTGAGTTGTCCCTCTAGA-GCAATTGGTTAAATGCCCCGGCTTTATG
* *
2329 GATAAGATTTAGCTAACATGATAAAGGT
64 GATAAGATTCAACTAACATGATAAAGGT
2357 GTTTACATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
94 5 0.06
95 79 0.94
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGA
TAAGATTCAACTAACATGATAAAGGTAAT
Found at i:8679 original size:84 final size:83
Alignment explanation
Indices: 8537--9656 Score: 904
Period size: 84 Copynumber: 13.5 Consensus size: 83
8527 AAAAGAATTG
* * * * * * * *
8537 TTTGCAACATAACTCAAGGCTAGAATGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
*
8602 TCAGCTCAAAGGCACAAT-A
65 TCAGCTCCAAGGCAC-ATCA
* * * *
8621 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAGACCTTCGACTTCGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT-CAACCAAAGACCTTCGAGTTCGACTACAC
** * *
8686 TCAGCTTTGAGGGCATATCA
65 TCAGC-TCCAAGGCACATCA
* * * *
8706 TTTGTAGCATAACTCAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
8771 TCAGCTCCAAGGCACATCA
65 TCAGCTCCAAGGCACATCA
* * * *
8790 TTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC-T--GCCAAAGACCCTCGAGTTCGATTACACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
* *
8852 CAGCTTCGAGGGCACATCA
66 CAGC-TCCAAGGCACATCA
** * * * * * *
8871 TTTATAACATAACTCAA-TGCTAGAATGGTTATC-TGAGACCAAAAGACATTCGAGTTCGACTAC
1 TTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTTCA-ACC-AAAGACCTTCGAGTTCGACTAC
* *
8934 GCTCAGCTCCAAGGCATATCA
63 ACTCAGCTCCAAGGCACATCA
*
8955 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTT-CAACCAAAGACCTTCGAGTTCGACTACAC
*
9020 TCAGCTCCAAGGCATATCA
65 TCAGCTCCAAGGCACATCA
* * * * * *
9039 TTTGCAGCATAGCTTAAGTCGAGATGGGCTAT-TT--GCCAAAGACCCTT-GAGTTCAATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGA-CCTTCGAGTTCGACTACAC
*
9100 TCAGCTTCAAGGGCACATCA
65 TCAGCTCCAA-GGCACATCA
** * * * * * *
9120 TTTATAGCATAACTCAAGGCTAGAAGGGTTAT-TGT-GACCAAAAGACCTTCGAGTTCAACTACG
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACC-AAAGACCTTCGAGTTCGACTACA
9183 CTCAGCTCCAAGGCACATCA
64 CTCAGCTCCAAGGCACATCA
* * * * * * * *
9203 TTTGCAACACAACTTAAGTCAAGAAGGGATATC-T--GCCAAAGACCCTCGAGTTTGATTACACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
* *
9265 CAGCT-TAGAGGGCATATCA
66 CAGCTCCA-A-GGCACATCA
* * * * * * * **
9284 TTTACAACATAACTCAAGGCTATATGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTATG
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACC-AAAGACCTTCGAGTTCGACTACA
* *
9348 CTCAGCTTCAAGGCATATCA
64 CTCAGCTCCAAGGCACATCA
** * * * * *
9368 TTTGTTGCATAACTTAAGTAGAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAAGACCTTCGAGTTCGACTACAC
*
9433 TCAGCTCCAAGACACATCA
65 TCAGCTCCAAGGCACATCA
* * * * * *
9452 TTTGCAGTATAGCTTAAGTCGAGAA-GGTCTATC-T--GCCAAAGACCCTCGAGTTTGATTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGT-TATCTTCAACCAAAGACCTTCGAGTTCGACTACAC
* *
9513 TCAGCTCAAAGACACCATCA
65 TCAGCTCCAAGGCA-CATCA
* * * * * * * *
9533 TTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC-T--GCTAAAGACCTTCGAGTTTGATTCCACT
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
9595 CAGC-CCAAAGGCACATCA
66 CAGCTCC-AAGGCACATCA
* * * * * * *
9613 TTTACAACATAGCTCAAGGCAAGAAGGGTTATCTATCAGCCAAA
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-TCAACCAAA
9657 TTTTTGAGTT
Statistics
Matches: 842, Mismatches: 158, Indels: 72
0.79 0.15 0.07
Matches are distributed among these distances:
79 1 0.00
80 150 0.18
81 176 0.21
82 6 0.01
83 45 0.05
84 336 0.40
85 125 0.15
86 3 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (83 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCAACCAAAGACCTTCGAGTTCGACTACACT
CAGCTCCAAGGCACATCA
Found at i:9016 original size:249 final size:245
Alignment explanation
Indices: 8578--9646 Score: 1080
Period size: 249 Copynumber: 4.3 Consensus size: 245
8568 TCTGCCAACA
* * * ** * * * *
8578 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACAAT-ATTTGCAGCATAGCTTAAGTC
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCAC-ATCATTTATAACATAACTCAAGGC
* * * * * * ** * *
8641 GAGAAGGGCTATCTTCCA-ACC-AAAGACCTTCGACTTCGATTACACTCAGCTTTGAGGGCATAT
65 TAGAAGGGTTATC-T-GAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACAT
* * *
8704 CATTTGTAGCATAACTCAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTAC
127 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--T--ACCAAAGACCCTCGAGTTTGACTAC
* *
8769 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
188 ACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * *
8827 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTATAACATAACTCAATGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
* * *
8892 AGAATGGTTATCTGAGACCAAAAGACATTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
66 AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
8957 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACACTC
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATC-T---ACCAAAGACCCTCGAGTTTGACTACACTC
* * *
9022 AGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGATGGGCTATTTGCC
192 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * * *
9076 AAAGACCCTTGAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTATAGCATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
* *
9141 AGAAGGGTTAT-TGTGACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATT
66 AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * *
9205 TGCAACACAACTTAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCT
131 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGACTACACTCAGCT
* * * * * * * * * * *
9270 -TAGAGGGCATATCATTTACAACATAACTCAAGGCTATATGGGTTATCTGTCACC
196 CCA-A-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CC
* * ** * * ** * **
9324 AAAAGACCTTCGAGTTCGACTATGCTCAGCTTC-AAGGCATATCATTTGTTGCATAACTTAAGTA
1 -AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGC
* * * *
9388 GAGAAGGGTTATCTGCCA-ATC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATC
65 TAGAAGGGTTATCTG--AGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
9451 ATTTGCAGTATAGCTTAAGTCGAGAA-GGTCTATCTGCCAAAGACCCTCGAGTTTGATTACACTC
128 ATTTGCAGCATAACTTAAGTCGAGAAGGGT-TATCTACCAAAGACCCTCGAGTTTGACTACACTC
* * * *
9515 AGCTCAAAGACACCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCT
192 AGCTCCAAGGCA-CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
* * * * * * *
9570 AAAGACCTTCGAGTTTGATTCCACTCAGC-CCAAAGGCACATCATTTACAACATAGCTCAAGGCA
1 AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
9634 AGAAGGGTTATCT
66 AGAAGGGTTATCT
9647 ATCAGCCAAA
Statistics
Matches: 690, Mismatches: 112, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
243 1 0.00
244 32 0.05
245 94 0.14
246 1 0.00
247 1 0.00
248 120 0.17
249 381 0.55
250 60 0.09
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (245 bp):
AAAGACCCTCGAGTTCGATTACACTCAGCTTCAAAGGCACATCATTTATAACATAACTCAAGGCT
AGAAGGGTTATCTGAGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTCGAGTTTGACTACACTCAGCT
CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC
Found at i:9189 original size:164 final size:163
Alignment explanation
Indices: 8578--9646 Score: 892
Period size: 165 Copynumber: 6.5 Consensus size: 163
8568 TCTGCCAACA
* * * * * * * *
8578 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACAAT-ATTTGCAGCATAGCTTAAGTCG
1 AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCAC-ATCATTTACAGCATAACTCAAGGCG
* * * * ** * *
8642 AGAAGGGCTATCT-TCCAACCAAAGACCTTCGACTTCGATTACACTCAGCTTTGAGGGCATATCA
65 AGAAGGGTTATCTGT--GACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCA
* * * *
8706 TTTGTAGCATAACTCAAGTCGAGAAGGGTTATCTGTCAACC
127 TTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTG----CC
* * * * * *
8747 AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
* * * *
8812 GAAGGGTTATC--TG-CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
66 GAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTT
** * * * * *
8874 ATAACATAACTCAA-TGCTAGAATGGTTATCTGAGACC
130 GCAGCATAACTTAAGT-CAAGAAGGGCTATCT--G-CC
* * * * * * * *
8911 AAAAGACATTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCG
* * *
8976 AGAAGGGTTATCT-TCCAACCAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCATATCAT
65 AGAAGGGTTATCTGT--GACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* * * *
9040 TTGCAGCATAGCTTAAGTCGAGATGGGCTATTTGCC
128 TTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCC
** * *
9076 AAAGACCCTT-GAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTATAGCATAACTCAAGGC
1 AAAGA-CCTTCGAGTTTGATTACACTCAGCTCCAA-GGCACATCATTTACAGCATAACTCAAGGC
* * *
9140 TAGAAGGGTTAT-TGTGACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCAT
64 GAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* * *
9204 TTGCAACACAACTTAAGTCAAGAAGGGATATCTGCC
128 TTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCC
* * * *
9240 AAAGACCCTCGAGTTTGATTACACTCAGCT-TAGAGGGCATATCATTTACAACATAACTCAAGGC
1 AAAGACCTTCGAGTTTGATTACACTCAGCTCCA-A-GGCACATCATTTACAGCATAACTCAAGGC
* * * * ** * *
9304 TATATGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTATGCTCAGCTTCAAGGCATATCAT
64 GAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
** *
9369 TTGTTGCATAACTTAAGT-AGAGAAGGGTTATCTGCCAATC
128 TTGCAGCATAACTTAAGTCA-AGAAGGGCTATCTG-C---C
* * * * * * * *
9409 AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGACACATCATTTGCAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
* * * * *
9474 GAA-GGTCTATC--TG-CCAAAGACCCTCGAGTTTGATTACACTCAGCTCAAAGACACCATCATT
66 GAAGGGT-TATCTGTGACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-CATCATT
* *
9535 TGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCT
129 TGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCC
* * * *
9570 AAAGACCTTCGAGTTTGATTCCACTCAGC-CCAAAGGCACATCATTTACAACATAGCTCAAGGCA
1 AAAGACCTTCGAGTTTGATTACACTCAGCTCC-AAGGCACATCATTTACAGCATAACTCAAGGCG
9634 AGAAGGGTTATCT
65 AGAAGGGTTATCT
9647 ATCAGCCAAA
Statistics
Matches: 756, Mismatches: 115, Indels: 65
0.81 0.12 0.07
Matches are distributed among these distances:
160 2 0.00
161 59 0.08
162 3 0.00
163 7 0.01
164 192 0.25
165 292 0.39
166 5 0.01
167 4 0.01
168 63 0.08
169 128 0.17
170 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (163 bp):
AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
GAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
CAGCATAACTTAAGTCAAGAAGGGCTATCTGCC
Found at i:9316 original size:413 final size:412
Alignment explanation
Indices: 8537--9646 Score: 1469
Period size: 413 Copynumber: 2.7 Consensus size: 412
8527 AAAAGAATTG
* * * * * * *
8537 TTTGCAACATAACTCAAGGCTAGAATGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* *
8602 TCAGCTCAAAGGCACAAT-ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAACCAAAG
66 TCAGCTCCAAGGCA-AATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT-TT---GCCAAAG
* ** * *
8666 A-CCTTCGACTTCGATTACACTCAGCTTTGAGGGCATATCATTTGTAGCATAACTCAAGTCGAGA
126 ACCCTT-GAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGA
*
8730 AGGGTTATCTGTCAACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGC
190 AGGGTTAT-TGT-GACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGC
* * *
8795 AGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCG
253 AACATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTAG
* * *
8860 AGGGCACATCATTTATAACATAACTCAATGCTAGAATGGTTATCTGAGACCAAAAGACATTCGAG
318 AGGGCACATCATTTACAACATAACTCAAGGCTAGAATGGTTATCTGACACCAAAAGACATTCGAG
8925 TTCGACTACGCTCAGCTCCAAGGCATATCA
383 TTCGACTACGCTCAGCTCCAAGGCATATCA
* *
8955 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTTGACTACAC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* *
9020 TCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGATGGGCTATTTGCCAAAGACCCT
66 TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
* * * *
9085 TGAGTTCAATTACACTCAGCTTCAAGGGCACATCATTTATAGCATAACTCAAGGCTAGAAGGGTT
131 TGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGAAGGGTT
** * *
9150 ATTGTGACCAAAAGACCTTCGAGTTCAACTACGCTCAGCTCCAAGGCACATCATTTGCAACACAA
196 ATTGTGACC-AAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAG
* * *
9215 CTTAAGTCAAGAAGGGATATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTAGAGGGCAT
260 CTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTAGAGGGCAC
* * *
9280 ATCATTTACAACATAACTCAAGGCTA-TATGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGAC
325 ATCATTTACAACATAACTCAAGGCTAGAAT-GGTTATCTGACACCAAAAGACATTCGAGTTCGAC
* *
9344 TATGCTCAGCTTCAAGGCATATCA
389 TACGCTCAGCTCCAAGGCATATCA
** * *
9368 TTTGTTGCATAACTTAAGTAGAGAAGGGTTATCTGCCAATCAAAGACCTTCGAGTTTGACTACGC
1 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
* * * * *
9433 TCAGCTCCAAGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGTCTATCTGCCAAAGACCCT
66 TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
* * * * * * * *
9498 CGAGTTTGATTACACTCAGC-TCAAAGACACCATCATTTGCAGCATAGCTTAAGTCAAGAAGGGC
131 TGAGTTCGATTACACTCAGCTTCAAGGGCA-CATCATTTGTAGCATAACTCAAGTCAAGAAGGGT
* * * * * *
9562 TA-TCTG-CTAAAGACCTTCGAGTTTGATTCCACTCAGC-CCAAAGGCACATCATTTACAACATA
195 TATTGTGACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCC-AAGGCACATCATTTGCAACATA
* *
9624 GCTCAAGGCAAGAAGGGTTATCT
259 GCTTAAGTCAAGAAGGGTTATCT
9647 ATCAGCCAAA
Statistics
Matches: 609, Mismatches: 77, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
409 2 0.00
410 63 0.10
411 1 0.00
412 15 0.02
413 354 0.58
414 65 0.11
415 4 0.01
417 4 0.01
418 101 0.17
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (412 bp):
TTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACGC
TCAGCTCCAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCCT
TGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTGTAGCATAACTCAAGTCAAGAAGGGTT
ATTGTGACCAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGC
TTAAGTCAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTAGAGGGCACA
TCATTTACAACATAACTCAAGGCTAGAATGGTTATCTGACACCAAAAGACATTCGAGTTCGACTA
CGCTCAGCTCCAAGGCATATCA
Found at i:11074 original size:3 final size:3
Alignment explanation
Indices: 11061--11106 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
11051 AGGTTAGACA
*
11061 ATT AAT ATT ATT ATT -TCT ATT ATT -TT ATT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
11104 ATT
1 ATT
11107 TAATTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 5 0.14
3 31 0.84
4 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11796 original size:176 final size:177
Alignment explanation
Indices: 11502--11855 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 177
11492 TCGAAAGATG
*
11502 CAGTCGACGTCAATCATTTTAGGATAGATATGATTAGATATCTTTAAACTCGGTTTGTGTCTAAC
1 CAGTCGACGCCAATCATTTTAGGATAGATATGATTAGATATCTTTAAACTCGGTTTGTGTCTAAC
*
11567 ACCATGATTGTAGTTGAGCTCGAGAGTTGATTATGCTGTGTTGACTCTAACACGTTACAGGGA-A
66 ACCATGATTGTAGTTGAGCTCGAGAGTCGATTATGCTGTGTTGACTCTAACACGTTACAGGGACA
11631 TTGGATTTTCACACTCTGAAACAAGAACTGTGTTAAAATAGACATAT
131 TTGGATTTTCACACTCTGAAACAAGAACTGTGTTAAAATAGACATAT
11678 CAGTCGACGCCAATCATTTTAGGATAGATATGATTAGATATCTTTAAACTCGGTTTGTGTCTAAC
1 CAGTCGACGCCAATCATTTTAGGATAGATATGATTAGATATCTTTAAACTCGGTTTGTGTCTAAC
* *
11743 ACCATGATTGTAGTTGAGTTCGAGAGTCGATTATGCTGTGTTGACTCTAACACGTTACAGTGACA
66 ACCATGATTGTAGTTGAGCTCGAGAGTCGATTATGCTGTGTTGACTCTAACACGTTACAGGGACA
11808 TTGGATTTTCACACTCTGAAACAAGAACTGTGTTAAAATAGACATAT
131 TTGGATTTTCACACTCTGAAACAAGAACTGTGTTAAAATAGACATAT
11855 C
1 C
11856 TTGAGTTTCC
Statistics
Matches: 173, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
176 124 0.72
177 49 0.28
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (177 bp):
CAGTCGACGCCAATCATTTTAGGATAGATATGATTAGATATCTTTAAACTCGGTTTGTGTCTAAC
ACCATGATTGTAGTTGAGCTCGAGAGTCGATTATGCTGTGTTGACTCTAACACGTTACAGGGACA
TTGGATTTTCACACTCTGAAACAAGAACTGTGTTAAAATAGACATAT
Found at i:17283 original size:16 final size:16
Alignment explanation
Indices: 17262--17300 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
17252 CATTTAATAA
17262 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
17278 ATAAACAAACACGAAC
1 ATAAACGAACACGAAC
17294 ATAAACG
1 ATAAACG
17301 TTGGAGACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.59, C:0.23, G:0.10, T:0.08
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:18405 original size:10 final size:10
Alignment explanation
Indices: 18390--18437 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
18380 ATAAATGAAT
18390 GAACATAAAC
1 GAACATAAAC
18400 GAACATAACCGAAC
1 GAACAT-A---AAC
18414 GAACATAAAC
1 GAACATAAAC
*
18424 GAACATAACC
1 GAACATAAAC
18434 GAAC
1 GAAC
18438 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:18414 original size:14 final size:14
Alignment explanation
Indices: 18397--18438 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
18387 AATGAACATA
18397 AACGAACATAACCG
1 AACGAACATAACCG
18411 AACGAACAT-A---
1 AACGAACATAACCG
18421 AACGAACATAACCG
1 AACGAACATAACCG
18435 AACG
1 AACG
18439 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:18417 original size:24 final size:24
Alignment explanation
Indices: 18390--18438 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
18380 ATAAATGAAT
18390 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
18414 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
18438 G
1 G
18439 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:25369 original size:32 final size:32
Alignment explanation
Indices: 25319--25389 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
25309 TCTCATGATT
**
25319 TACCCAAATGAGTATCTTGGGGCCT-GAGAGCC
1 TACCCAAAAAAGTATCTTGGGGCCTCG-GAGCC
*
25351 TACCCAAAAAAGTTTCTTGGGGCCTCGGAGCC
1 TACCCAAAAAAGTATCTTGGGGCCTCGGAGCC
*
25383 AACCCAA
1 TACCCAA
25390 GGGTTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (32 bp):
TACCCAAAAAAGTATCTTGGGGCCTCGGAGCC
Found at i:27517 original size:30 final size:30
Alignment explanation
Indices: 27483--27543 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
27473 TTCGATATAA
*
27483 CAAATTAAGTTAAA-TGGATTTTAAGATTTT
1 CAAATTAAGTTAAAGT-AATTTTAAGATTTT
27513 CAAATTAAGTTAAAGTAATTTTAAGATTTT
1 CAAATTAAGTTAAAGTAATTTTAAGATTTT
27543 C
1 C
27544 CAAACGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (30 bp):
CAAATTAAGTTAAAGTAATTTTAAGATTTT
Found at i:33625 original size:20 final size:21
Alignment explanation
Indices: 33602--33684 Score: 87
Period size: 21 Copynumber: 3.9 Consensus size: 21
33592 TTGGTGCAGA
*
33602 GGGAATCGATTCCCCCCTGA-
1 GGGAACCGATTCCCCCCTGAG
*
33622 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC-CTG-AG
**
33645 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCTGAG
* *
33666 GGGAATCGATACCCCCCTG
1 GGGAACCGATTCCCCCCTG
33685 GGGTTCTGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 15 0.29
21 19 0.37
22 1 0.02
23 16 0.31
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCTGAG
Found at i:36105 original size:30 final size:30
Alignment explanation
Indices: 36071--36131 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
36061 TTCGATATAA
*
36071 CAAATTAAGTTAAA-TGGATTTTAAGATTTT
1 CAAATTAAGTTAAAGT-AATTTTAAGATTTT
36101 CAAATTAAGTTAAAGTAATTTTAAGATTTT
1 CAAATTAAGTTAAAGTAATTTTAAGATTTT
36131 C
1 C
36132 CAAACGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (30 bp):
CAAATTAAGTTAAAGTAATTTTAAGATTTT
Found at i:37247 original size:15 final size:14
Alignment explanation
Indices: 37209--37249 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37199 GTCAAAGTTA
37209 ACGGGTTGACTCAG
1 ACGGGTTGACTCAG
*
37223 ACGAGTTGACTCAG
1 ACGGGTTGACTCAG
*
37237 TTCGGGTTGACTC
1 -ACGGGTTGACTC
37250 GGTCAGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (14 bp):
ACGGGTTGACTCAG
Found at i:42367 original size:24 final size:24
Alignment explanation
Indices: 42333--42380 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
42323 CGTCTTCTTG
*
42333 ATGATGCATAAAACATTTATGTAC
1 ATGATGCATAAAACATCTATGTAC
*
42357 ATGATGTATAAAACATCTATGTAC
1 ATGATGCATAAAACATCTATGTAC
42381 CATGTCATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGCATAAAACATCTATGTAC
Found at i:45161 original size:81 final size:81
Alignment explanation
Indices: 44813--45383 Score: 808
Period size: 81 Copynumber: 7.1 Consensus size: 81
44803 AAGCATTTAG
* * * * * * *
44813 TCTTTTACCCAAAGGCATTTATA-CTTTCATCTACCTTGCATGATTGACACCTTTCTGCCAAATA
1 TCTTTTACTCAAAGGTATTTA-ACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
*
44877 CACAACTAGGCTATTAA
65 CACAACTAGGCCATTAA
* * * *
