Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 295 of 770
Found at i:90078301 original size:21 final size:22
Alignment explanation
Indices: 90078277--90078317 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
90078267 TTTGGAGGAG
90078277 GTTTTTTTG-TTTTTTGGAAGT
1 GTTTTTTTGTTTTTTTGGAAGT
90078298 GTTTTTTTGTTTTTTTGGAA
1 GTTTTTTTGTTTTTTTGGAA
90078318 AGAAGGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.10, C:0.00, G:0.22, T:0.68
Consensus pattern (22 bp):
GTTTTTTTGTTTTTTTGGAAGT
Found at i:90078340 original size:25 final size:26
Alignment explanation
Indices: 90078293--90078344 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
90078283 TTGTTTTTTG
*
90078293 GAAGTGTTTTTTTGTTTTTTTGGAAA
1 GAAGTGTTTTTTTGTTTTCTTGGAAA
90078319 GAAG-GTTGTTTTTG-TTTCTTGGAAA
1 GAAGTGTT-TTTTTGTTTTCTTGGAAA
90078344 G
1 G
90078345 GCTAGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.19, C:0.02, G:0.27, T:0.52
Consensus pattern (26 bp):
GAAGTGTTTTTTTGTTTTCTTGGAAA
Found at i:90078672 original size:3 final size:3
Alignment explanation
Indices: 90078653--90078727 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
90078643 TTTTATCATT
* *
90078653 TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA
90078700 TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
90078728 ATATGCCATC
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 5 0.09
3 44 0.76
4 7 0.12
5 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90078690 original size:12 final size:13
Alignment explanation
Indices: 90078653--90078722 Score: 60
Period size: 12 Copynumber: 5.5 Consensus size: 13
90078643 TTTTATCATT
*
90078653 TTATTATT-TTTA
1 TTATTATTATATA
*
90078665 CTATTATT-TATA
1 TTATTATTATATA
90078677 TTATTATTAT-TA
1 TTATTATTATATA
90078689 TT-TCTCATGTATATA
1 TTAT-T-AT-TATATA
90078704 TTATTATT-TATA
1 TTATTATTATATA
90078716 TTATTAT
1 TTATTAT
90078723 ATTATATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
11 1 0.02
12 33 0.67
13 4 0.08
14 5 0.10
15 5 0.10
16 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:90078705 original size:21 final size:18
Alignment explanation
Indices: 90078652--90078849 Score: 83
Period size: 18 Copynumber: 11.1 Consensus size: 18
90078642 GTTTTATCAT
* *
90078652 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
90078671 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
90078689 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
90078710 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
* *** *
90078727 TATATGCCATCT-TCA-TA
1 TTTATATTAT-TATTATTA
90078744 TTTAT-TTA-TATTATTA
1 TTTATATTATTATTATTA
* * *
90078760 ---CTATCATTATTGTTA
1 TTTATATTATTATTATTA
* *
90078775 CTTCTATTATT-TT-TTA
1 TTTATATTATTATTATTA
* * *
90078791 TTTCTAACTACTATTATTA
1 TTTAT-ATTATTATTATTA
* *
90078810 TATATATATATGTATTATTG
1 TTTATAT-TAT-TATTATTA
*
90078830 TTTGTATTATTATTATTA
1 TTTATATTATTATTATTA
90078848 TT
1 TT
90078850 ATCACCCCTA
Statistics
Matches: 134, Mismatches: 28, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
13 1 0.01
14 3 0.02
15 9 0.07
16 10 0.07
17 23 0.17
18 39 0.29
19 20 0.15
20 17 0.13
21 12 0.09
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:90078730 original size:27 final size:26
Alignment explanation
Indices: 90078644--90078731 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
90078634 AGAGTTTTGT
* * *
90078644 TTTATCATTTTATTATTTTTACTATTA
1 TTTAT-ATATTATTATTTATATTATTA
* *
90078671 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
90078696 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
90078722 TATTATATAT
1 T-TTATATAT
90078732 GCCATCTTCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 9 0.19
27 19 0.40
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:90081572 original size:19 final size:19
Alignment explanation
Indices: 90081548--90081594 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
90081538 CTTCATTTCT
90081548 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
90081567 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
90081586 TTTGCATTA
1 TTTGCATTA
90081595 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:90084451 original size:23 final size:23
Alignment explanation
Indices: 90084397--90084462 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
90084387 AGGCAAAGCC
*
90084397 AAAAAAAAAAACACAAAAACACG
1 AAAAAAAAAAAAACAAAAACACG
** *
90084420 AAAACAAAAAAAAACAAAAATTCT
1 AAAA-AAAAAAAAACAAAAACACG
* *
90084444 AAAAAAAAAGAAGCAAAAA
1 AAAAAAAAAAAAACAAAAA
90084463 AAGAGAGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 17 0.47
24 19 0.53
ACGTcount: A:0.79, C:0.12, G:0.05, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAAAAACAAAAACACG
Found at i:90085678 original size:66 final size:66
Alignment explanation
Indices: 90085578--90085704 Score: 218
Period size: 66 Copynumber: 1.9 Consensus size: 66
90085568 CATTCATATA
*
90085578 ATAACACATCTAGTTAAGAGCATTTCATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAAGAGCATTTCATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
90085643 C
66 C
* * *
90085644 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAAGAGCATTTCATTCATTTCAATCATAGCATCCTAATCATTTGACA
90085705 TAAGCATAGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAAGAGCATTTCATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:90085956 original size:43 final size:43
Alignment explanation
Indices: 90085768--90086580 Score: 501
Period size: 43 Copynumber: 18.7 Consensus size: 43
90085758 ATTCACAAGC
* * * * *
90085768 CTTAAGCCCTTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
90085813 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
90085857 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
90085899 CTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * **
90085942 CTTAACCCTCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