44894 TCTTTTACTC-AAGGTATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* *
44958 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * *
44974 TCTTTTACTCAAAGGTATTTAACC-TTCATCTGACTGGCATAATTGACACATTTCTGTCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
45038 ACACCTA-GCCATTAA
66 ACAACTAGGCCATTAA
* *
45053 TCTTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATCGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
45118 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * * *
45134 TATTTTACTCAAATGTATTTAACCTTTCATCTAACTGTCATAATTAACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
45199 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
*
45215 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
45280 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * **
45296 TCTTTTACTCAAAGGTATTTAACCTTTCGTCTAACTGGAATAATTAACACCTTTCTAACAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
45361 ACAACTATGCCATTAA
66 ACAACTAGGCCATTAA
45377 TCTTTTA
1 TCTTTTA
45384 TTTTATAATA
Statistics
Matches: 446, Mismatches: 40, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
79 32 0.07
80 152 0.34
81 262 0.59
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGGCCATTAA
Found at i:45479 original size:33 final size:33
Alignment explanation
Indices: 45401--45466 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
45391 ATAGTTTCTA
* *
45401 CTCTAATAATTATTCATAATATTAATTAACTCT
1 CTCTAACAATTATTCATAATATCAATTAACTCT
45434 CTCTAACAATTATTCATAATATCAATTAACTCT
1 CTCTAACAATTATTCATAATATCAATTAACTCT
45467 TTCAATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (33 bp):
CTCTAACAATTATTCATAATATCAATTAACTCT
Found at i:45788 original size:20 final size:20
Alignment explanation
Indices: 45694--46062 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
45684 GATTTTCCAT
* ** *
45694 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
45714 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
45734 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
45754 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
45774 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
45794 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
45814 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
45834 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
45854 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
45874 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
45894 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
45914 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
45934 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
45954 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
45974 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
45994 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
46014 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
46034 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
46054 AATCACAAC
1 AATCGCAAC
46063 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:46975 original size:12 final size:12
Alignment explanation
Indices: 46958--46982 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46948 ATATAATCCT
46958 GAAGAAGAAAAA
1 GAAGAAGAAAAA
46970 GAAGAAGAAAAA
1 GAAGAAGAAAAA
46982 G
1 G
46983 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:49310 original size:33 final size:32
Alignment explanation
Indices: 49255--49552 Score: 195
Period size: 33 Copynumber: 8.8 Consensus size: 32
49245 CGGAAAATAC
* *
49255 AATCGCAACGCGAAATGAAAATCCCAACATGAA
1 AATCGCAATGCGAAATG-AAATCGCAACATGAA
*
49288 AATCGCAATGCGGAAATGAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAATCGCAAC-ATGAA
49321 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCGCAA--C---ATGAA
* * *
49359 AATCGCAACGAGAGAATCGCAAT-GCGAA-ATGAA
1 AATCGCAATGCGA-AAT-GAAATCGC-AACATGAA
49392 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCGCAA--C---ATGAA
* * *
49429 AATCGCAACGAC-AGAATCGCAATACG-AA-AT-TA
1 AATCGCAATG-CGA-AAT-GAAAT-CGCAACATGAA
49461 AATCGCAATGCGAAATGAAAATCGCAAC--GAAA
1 AATCGCAATGCGAAATG-AAATCGCAACATG-AA
49493 GAATCGCAATGCGAAATGAAAATCGCAAC--GAAA
1 -AATCGCAATGCGAAATG-AAATCGCAACATG-AA
49526 GAATCGCAATGCGAAATGAAATCGCAA
1 -AATCGCAATGCGAAATGAAATCGCAA
49553 TGCGAAATGA
Statistics
Matches: 219, Mismatches: 17, Indels: 59
0.74 0.06 0.20
Matches are distributed among these distances:
30 3 0.01
31 15 0.07
32 32 0.15
33 109 0.50
34 7 0.03
35 1 0.00
37 16 0.07
38 19 0.09
39 14 0.06
40 3 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAATCGCAACATGAA
Found at i:49448 original size:51 final size:49
Alignment explanation
Indices: 49255--49573 Score: 277
Period size: 51 Copynumber: 6.2 Consensus size: 49
49245 CGGAAAATAC
*
49255 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG-A
1 AATCGCAACGCGAAATG-AAATCGCAAC--GAAAATCGCAATGC-GAAATGAA
* * * *
49307 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
* * * *
49359 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAACGCGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
* * *
49410 AATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATACGAAAT-TA
1 AATCGCAACGCGAAATG-AAATCGCAACGA-A-AATCGCAATGCGAAATGAA
*
49461 AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATG-AAATCGCAACG-AA-AATCGCAATGCGAAATGAA
** * * *
49513 AATCGCAACGAAAGAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAACGCGA-AAT-GAAAT-CGCAACGAAAATCGCAATGCGAAATGAA
49564 AATCGCAACG
1 AATCGCAACG
49574 AGATAATCGC
Statistics
Matches: 235, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
49 7 0.03
50 7 0.03
51 109 0.46
52 90 0.38
53 12 0.05
54 10 0.04
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.14
Consensus pattern (49 bp):
AATCGCAACGCGAAATGAAATCGCAACGAAAATCGCAATGCGAAATGAA
Found at i:49512 original size:84 final size:83
Alignment explanation
Indices: 49287--49593 Score: 415
Period size: 84 Copynumber: 3.6 Consensus size: 83
49277 CCCAACATGA
*
49287 AAATCGCAATGCGGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGC
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAA--C
*
49351 GAAATGAAAATCGC-A-ACGAGA-
63 GAAA-G--AATCGCAATACGAAAT
*
49372 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAA
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAAAATCGCAA
*
49437 CGACAGAATCGCAATACGAAATT
62 CGAAAGAATCGCAATACGAAA-T
49460 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACGAA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACGAA
*
49525 AGAATCGCAATGCGAAAT
66 AGAATCGCAATACGAAAT
* *
49543 GAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
49594 TATAAACGCA
Statistics
Matches: 203, Mismatches: 9, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
83 1 0.00
84 106 0.52
85 22 0.11
86 11 0.05
87 8 0.04
88 28 0.14
89 27 0.13
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (83 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAACGAA
AGAATCGCAATACGAAAT
Found at i:49574 original size:51 final size:51
Alignment explanation
Indices: 49287--49593 Score: 357
Period size: 51 Copynumber: 6.0 Consensus size: 51
49277 CCCAACATGA
*
49287 AAATCGCAATGCGGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATG
1 AAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATG
*
49338 AAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATG
1 -AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATG
*
49390 AAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G
1 -AAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATG
* *
49443 -AATCGCAATACGAAAT-TAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G
1 AAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATG
49494 -AATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATG
* *
49544 AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAAT
49594 TATAAACGCA
Statistics
Matches: 235, Mismatches: 8, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
47 8 0.03
49 6 0.03
50 6 0.03
51 125 0.53
52 72 0.31
53 5 0.02
54 5 0.02
56 8 0.03
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (51 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATG
Found at i:49584 original size:33 final size:34
Alignment explanation
Indices: 49340--49593 Score: 203
Period size: 33 Copynumber: 7.5 Consensus size: 34
49330 GCGAAATGAA
*
49340 AATCGCAATGCGAAATGAAAATCGCAA-CGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAAGCGAGAT
*
49373 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAGAT
* *
49408 GAAATCGCAATGCGAAATGAAAATCGCAA-CGACAG
1 --AATCGCAATGCGAAATGAAAATCGCAAGCGAGAT
* * *
49443 AATCGCAATACGAAAT-TAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAT
*
49480 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA-GCG--A-GAT
*
49513 AATCGCAA--CGAAA-G--AATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAA-GCGAGAT
49543 GAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT
1 --AATCGCAATGCGAAATGAAAATCGCAAGCGAGAT
49578 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
49594 TATAAACGCA
Statistics
Matches: 193, Mismatches: 11, Indels: 34
0.81 0.05 0.14
Matches are distributed among these distances:
30 1 0.01
31 1 0.01
32 17 0.09
33 103 0.53
34 7 0.04
35 19 0.10
36 1 0.01
37 44 0.23
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAAGCGAGAT
Found at i:49709 original size:19 final size:19
Alignment explanation
Indices: 49600--49701 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
49590 AAATTATAAA
49600 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
49619 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
49639 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
49655 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
49672 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
49691 CGCATTGCGAT
1 CGCATTGCGAT
49702 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:49827 original size:14 final size:14
Alignment explanation
Indices: 49808--49844 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
49798 CATCAATTAC
49808 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
49822 ACAAATCATCTTTT
1 ACAAATCAACTTTT
49836 ACAAATCAA
1 ACAAATCAA
49845 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:51837 original size:14 final size:14
Alignment explanation
Indices: 51818--51874 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
51808 GCGAAATGAA
*
51818 AATCGCAACGACAG
1 AATCGCAACGAAAG
51832 AATCGCAATACGAAATG
1 AATCGC-A-ACGAAA-G
51849 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
51865 AATCGCAACG
1 AATCGCAACG
51875 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
15 1 0.03
16 6 0.16
17 7 0.19
18 1 0.03
19 6 0.16
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:51846 original size:33 final size:33
Alignment explanation
Indices: 51799--51891 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
51789 GCGAAACCAA
*
51799 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
**
51832 AATCGCAATACGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
51865 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
51892 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:51896 original size:19 final size:19
Alignment explanation
Indices: 51762--51896 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
51752 TAGTTTACTT
* *
51762 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
51782 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
51801 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
51820 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
**
51834 TCGCAATACGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
51853 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
51867 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
51886 TCGCAATGCGA
1 TCGCAACGCGA
51897 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:51914 original size:19 final size:19
Alignment explanation
Indices: 51892--52020 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
51882 AAAATCGCAA
51892 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
51911 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
51925 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
51944 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
51958 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
51977 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
51996 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
52016 TGCGA
1 TGCGA
52021 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:51934 original size:33 final size:33
Alignment explanation
Indices: 51892--51983 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
51882 AAAATCGCAA
51892 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
51925 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
51958 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
51984 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:52210 original size:92 final size:93
Alignment explanation
Indices: 52052--52516 Score: 900
Period size: 92 Copynumber: 5.0 Consensus size: 93
52042 GCAAATTGAA
52052 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
52117 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
52145 ACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
52209 GCAGAATTGGCAGCAACCGAAC-AATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
52236 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
52301 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
52329 ACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
52393 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
52421 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
52486 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
52514 ACT
1 ACT
52517 AAGCAATCTA
Statistics
Matches: 368, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
91 27 0.07
92 220 0.60
93 121 0.33
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:54252 original size:19 final size:18
Alignment explanation
Indices: 54228--54324 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
54218 GCAACGAGAG
54228 ATCGCAACGCGAGATGACA
1 ATCGCAACGCGAGATGA-A
54247 ATCGCAA--CGAGA-G-A
1 ATCGCAACGCGAGATGAA
*
54261 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAGATG-AA
54280 ATCGCAA--CGAGA-G-A
1 ATCGCAACGCGAGATGAA
*
54294 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAGATG-AA
*
54313 ATCGCAATGCGA
1 ATCGCAACGCGA
54325 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.25
16 10 0.16
17 11 0.17
19 27 0.42
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (18 bp):
ATCGCAACGCGAGATGAA
Found at i:54265 original size:14 final size:14
Alignment explanation
Indices: 54214--54302 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
54204 TTGAAATGAA
54214 AATCGCAACGAGAG
1 AATCGCAACGAGAG
54228 -ATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
54244 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
54260 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
54279 AATCGCAACGAGAG
1 AATCGCAACGAGAG
54293 AATCGCAACG
1 AATCGCAACG
54303 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
13 7 0.11
14 20 0.32
15 6 0.10
16 4 0.06
17 7 0.11
18 1 0.02
19 17 0.27
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:54270 original size:33 final size:33
Alignment explanation
Indices: 54206--54319 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
54196 TCTTTTGGTT
54206 GAAATGAAAATCGCAACGAGAG-ATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
54238 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
54271 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
54304 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
54320 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 20 0.26
33 57 0.74
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:54353 original size:19 final size:19
Alignment explanation
Indices: 54320--54364 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
54310 AAAATCGCAA
**
54320 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
54339 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
54358 TGCGATT
1 TGCGATT
54365 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:54539 original size:33 final size:33
Alignment explanation
Indices: 54497--54567 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
54487 AATACTAACT
*
54497 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
54530 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
54563 TGAAA
1 TGAAA
54568 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:54799 original size:22 final size:21
Alignment explanation
Indices: 54748--54801 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
54738 TGGTTGTGAG
**
54748 GGATTTCGCCGGAGATGGGAC
1 GGATTTCTTCGGAGATGGGAC
**
54769 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGAT-GGGAC
54791 GGATTTCTTCG
1 GGATTTCTTCG
54802 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (21 bp):
GGATTTCTTCGGAGATGGGAC
Found at i:54972 original size:20 final size:20
Alignment explanation
Indices: 54947--55139 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
54937 CTTTAAATAT
54947 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
54967 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
54989 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
55008 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
55028 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
55048 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
55068 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
55088 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
55108 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
55128 CGCGTTGCGATT
1 CGCGTTGCGATT
55140 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:55134 original size:60 final size:60
Alignment explanation
Indices: 54947--55139 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
54937 CTTTAAATAT
**
54947 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
55008 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
55068 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
55128 CGCGTTGCGATT
1 CGCGTTGCGATT
55140 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:55220 original size:20 final size:20
Alignment explanation
Indices: 55195--55246 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
55185 AAGAATCGCG
*
55195 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
55215 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
55235 TTGCGATTCTGG
1 TTGCGATTCTGG
55247 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:59383 original size:14 final size:14
Alignment explanation
Indices: 59359--59392 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59349 AATTTTAAAA
*
59359 AATATTAATTGGAGC
1 AATA-TAATTGGAAC
59374 AATATAATTGGAAC
1 AATATAATTGGAAC
59388 AATAT
1 AATAT
59393 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (14 bp):
AATATAATTGGAAC
Found at i:59877 original size:21 final size:21
Alignment explanation
Indices: 59853--59908 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
59843 AAGCACAAAC
59853 AAAATAATGTTATTAGTTAAA
1 AAAATAATGTTATTAGTTAAA
59874 AAAATAATGTTATTAGTTAAA
1 AAAATAATGTTATTAGTTAAA
* * *
59895 TAATTATTGTTATT
1 AAAATAATGTTATT
59909 TTTTTTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATAATGTTATTAGTTAAA
Found at i:62233 original size:60 final size:60
Alignment explanation
Indices: 62134--62283 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 60
62124 GATGAAGTTG
* * * * * * * **
62134 GGAATGAAATTGGAACATTTAAAAGCTTGAGGACAAATTTAGAAAGATTGTCAAAATTGA
1 GGAATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAAAGAGAGTCAAAATTGA
* ** *
62194 GGAATG-AATCTAGAATATTCAAAAGTTTAAAGACTAATTTAGAATGAGAGTCGTAATTTA
1 GGAATGAAAT-TAGAATATTCAAAAGTTTAAAGACTAATTTAGAAAGAGAGTCAAAATTGA
*
62254 GGGATGAAATTAGAATATTCAAAAGTTTAA
1 GGAATGAAATTAGAATATTCAAAAGTTTAA
62284 GGATCCATTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
59 3 0.04
60 68 0.92
61 3 0.04
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (60 bp):
GGAATGAAATTAGAATATTCAAAAGTTTAAAGACTAATTTAGAAAGAGAGTCAAAATTGA
Found at i:66322 original size:22 final size:22
Alignment explanation
Indices: 66297--66356 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
66287 TTTCGGTTAA
66297 AGTCAAAGTCAACGGTCAGACC
1 AGTCAAAGTCAACGGTCAGACC
* *
66319 AGTCAAAGTCAACTGTCTGACC
1 AGTCAAAGTCAACGGTCAGACC
*
66341 -GATCAAGGTCAACGGT
1 AG-TCAAAGTCAACGGT
66357 TCGAGTTGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 32 0.97
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (22 bp):
AGTCAAAGTCAACGGTCAGACC
Found at i:66520 original size:23 final size:22
Alignment explanation
Indices: 66488--66534 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
66478 CCAAAATTAG
66488 TCCAATATCACCAATAAACCAA
1 TCCAATATCACCAATAAACCAA
*
66510 TCCAACTATCACCAATCAACCAA
1 TCCAA-TATCACCAATAAACCAA
66533 TC
1 TC
66535 GTTAACTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (22 bp):
TCCAATATCACCAATAAACCAA
Found at i:85579 original size:13 final size:13
Alignment explanation
Indices: 85561--85590 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
85551 TAAACAAGAT
85561 GATACTATTTTTA
1 GATACTATTTTTA
85574 GATACTATTTTTA
1 GATACTATTTTTA
85587 GATA
1 GATA
85591 ATATCTCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (13 bp):
GATACTATTTTTA
Found at i:102203 original size:18 final size:19
Alignment explanation
Indices: 102166--102203 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
102156 CATGGAATGT
*
102166 AAGATTATCAGTGTGAATAA
1 AAGATTATCAG-GAGAATAA
102186 AAGATTATCA-GAGAATAA
1 AAGATTATCAGGAGAATAA
102204 GATTACTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (19 bp):
AAGATTATCAGGAGAATAA
Found at i:104353 original size:29 final size:30
Alignment explanation
Indices: 104301--104360 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
104291 AGGCAGAGAT
*
104301 AGAATATTTATTTTAGGGTGTCAAATTTAG
1 AGAAAATTTATTTTAGGGTGTCAAATTTAG
104331 AGAAAATTTATTTT-GGGTGTCAAATTTAG
1 AGAAAATTTATTTTAGGGTGTCAAATTTAG
104360 A
1 A
104361 AGTTGTAGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (30 bp):
AGAAAATTTATTTTAGGGTGTCAAATTTAG
Found at i:108119 original size:3 final size:3
Alignment explanation
Indices: 108111--108145 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
108101 AGGGGTGGGC
108111 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
108146 AAAGAAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:110225 original size:28 final size:27
Alignment explanation
Indices: 110184--110236 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
110174 ATAATTAAAT
110184 TTATCAAACTATTATAAAATGTATTACC
1 TTATCAAACTATTATAAAATG-ATTACC
* * *
110212 TTATTAAATTATTATTAAATGATTA
1 TTATCAAACTATTATAAAATGATTA
110237 TTAAATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (27 bp):
TTATCAAACTATTATAAAATGATTACC
Found at i:110228 original size:11 final size:11
Alignment explanation
Indices: 110212--110243 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
110202 ATGTATTACC
110212 TTATTAAATTA
1 TTATTAAATTA
*
110223 TTATTAAATGA
1 TTATTAAATTA
110234 TTATTAAATT
1 TTATTAAATT
110244 TTGTAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TTATTAAATTA
Found at i:111506 original size:3 final size:3
Alignment explanation
Indices: 111500--111584 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
111490 TTTTTATCCA
*
111500 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
111585 AATATATATT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:111596 original size:11 final size:11
Alignment explanation
Indices: 111580--111609 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
111570 TTATTATTAT
111580 TATTAAATATA
1 TATTAAATATA
111591 TATTAAATATA
1 TATTAAATATA
111602 TA-TAAATA
1 TATTAAATA
111610 ATTAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAAATATA
Found at i:113207 original size:90 final size:88
Alignment explanation
Indices: 113068--113232 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 88
113058 TATTTAGTTT
* * * * * *
113068 TCAATATCAAAGAACAGTACAGTCTTAATACAACTGGATGTCCTGTTCTGGTATTTTAAAATTAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAA-TAA
113133 ACAATATATTTTAAATTAATATTTA
65 ACAA-ATATTTTAAATTAATATTTA
* * * * * *
113158 TCAATATCAAAGAAAAGAACTGTCTTAAGGCACCTAGAAGTTCTTTTCTGATATTTTTAAATAAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAATAAA
*
113223 TAAATATTTT
66 CAAATATTTT
113233 TTATATAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
88 7 0.11
89 6 0.10
90 49 0.79
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (88 bp):
TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTGTTCTGATATTTTAAAATAAA
CAAATATTTTAAATTAATATTTA
Found at i:113743 original size:18 final size:18
Alignment explanation
Indices: 113720--113760 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
113710 TTCTTTCAAA
113720 TTTTTTAT-TACTTATTAT
1 TTTTTTATATA-TTATTAT
113738 TTTTTTATATATTATTAT
1 TTTTTTATATATTATTAT
113756 TTTTT
1 TTTTT
113761 ATTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTATATATTATTAT
Found at i:113768 original size:18 final size:18
Alignment explanation
Indices: 113719--113768 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
113709 TTTCTTTCAA
113719 ATTTTTTA--TTACTTATT
1 ATTTTTTATTTTA-TTATT
*
113736 ATTTTTT-TATATATTATT
1 ATTTTTTAT-TTTATTATT
113754 ATTTTTTATTTTATT
1 ATTTTTTATTTTATT
113769 TATTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.26
18 17 0.63
19 3 0.11
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTTATTTTATTATT
Found at i:115208 original size:15 final size:14
Alignment explanation
Indices: 115183--115224 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
115173 TTTTCATGCA
115183 TACAT-TTGCATTT
1 TACATCTTGCATTT
115196 TACATCCTTGCATTT
1 TACAT-CTTGCATTT
* *
115211 TTCATTTTGCATTT
1 TACATCTTGCATTT
115225 ATACTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 12 0.48
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (14 bp):
TACATCTTGCATTT
Found at i:120866 original size:83 final size:83
Alignment explanation
Indices: 120727--121121 Score: 648
Period size: 83 Copynumber: 4.7 Consensus size: 83
120717 AAACATTAAC
120727 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
120792 AGAATCAATCATTGAATT
66 AGAATCAATCATTGAATT
120810 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
120875 AGAATCAATCATTGAATT
66 AGAATCAATCATTGAATT
*
120893 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
120958 AAAATAAATCATTGAATT
66 AGAATCAATCATTGAATT
* *
120976 TGAAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
*
121041 AGAACCAATCATTGAATT
66 AGAATCAATCATTGAATT
* ** * * *
121059 TGGATGAAT-AAGGATACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTTATCTGGTT
1 TGGAAG-ATGAA-TTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
121122 TGGTAAGAAC
Statistics
Matches: 294, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
83 248 0.84
84 4 0.01
85 42 0.14
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (83 bp):
TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAATCAATCATTGAATT
Found at i:122011 original size:113 final size:113
Alignment explanation
Indices: 121863--122635 Score: 1324
Period size: 113 Copynumber: 6.9 Consensus size: 113
121853 CGAATCCACT
121863 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
121928 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
*
121976 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
122041 ATTCATAATGAGAAGAAGTTGTTCAACCTTTTGCTCAAATCCATCATC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
*
122089 TGATGGATCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
122154 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
122202 TGATGGATCAGCATTTCCAGAAAAAGTTCATAAT--G-AGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
122264 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
*
122312 TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
122377 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
* *
122425 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
122490 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-CTGAATTCATCAAT-
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-AAATCCATC-ATC
* * * * *
122538 TGATGGATTATCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
1 TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * * *
122602 GTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
122636 ATAATTCTAT
Statistics
Matches: 636, Mismatches: 19, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
110 108 0.17
111 1 0.00
112 74 0.12
113 451 0.71
114 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
Found at i:122479 original size:336 final size:338
Alignment explanation
Indices: 121862--122635 Score: 1317
Period size: 336 Copynumber: 2.3 Consensus size: 338
121852 TCGAATCCAC
121862 TTGATGGATCAGCATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCATTTCCAGAAAAAGTTCATAAT-AGAAGAACTCATCTGAAGAAGGAAGAAGA
121927 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCATTT
65 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCATTT
121992 CCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGA
130 CCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGA
122057 AGTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGTATTTCCAGAAAAAGTTCATAA
195 AGTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGTATTTCCAGAAAAAGTTCATAA
122122 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
260 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
122187 -CTCAAATCCATC-A
325 CCT-AAATCCATCAA
122200 TCTGATGGATCAGCATTTCCAGAAAAAGTTCATAAT-G-AGAACTCATCTGAAGAAGGAAGAAGA
1 T-TGATGGATCAGCATTTCCAGAAAAAGTTCATAATAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
122263 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCTTTT
65 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCATTT
*
122328 CCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
130 CCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGA
* *
122393 ATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCT-TTTCCAGAGAAAGTTCATA
195 AGTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAG-TATTTCCAGAAAAAGTTCATA
*
122457 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
259 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
* *
122522 GCCTGAATTCATCAA
324 GCCTAAATCCATCAA
* * * * *
122537 TTGATGGATTATCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
1 TTGATGGATCAGCATTTCCAGAAAAAGTTCATAAT-AGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * *
122601 AGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
122636 ATAATTCTAT
Statistics
Matches: 413, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
335 12 0.03
336 303 0.73
337 7 0.02
338 57 0.14
339 34 0.08
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (338 bp):
TTGATGGATCAGCATTTCCAGAAAAAGTTCATAATAGAAGAACTCATCTGAAGAAGGAAGAAGAA
ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGCATTTC
CAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
GTTGTTCAACCTTTTGCTCAAATCCATCATCTGATGGATCAGTATTTCCAGAAAAAGTTCATAAT
GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
CTAAATCCATCAA
Found at i:122961 original size:3 final size:3
Alignment explanation
Indices: 122955--123049 Score: 154
Period size: 3 Copynumber: 31.7 Consensus size: 3
122945 TTTTTATCCA
* * *
122955 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
123003 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
123050 AATATATATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:122966 original size:9 final size:9
Alignment explanation
Indices: 122954--123061 Score: 90
Period size: 9 Copynumber: 11.1 Consensus size: 9
122944 TTTTTTATCC
122954 ATATTATTA
1 ATATTATTA
122963 ATATTATTA
1 ATATTATTA
122972 TTATTATTATTA
1 --A-TATTATTA
*
122984 TTATTATTA
1 ATATTATTA
*
122993 CTATTATTA
1 ATATTATTA
*
123002 CTATTATTA
1 ATATTATTA
*
123011 TTATTATTA
1 ATATTATTA
*
123020 TTATTATTA
1 ATATTATTA
123029 TCATTATTATTA
1 --A-TATTATTA
*
123041 TTATTATTAA
1 ATATTATT-A
123051 ATATATATTA
1 ATAT-TATTA
123061 A
1 A
123062 ATATATATAA
Statistics
Matches: 85, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
9 58 0.68
10 6 0.07
11 5 0.06
12 16 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATTATTA
Found at i:123061 original size:11 final size:11
Alignment explanation
Indices: 123045--123074 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
123035 TTATTATTAT
123045 TATTAAATATA
1 TATTAAATATA
123056 TATTAAATATA
1 TATTAAATATA
123067 TA-TAAATA
1 TATTAAATA
123075 ATTAATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATTAAATATA
Found at i:124674 original size:90 final size:88
Alignment explanation
Indices: 124535--124699 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 88
124525 TATTTAGTTT
* * * * * *
124535 TCAATATCAAAGAACAGTACAGTCTTAATACAACTGGATGTCATGTTCTGGTATTTTAAAATTAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCATGTTCTGATATTTTAAAA-TAA
124600 ACAATATATTTTAAATTAATATTTA
65 ACAA-ATATTTTAAATTAATATTTA
* * * * * *
124625 TCAATATCAAAGAAAAGAACTGTCTTAAGGCACCTAGAAGTTATTTTCTGATATTTTTAAATAAA
1 TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCATGTTCTGATATTTTAAAATAAA
*
124690 TAAATATTTT
66 CAAATATTTT
124700 TTATATAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
88 7 0.11
89 6 0.10
90 49 0.79
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (88 bp):
TCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCATGTTCTGATATTTTAAAATAAA
CAAATATTTTAAATTAATATTTA
Found at i:126227 original size:24 final size:24
Alignment explanation
Indices: 126200--126408 Score: 165
Period size: 24 Copynumber: 8.7 Consensus size: 24
126190 ATGAGGTTGG
*
126200 AGACTCATTCCGAGATGGGATTGA
1 AGACTCGTTCCGAGATGGGATTGA
* *
126224 AGACTCATTCCTAGATGAGG-TTGA
1 AGACTCGTTCCGAGATG-GGATTGA
* *
126248 AGACTTGTTCCTAGAT-GGAGTTGA
1 AGACTCGTTCCGAGATGGGA-TTGA
* *
126272 AGACTCGTTCCAAGATGGGGTTGA
1 AGACTCGTTCCGAGATGGGATTGA
* * * *
126296 ATACTCGGTCAGAGATGGGGTTGA
1 AGACTCGTTCCGAGATGGGATTGA
* * *
126320 AGACTCGGTCGGAGATGGGGTTGA
1 AGACTCGTTCCGAGATGGGATTGA
* *
126344 AGTA-TCGGTCGGAGATGAGG-TTGA
1 AG-ACTCGTTCCGAGATG-GGATTGA
** *
126368 AGACTCGACCCGAGATGGGATCGA
1 AGACTCGTTCCGAGATGGGATTGA
* *
126392 AGACTCATTCCTAGATG
1 AGACTCGTTCCGAGATG
126409 CGGTGAAGAG
Statistics
Matches: 157, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
22 2 0.01
23 3 0.02
24 145 0.92
25 7 0.04
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (24 bp):
AGACTCGTTCCGAGATGGGATTGA
Found at i:126277 original size:72 final size:72
Alignment explanation
Indices: 126186--126324 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 72
126176 CGAACTTTTA
* * * **
126186 CTAGATGAGGTTGGAGACTCATTCCGAGATGGGATTGAAGACTCATTCCTAGATGAGGTTGAAGA
1 CTAGATGAGGTTGAAGACTCATTCCAAGATGGGATTGAAGACTCAGTCAGAGATGAGGTTGAAGA
126251 CTTGTTC
66 CTTGTTC
* * * * *
126258 CTAGATG-GAGTTGAAGACTCGTTCCAAGATGGGGTTGAATACTCGGTCAGAGATGGGGTTGAAG
1 CTAGATGAG-GTTGAAGACTCATTCCAAGATGGGATTGAAGACTCAGTCAGAGATGAGGTTGAAG
126322 ACT
65 ACT
126325 CGGTCGGAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 1 0.02
72 55 0.98
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (72 bp):
CTAGATGAGGTTGAAGACTCATTCCAAGATGGGATTGAAGACTCAGTCAGAGATGAGGTTGAAGA
CTTGTTC
Found at i:128742 original size:28 final size:28
Alignment explanation
Indices: 128709--128763 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
128699 ATTTAAGAAC
128709 AAGATTGAAAGGAATCATGGATTAACTA
1 AAGATTGAAAGGAATCATGGATTAACTA
128737 AAGATTGAAAGGAATCATGGATTAACT
1 AAGATTGAAAGGAATCATGGATTAACT
128764 CAAGTTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.25
Consensus pattern (28 bp):
AAGATTGAAAGGAATCATGGATTAACTA
Found at i:132238 original size:60 final size:61
Alignment explanation
Indices: 132119--132268 Score: 146
Period size: 60 Copynumber: 2.5 Consensus size: 61
132109 AAGTATGACC
** * ** * * * *
132119 CTAAATTGATCCTTAAACTTTTAG-ATGTTTTAATTTCATCCCTAAACTATGATTGTCATT
1 CTAAATTGATCCCCAAACTTTTTGAACATTTAAATTTAATCCCAAAACTATGACTGTCATT
* **
132179 CT-AATTTAGTCGTCAAAC-TTTTGAACATTTAAATTTAATCCCAAAACTATGACCT-TCATT
1 CTAAATTGA-TCCCCAAACTTTTTGAACATTTAAATTTAATCCCAAAACTATGA-CTGTCATT
132239 CTAAATTGATCCCCAAACTTTTTGAACATT
1 CTAAATTGATCCCCAAACTTTTTGAACATT
132269 CCAATTTTAT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
59 9 0.12
60 46 0.64
61 17 0.24
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (61 bp):
CTAAATTGATCCCCAAACTTTTTGAACATTTAAATTTAATCCCAAAACTATGACTGTCATT
Found at i:132471 original size:60 final size:60
Alignment explanation
Indices: 132402--132555 Score: 154
Period size: 60 Copynumber: 2.6 Consensus size: 60
132392 AAAAGTCTGG
* ** *
132402 GGACCAATTTATAAA-GAGGATCATAATTT-AGGGATGAAATTAGAA-TGTTCGAAAGTTTAA
1 GGACTAATTTA-AAATGAGGATCATAATTTGA-GGATGAAATTAGAACACTT-AAAAGTTTAA
** * *
132462 GGACTAATTTAAAATGAGTCTCATAGTTTGAGTATGAAATTAGAACACTTAAAAGTTTAA
1 GGACTAATTTAAAATGAGGATCATAATTTGAGGATGAAATTAGAACACTTAAAAGTTTAA
**
132522 GGA-TCAATTTAAAATGAGGATCATGGTTTGAGGA
1 GGACT-AATTTAAAATGAGGATCATAATTTGAGGA
132556 CATATGATGC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 4 0.05
60 71 0.91
61 3 0.04
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (60 bp):
GGACTAATTTAAAATGAGGATCATAATTTGAGGATGAAATTAGAACACTTAAAAGTTTAA
Found at i:137692 original size:22 final size:22
Alignment explanation
Indices: 137664--137708 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
137654 TCGTAGTCGA
137664 CTACTTTCGGAGACGATTGAAG
1 CTACTTTCGGAGACGATTGAAG
137686 CTACTTTCGGAGACGATTGAAG
1 CTACTTTCGGAGACGATTGAAG
137708 C
1 C
137709 ATTAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (22 bp):
CTACTTTCGGAGACGATTGAAG
Found at i:140623 original size:632 final size:632
Alignment explanation
Indices: 139182--141084 Score: 3387
Period size: 632 Copynumber: 3.0 Consensus size: 632
139172 TAATCATCAA
* * *
139182 AATAGTCATACCAAAACGACATCATTTTGATGTGGCATGTCACATAAGTAACCGTTAGCCATGTC
1 AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
*
139247 ATCATTATGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
66 ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
139312 TGATTGG-AAAAGTTGAAAGTTCAATGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTG
131 TGATTGGCAAAA-TTGAAAGTTCAATGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTG
* *
139376 ACGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAAATATCATT
195 ACGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAGATACCATT
139441 GAACTTTGAGCGTTGACTCGTTTATACCACCAAACTTTCAATTTTATCAATTTTAGCACTAACTT
260 GAACTTTGAGCGTTGACTCGTTTATACCACCAAACTTTCAATTTTATCAATTTTAGCACTAACTT
* *
139506 TTGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATGGTAGCT
325 TTGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAACT
*
139571 GCACGTTGTGATGTTGCTGACATGGTTGCCTCACCAAAACAACGTCGTTTTGACATAACTATTTT
390 GCACGTTGTGATGTTGCTGACATGGTTGCCTCACTAAAACAACGTCGTTTTGACATAACTATTTT
*
139636 GATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGACGGAGAAAAATATTTTCCATGAAATTCA
455 GATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGA-AAAAATATTTTCCATGAAATTCA
*
139701 AATTAAAGACCTTTATCAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTAT
519 AATTAAAGACCTTTATAAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTAT
* *
139766 ATTTTTAACAGAATGAATATATATGTTAAATAACAGCATGAAATATATG
584 ATTTTTAACATAATGAATATATATGTTAAATAACAGTATGAAATATATG
139815 AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
1 AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
139880 ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
66 ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
*
139945 TGATTGGCAAAATTGAAAGTTCAATGGTATAAACGAGTTAGCGGATAAGGTTCACTGGTATCTGA
131 TGATTGGCAAAATTGAAAGTTCAATGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTGA
*
140010 TGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAGATACCATTG
196 CGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAGATACCATTG
*
140075 AACTTTGAGCGTTGACTCGTTTATACCACCAAACTTTCAATTTTATCAATTTTAGCACTAACGTT
261 AACTTTGAGCGTTGACTCGTTTATACCACCAAACTTTCAATTTTATCAATTTTAGCACTAACTTT
140140 TGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAACTG
326 TGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAACTG
* * *
140205 CACGTTGTGATGTTGCTGACATGGTTGCCTCACTAAAACAACATCATTTTGACATAACTGTTTTG
391 CACGTTGTGATGTTGCTGACATGGTTGCCTCACTAAAACAACGTCGTTTTGACATAACTATTTTG
*
140270 ATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGAAAACATATTTTCCATGAAATTCAAA
456 ATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGAAAAAATATTTTCCATGAAATTCAAA
*
140335 TTAACGACCTTTATAAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTATAT
521 TTAAAGACCTTTATAAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTATAT
140400 TTTTAACATAATGAATATATATGTTAAATAACAGTATGAAATATATG
586 TTTTAACATAATGAATATATATGTTAAATAACAGTATGAAATATATG
140447 AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
1 AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
140512 ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
66 ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
*
140577 TGATTGGCAAAATTGAAAGTTCAGTGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTGA
131 TGATTGGCAAAATTGAAAGTTCAATGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTGA
* * *
140642 CGTAGTTTACCCTTAAAAATAAAAAATATTATTTTAATAAGGGAAATTTACTTTAGATACCATTG
196 CGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAGATACCATTG
*
140707 AACTTTGAGCGTTGATTCGTTTATACCACCAAACGTTT-AATTTTATCAATTTTAGCACTAACTT
261 AACTTTGAGCGTTGACTCGTTTATACCACCAAAC-TTTCAATTTTATCAATTTTAGCACTAACTT
* *
140771 TTACTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAATT
325 TTGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAACT
* * * *
140836 GCACATTTTGATGTTGTTGACATTGTTGCCTCACTAAAACAACGTCGTTTTGACATAACTATTTT
390 GCACGTTGTGATGTTGCTGACATGGTTGCCTCACTAAAACAACGTCGTTTTGACATAACTATTTT
*
140901 GATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGAAAAAATATTTTCCATGAAATTTAA
455 GATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGAAAAAATATTTTCCATGAAATTCAA
* * * *
140966 ATTAAAGACCTTTATAAATCAATTCTAAATACCCAATCACCAAACCAACTTAATAACTTATTATA
520 ATTAAAGACCTTTATAAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTATA
* * *
141031 TTTTTAACATAATGAATATATATATATTAAATAACAGTGTGAAATATATA
585 TTTTTAACATAATG-A-ATATATATGTTAAATAACAGTATGAAATATATG
141081 AATA
1 AATA
141085 ATTAAATGAT
Statistics
Matches: 1218, Mismatches: 48, Indels: 7
0.96 0.04 0.01
Matches are distributed among these distances:
632 702 0.58
633 478 0.39
634 38 0.03
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (632 bp):
AATAGTCATACCAAAACGACGTCATTTTGATGTGGCATGTCACGTAAGTAACCGTTAGCCATGCC
ATCATTCTGTTAGTGACTTAACGGTGGAGTGACATAATTGAATGTAAAACTAAAGTTCAGTGTTA
TGATTGGCAAAATTGAAAGTTCAATGGTATAAACGAGTCAGCGGATAAGGTTCACTGGTATCTGA
CGTAGTTTACCCTAAAAAATAAAAAATATTATTTTAATAAGGGAAAATTACTTCAGATACCATTG
AACTTTGAGCGTTGACTCGTTTATACCACCAAACTTTCAATTTTATCAATTTTAGCACTAACTTT
TGCTTATAAGTGTAATTATACCACTTCGTCGTTAATAATTTAATGATACGATGACATAGTAACTG
CACGTTGTGATGTTGCTGACATGGTTGCCTCACTAAAACAACGTCGTTTTGACATAACTATTTTG
ATGTTTAAAAAGCCTAAAACGATGTAATTTTATTGATGGAAAAAATATTTTCCATGAAATTCAAA
TTAAAGACCTTTATAAACCAATTCTAAATACCCAACCACCAAACTAACTTAAGAACTTATTATAT
TTTTAACATAATGAATATATATGTTAAATAACAGTATGAAATATATG
Found at i:142515 original size:34 final size:35
Alignment explanation
Indices: 142467--142533 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
142457 TATTATTTAT
* *
142467 AATTTTTGTTATTCAACATATGTGAGAATGGGTAG
1 AATTTTTGTTATTCAACAGATGTGAAAATGGGTAG
142502 AATTTTT-TTATTCAACAGATGTGAAAATGGGT
1 AATTTTTGTTATTCAACAGATGTGAAAATGGGT
142534 GTGCTGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (35 bp):
AATTTTTGTTATTCAACAGATGTGAAAATGGGTAG
Found at i:150011 original size:3 final size:3
Alignment explanation
Indices: 150005--150108 Score: 66
Period size: 3 Copynumber: 34.7 Consensus size: 3
149995 AGAAGAGTAC
* * * * * *
150005 GAG GAG GAG GAG GAG GAG GAG GAG GAA GAA GAA GAA TATG G-G GTG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA-G GAG GAG
* * * * * * *
150050 GAG GAG GAG GAG AAG GAA GAA GAA GAG TAT GAG GTG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
*
150098 AAG GAG GAG GA
1 GAG GAG GAG GA
150109 AGAAGAAGGA
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.98
ACGTcount: A:0.39, C:0.00, G:0.55, T:0.06
Consensus pattern (3 bp):
GAG
Found at i:150053 original size:36 final size:36
Alignment explanation
Indices: 149986--150112 Score: 157
Period size: 36 Copynumber: 3.5 Consensus size: 36
149976 TCAATGAAGA
* * *
149986 AGAA-GAAGAAGAAGAGTACGAGGAGGAGGAGGAGG
1 AGAAGGAAGAAGAAGAATATGAGGTGGAGGAGGAGG
*
150021 AGGAGGAGGAAGAAGAAGAATATGGGGTGGAGGAGGAGG
1 A-GA--AGGAAGAAGAAGAATATGAGGTGGAGGAGGAGG
*
150060 AGAAGGAAGAAGAAGAGTATGAGGTGGAGGAGGAGG
1 AGAAGGAAGAAGAAGAATATGAGGTGGAGGAGGAGG
* *
150096 AGAAGGAGGAGGAAGAA
1 AGAAGGAAGAAGAAGAA
150113 GAAGGAGTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
35 1 0.01
36 47 0.59
38 3 0.04
39 28 0.35
ACGTcount: A:0.43, C:0.01, G:0.50, T:0.06
Consensus pattern (36 bp):
AGAAGGAAGAAGAAGAATATGAGGTGGAGGAGGAGG
Found at i:156170 original size:60 final size:59
Alignment explanation
Indices: 156061--156188 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 59
156051 AACATAATGA
* * *
156061 ATAGTCGAGTGACTATTTTGTAACTTTTAATAGTTGAGGGACTACACAAAATAATATCTT
1 ATAGTC-AGTGACTATTTTGTAACTTTTAATAGTAGAGAGACTACACAAAATAATACCTT
* * *
156121 ATAGTCAGTGGATTATTTTTTAACTTTTAATAGTCAGA-AGACT-CAACAAAGTAATACCTT
1 ATAGTCAGT-GACTATTTTGTAACTTTTAATAGT-AGAGAGACTAC-ACAAAATAATACCTT
*
156181 ATAATCAG
1 ATAGTCAG
156189 GGGACCATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 4 0.07
60 52 0.90
61 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (59 bp):
ATAGTCAGTGACTATTTTGTAACTTTTAATAGTAGAGAGACTACACAAAATAATACCTT
Found at i:161180 original size:18 final size:18
Alignment explanation
Indices: 161157--161193 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
161147 CGTTTACTCG
161157 ACTCGAAAAGATTAAATT
1 ACTCGAAAAGATTAAATT
161175 ACTCGAAAAGATTAAATT
1 ACTCGAAAAGATTAAATT
161193 A
1 A
161194 AATTTGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
ACTCGAAAAGATTAAATT
Found at i:161355 original size:16 final size:16
Alignment explanation
Indices: 161330--161363 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
161320 AGACTTAAAG
161330 TACATAAAAACAACTT
1 TACATAAAAACAACTT
*
161346 TACATGAAAACAACTT
1 TACATAAAAACAACTT
161362 TA
1 TA
161364 TATTATGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.03, T:0.26
Consensus pattern (16 bp):
TACATAAAAACAACTT
Found at i:161767 original size:73 final size:73
Alignment explanation
Indices: 161655--161790 Score: 200
Period size: 73 Copynumber: 1.9 Consensus size: 73
161645 GGACCCATTG
** * * * * *
161655 AATTATCATATTTTCGAGTTTTTTAATTAAAAAATTATATTTAAAAATATTTTTTAATGATTAGG
1 AATTATCATATTTTAAAATATTTGAAATAAAAAAATATATTTAAAAATATTTTTTAATGATTAGG
161720 AACCACTA
66 AACCACTA
*
161728 AATTATCATATTTTAAAATATTTGAAATAAAAAAATATATTTAAAAATATTTTTTAATTATTA
1 AATTATCATATTTTAAAATATTTGAAATAAAAAAATATATTTAAAAATATTTTTTAATGATTA
161791 AATTTAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 55 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (73 bp):
AATTATCATATTTTAAAATATTTGAAATAAAAAAATATATTTAAAAATATTTTTTAATGATTAGG
AACCACTA
Found at i:161898 original size:13 final size:13
Alignment explanation
Indices: 161880--161906 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
161870 CCCTGTCTCA
161880 CGTACTTAAATAT
1 CGTACTTAAATAT
161893 CGTACTTAAATAT
1 CGTACTTAAATAT
161906 C
1 C
161907 CTAGATTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (13 bp):
CGTACTTAAATAT
Found at i:166352 original size:22 final size:22
Alignment explanation
Indices: 166311--166385 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 22
166301 AAAATACAGT
166311 ATGAACAGTACCATATGAACAATA
1 ATGAACAGTA-C-TATGAACAATA
*
166335 ATGAACAGTATTATGAACAGA-A
1 ATGAACAGTACTATGAACA-ATA
* *
166357 ATGAACAGTACTATTAACATTA
1 ATGAACAGTACTATGAACAATA
166379 ATGAACA
1 ATGAACA
166386 ATAATGTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 34 0.76
23 1 0.02
24 10 0.22
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (22 bp):
ATGAACAGTACTATGAACAATA
Found at i:166398 original size:44 final size:46
Alignment explanation
Indices: 166311--166398 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 46
166301 AAAATACAGT
* * *
166311 ATGAACAGTACCATATGAACAATAATGAACAGTATTATGAACAGAA
1 ATGAACAGTACCATATGAACAATAATGAACAATAATATCAACAGAA
* * *
166357 ATGAACAGTA-C-TATTAACATTAATGAACAATAATGTCAACAG
1 ATGAACAGTACCATATGAACAATAATGAACAATAATATCAACAG
166399 TACTCAAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 25 0.69
45 1 0.03
46 10 0.28
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (46 bp):
ATGAACAGTACCATATGAACAATAATGAACAATAATATCAACAGAA
Found at i:168106 original size:34 final size:32
Alignment explanation
Indices: 168044--168113 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
168034 CCTTACAAAC
* *
168044 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
168076 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
168110 TCCC
1 TCCC
168114 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:168422 original size:21 final size:21
Alignment explanation
Indices: 168396--168437 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
168386 CCAGAATGGG
*
168396 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
168417 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
168438 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:168567 original size:19 final size:19
Alignment explanation
Indices: 168543--168609 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
168533 GAGCCTCGGG
*
168543 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
*
168562 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* *
168581 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
*
168600 TTACTATTCA
1 TTACTGTTCA
168610 TAAAAACATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:168720 original size:30 final size:31
Alignment explanation
Indices: 168673--168763 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
168663 AAATTTTGAA
168673 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
168702 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
168733 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
168764 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:171717 original size:134 final size:134
Alignment explanation
Indices: 171569--172052 Score: 545
Period size: 131 Copynumber: 3.7 Consensus size: 134
171559 GATATCTGGA
* * *
171569 GGTGACTCGACTCCTACATGATGAGGAGGTCTGGTCAGTGGATGACACGGTTCTTACGTGATGAG
1 GGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAG
* * * * *
171634 GATGATATGCCATCTTTAGGGATGATGATAACTCAGTTCCTACGCGATGAGGATGACTGGTTAGC
66 GACGACATGCCATCTTTAGGGATGATGATAACACAGTTCCTACGTGATGAGGATGACTGGTTATC
*
171699 TAGG
131 TAAG
* * * * * *
171703 GGTGACTCGGCTCCTTCGTGATGAGGAGGTCTGGTTAGTAGATGACACGGTTCCTACGTGATGAA
1 GGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAG
* * **
171768 GACAACAAGCCATCTTTAGGGAT-A--ATAACACAGTTCCTACGTGATGAGGATGGTTGGTTATC
66 GACGACATGCCATCTTTAGGGATGATGATAACACAGTTCCTACGTGATGAGGATGACTGGTTATC
171830 TAAG
131 TAAG
* * * *
171834 GGTGACGCAACTCCTATGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAG
1 GGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAG
* * * *
171899 GATGACA-GACCATCTTTA--GA-GATGATAACAC-GATTCCTACGTGATAAGGATGACTGATAA
66 GACGACATG-CCATCTTTAGGGATGATGATAACACAG-TTCCTACGTGATGAGGATGACTGGTTA
171959 TCTAAG
129 TCTAAG
* * * ** * * *
171965 GGTGACACCG-CTCTTACGTGACGAGGAGATCTGGTTGGTGGATGAAACAGTTCCTACATGATGA
1 GGTGAC-TCGACTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGA
* *
172029 GAACGACATACCATCTTTAGGGAT
65 GGACGACATGCCATCTTTAGGGAT
172053 TTGTTCCTAC
Statistics
Matches: 294, Mismatches: 46, Indels: 20
0.82 0.13 0.06
Matches are distributed among these distances:
129 3 0.01
130 2 0.01
131 208 0.71
132 1 0.00
133 3 0.01
134 77 0.26
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (134 bp):
GGTGACTCGACTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAG
GACGACATGCCATCTTTAGGGATGATGATAACACAGTTCCTACGTGATGAGGATGACTGGTTATC
TAAG
Found at i:172071 original size:41 final size:41
Alignment explanation
Indices: 172014--172098 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
172004 GGATGAAACA
172014 GTTCCTACATGATGAGAACGACATACCATCTTTAGGGATTT
1 GTTCCTACATGATGAGAACGACATACCATCTTTAGGGATTT
*
172055 GTTCCTACATGATGAGAATGACATACCATCTTTAGGGATTT
1 GTTCCTACATGATGAGAACGACATACCATCTTTAGGGATTT
172096 GTT
1 GTT
172099 TCAAGGGAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (41 bp):
GTTCCTACATGATGAGAACGACATACCATCTTTAGGGATTT
Found at i:172526 original size:36 final size:37
Alignment explanation
Indices: 172448--172533 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 37
172438 AATAACTTTG
* * *
172448 AAATTTGTATTTCGAGAGAAAATGTCTTAAGTGAGACA
1 AAATTTGT-TTTCGAGAGAAAATATCTCAAGCGAGACA
*
172486 AAATTTGTTTT-GAGA-AAAATTATCTCAAGCGATACA
1 AAATTTGTTTTCGAGAGAAAA-TATCTCAAGCGAGACA
172522 AAATTTGTTTTC
1 AAATTTGTTTTC
172534 ATAAAAGCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 4 0.10
36 27 0.64
37 3 0.07
38 8 0.19
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
AAATTTGTTTTCGAGAGAAAATATCTCAAGCGAGACA
Found at i:172558 original size:35 final size:36
Alignment explanation
Indices: 172480--172558 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
172470 TGTCTTAAGT
* **
172480 GAGACAAAATTTGTTTTGAGAAAAATTATCTCAAGC
1 GAGACAAAATTTGTTTTCAGAAAAAGCATCTCAAGC
* * * *
172516 GATACAAAATTTGTTTTCA-TAAAAGCGTCTCACGC
1 GAGACAAAATTTGTTTTCAGAAAAAGCATCTCAAGC
172551 GAGACAAA
1 GAGACAAA
172559 TGTTTTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (36 bp):
GAGACAAAATTTGTTTTCAGAAAAAGCATCTCAAGC
Found at i:172866 original size:12 final size:12
Alignment explanation
Indices: 172849--172882 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
172839 TGCAATTTTC
172849 ATGTATATATGT
1 ATGTATATATGT
172861 ATGTAT-TGATGT
1 ATGTATAT-ATGT
172873 ATGTATATAT
1 ATGTATATAT
172883 TGATCTGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGTATATATGT
Found at i:172877 original size:16 final size:16
Alignment explanation
Indices: 172856--172886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
172846 TTCATGTATA
*
172856 TATGTATGTATTGATG
1 TATGTATATATTGATG
172872 TATGTATATATTGAT
1 TATGTATATATTGAT
172887 CTGTGAGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TATGTATATATTGATG
Found at i:174981 original size:739 final size:735
Alignment explanation
Indices: 173554--175397 Score: 3300
Period size: 740 Copynumber: 2.5 Consensus size: 735
173544 TCGGTCTAAA
* *
173554 AATGAGATTTCTGAGTGCTCA-TGTGAGTTGTTCAACTATAACAGATGTTCCTCAACTCCCTTAT
1 AATGAGATTTCTAAGTGCT-AGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTAT
* * * *
173618 TCCATATTCACTGAAACTCATTGTTTAGTAAATTCGAATTAATCTGTCATTGTTTAGCTAGCTGA
65 TCCATATTCACCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGCTAGCTGA
*
173683 ATTCAACTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCA
130 ATTCAGCTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCA
*
173748 TCACAAAGTCTTCAACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAAT
195 TCACAAAGTCTTCGACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAAT
*
173813 GTCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTCTATAACCAATTGC
260 GTCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTC-ATAACCAATTAC
*
173878 TTTAGCGGAATAGCTCAACTTTATTGAATATATATATATATATATTCATTTTTTTGGTATACGAA
324 TTTAGCGGAATAGCTCAGCTTTATTG---A-ATATATATATATATTCATTTTTTTGGTATACGAA
*
173943 TTCCATTTATTAAGCTTACTAAGGAGAAACTGTTATAGTCCATGTTTTTTGAAGGTAAAAAAATC
385 TTCCATTTATTAAGCTTACCAAGGAGAAACTGTTATAGTCCATGTTTTTTGAAGGTAAAAAAATC
174008 TCATCGTTAGAGTTCAATTCCCAAGAAACTGACCTAAACTAGATTCACATATTTGACCATTCTAT
450 TCATCGTTAGAGTTCAATTCCCAAGAAACTGACCTAAACTAGATTCACATATTTGACCATTCTAT
174073 CTGAAAAGATCATGATCAACATTGAATGTCATCAACAGAAGTAAAAACCAATTAGTTTTGCAATC
515 CTGAAAAGATCATGATCAACATTGAATGTCATCAACAGAAGTAAAAACCAATTAGTTTTGCAATC
*
174138 TCATGTGCTAGTTGCCCCATTTTGTTCGTTTAACATACCTGAATACCAAACCCTTGATGGACTCT
580 TCATGTGCTAGTTGCCCCATTTTGTTCGTTTAACATACATGAATACCAAACCCTTGATGGACTCT
174203 TCATGAGAAGAGAAACTAGTTAGGTCTCTGATGAGGGTATGTATTGGTAT-TCTTTAGATTAAGA
645 TCATGAGAAGAGAAACTAGTTAGGTCTCTGATGAGGGTATGTATTGGTATATCTTTAGATTAAGA
*
174267 TCAAGGGGTCCTTGTTTTGCTAGTTG
710 TCAAGGGGTCCTTGTTTTGCTAGCTG
174293 AATGAGATTTCTAAGTGCTAGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTATT
1 AATGAGATTTCTAAGTGCTAGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTATT
174358 CCATATTCACCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGCTAGCTGAA
66 CCATATTCACCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGCTAGCTGAA
174423 TTCAGCTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCAT
131 TTCAGCTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCAT
* * *
174488 CACAAATTCTTCGACTTGACAATCACAGTGGAACAAACACTGAATTGCCAAGTACCCGATCAATG
196 CACAAAGTCTTCGACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAATG
174553 TCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTC-TAACCAATTACTT
261 TCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTCATAACCAATTACTT
* * *
174617 CAGCAGAATAGCTCAGCTTTATTGAATATATATATATATTCATTTTTTTGGTATACGGATTCCAT
326 TAGCGGAATAGCTCAGCTTTATTGAATATATATATATATTCATTTTTTTGGTATACGAATTCCAT
174682 TTATTAAGCTTACCAAGGAGAAACTGTTATAGTCCATGTTTTTTGAAGGTAAAAAAATCTCATCG
391 TTATTAAGCTTACCAAGGAGAAACTGTTATAGTCCATGTTTTTTGAAGGTAAAAAAATCTCATCG
174747 TTAGAGTTCAATTCCCAAGAAACTGACCTAAACTAGATTCACATATTTGACCATTCTATCTGAAA
456 TTAGAGTTCAATTCCCAAGAAACTGACCTAAACTAGATTCACATATTTGACCATTCTATCTGAAA
174812 AGATCATGATCAACATTGAATGTCATCAACAGAAGTAAAAACCAATTAGTTTTGCAATCTCATGT
521 AGATCATGATCAACATTGAATGTCATCAACAGAAGTAAAAACCAATTAGTTTTGCAATCTCATGT
*
174877 GCTAGTTGCCCCATTTTGTTCTTTTAACACATACATGAATACCAAACCCTTGATGGACTCTTCAT
586 GCTAGTTGCCCCATTTTGTTCGTTT-A-ACATACATGAATACCAAACCCTTGATGGACTCTTCAT
174942 GAGAAGAGAAACTAGTTAGGTCTCTGCATGAGAAGGGTATGTATTGGTATATCTTTAGATTAAGA
649 GAGAAGAGAAACTAGTTAGGTCTCTG-AT--G-AGGGTATGTATTGGTATATCTTTAGATTAAGA
175007 TCAAGGGGTCCTTGTTTTGCTAGCTG
710 TCAAGGGGTCCTTGTTTTGCTAGCTG
*
175033 AATGAGATTTCTAAGTGCTCGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTATT
1 AATGAGATTTCTAAGTGCTAGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTATT
* * *
175098 CCATATTCATCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGATAGTTGAA
66 CCATATTCACCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGCTAGCTGAA
* *
175163 TTCAGCTTTATTGTACATATATATTAGAATTTCCTTTGTTAGGCTAACTGAAGGATTCATGTCAT
131 TTCAGCTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCAT
175228 CACAAAGTCTTCGACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAATG
196 CACAAAGTCTTCGACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAATG
175293 TCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTCTATAACCAATTGA-
261 TCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTC-ATAACCAATT-AC
175357 TTTAGCGGAATAGCTCAGCTTTATTGAATATATATATATAT
324 TTTAGCGGAATAGCTCAGCTTTATTGAATATATATATATAT
175398 ATTGTTCACT
Statistics
Matches: 1063, Mismatches: 31, Indels: 19
0.96 0.03 0.02
Matches are distributed among these distances:
733 257 0.24
734 2 0.00
735 62 0.06
736 2 0.00
737 33 0.03
738 2 0.00
739 315 0.30
740 341 0.32
742 48 0.05
743 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (735 bp):
AATGAGATTTCTAAGTGCTAGTGTGAGTTGTTCAACTATAACAGGTGTTCCTCAACTCCCTTATT
CCATATTCACCGAAACTCATTGTTTAGTAAATTCGAATTAATTTGCCATTGTTTGGCTAGCTGAA
TTCAGCTTTATTGTACATATATATTAAAATTGCCTTTGTTAGGCTAACTGAAGGATTCATGTCAT
CACAAAGTCTTCGACTTGACAATCACAGTGGAGCAAACACCGAATTGCCAAGTACCCGATCAATG
TCATGGTTTGAATGTAATATATTCATAAAGCCAGAGCTTTCGTGTTTCCTCATAACCAATTACTT
TAGCGGAATAGCTCAGCTTTATTGAATATATATATATATTCATTTTTTTGGTATACGAATTCCAT
TTATTAAGCTTACCAAGGAGAAACTGTTATAGTCCATGTTTTTTGAAGGTAAAAAAATCTCATCG
TTAGAGTTCAATTCCCAAGAAACTGACCTAAACTAGATTCACATATTTGACCATTCTATCTGAAA
AGATCATGATCAACATTGAATGTCATCAACAGAAGTAAAAACCAATTAGTTTTGCAATCTCATGT
GCTAGTTGCCCCATTTTGTTCGTTTAACATACATGAATACCAAACCCTTGATGGACTCTTCATGA
GAAGAGAAACTAGTTAGGTCTCTGATGAGGGTATGTATTGGTATATCTTTAGATTAAGATCAAGG
GGTCCTTGTTTTGCTAGCTG
Found at i:175862 original size:21 final size:21
Alignment explanation
Indices: 175835--175881 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
175825 CTACAATTCT
175835 CAATGGTGTGCACTGAGCTCC
1 CAATGGTGTGCACTGAGCTCC
*
175856 TAATGGTGTGCACTGAGCTCC
1 CAATGGTGTGCACTGAGCTCC
175877 CAATG
1 CAATG
175882 TGATAGATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (21 bp):
CAATGGTGTGCACTGAGCTCC
Found at i:180488 original size:3 final size:3
Alignment explanation
Indices: 180474--180507 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
180464 ATGTAAACAA
180474 AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
180508 TTTGTAGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Done.