90085985 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* *
90086029 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * *
90086074 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * * * * *
90086117 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * *
90086159 CTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
** * **
90086202 CTTAACCCCCTAAGCAGTAGGAAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
* * * *
90086245 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGC
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA-T
* * *
90086289 CTTAACCCCCTAAGCAGTAGGGTAACTG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* ** * **
90086334 CTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAAT-AATGGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GAT
* * *
90086377 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGTCGAA-TTTACA-AA
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-AGAT
* * * * *
90086420 CATTAAACCCTTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGAT
* * * * *
90086466 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * * * * **
90086509 CTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGAT
* * *
90086553 CTTAAACCCCTAAGTAGTAGGATAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
90086581 GCTAAAAATT
Statistics
Matches: 602, Mismatches: 130, Indels: 73
0.75 0.16 0.09
Matches are distributed among these distances:
42 62 0.10
43 234 0.39
44 190 0.32
45 111 0.18
46 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGAT
Found at i:90086230 original size:260 final size:261
Alignment explanation
Indices: 90085757--90086363 Score: 1135
Period size: 260 Copynumber: 2.3 Consensus size: 261
90085747 AGAATCAGTG
* * * *
90085757 AATTCACAAGCCTTAAGCCCTTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
90085822 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
*
90085887 CGAATTGCAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCTC
131 CGAATTGCAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
*
90085952 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGAAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
90086017 A
261 A
90086018 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
90086082 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
*
90086147 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
131 CGAATTGCAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
90086212 TAAGCAGTAGGAAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGAAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
90086277 A
261 A
*
90086278 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
90086343 CTAAGCAGTAGGGAAACAGAT
66 CTAAGCAGTAGGGAAACAGAT
90086364 AAAAAATAAT
Statistics
Matches: 337, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
260 256 0.76
261 81 0.24
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (261 bp):
AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
CGAATTGCAGATCTCATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
TAAGCAGTAGGAAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
A
Found at i:90086437 original size:175 final size:175
Alignment explanation
Indices: 90086117--90086579 Score: 461
Period size: 175 Copynumber: 2.7 Consensus size: 175
90086107 GACGAAGGGT
* * * * * * * *
90086117 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGG
1 CTTAACCCCCTAACCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
** * ** * * * * **
90086181 AAACAGATCGAAGATGAA--GATCTTAACCCCCTAAGCAGTAGGAAAAC-AGATCGAAGATGATG
66 AAACAGATAAAAAAT-AATGGGCCTTAAACCCCTAAGCAGTAGGATAACAAG-TCGAA-TTTACA
** * * *
90086243 GGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC-CAA-ATTTACAAGC
128 AACATTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAGATTTACAAAC
* *
90086289 CTTAACCCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAACCCCCTAACCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTTAACCCCCTAAGCAGTAG
* * *
90086354 GGAAACAGATAAAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCGAATTTACAA
64 GGAAACAGATAAAAAATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAAGTCGAATTTACAA
* * * *
90086419 ACATTAAACCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAAT
129 ACATTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAGATTTACAAAC
* * *
90086466 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCTTAAGCAGTTGGG
1 CTTAACCCCCTAACCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* ** * * *
90086531 AAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAGGATAACA
66 AAACAGATAAAAAATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACA
90086580 GGCTAAAAAT
Statistics
Matches: 239, Mismatches: 44, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
172 26 0.11
173 1 0.00
174 3 0.01
175 138 0.58
176 32 0.13
177 39 0.16
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (175 bp):
CTTAACCCCCTAACCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATAAAAAATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAAGTCGAATTTACAAAC
ATTAAACCCCTAAGCAGTAGGGTAACAAGCTCAAGATTTACAAAC
Found at i:90086558 original size:132 final size:132
Alignment explanation
Indices: 90085762--90086596 Score: 561
Period size: 132 Copynumber: 6.4 Consensus size: 132
90085752 CAGTGAATTC
* * * * *
90085762 ACAAGCCTTAAGCCCTTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * ** * * * * *
90085827 CAGTAGGGAAACAGATCGAAGACGAA-G-GGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACCG
66 CAGTAGGGAAACAGAT-AAAAAATAATGAGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-TCG
*
90085889 AATTG
128 AAATG
* * * * * * * *
90085894 -C-AG-ATCTCATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCTCT
1 ACAAGCCT-TAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCT
* ** * * * *
90085953 AAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
63 AACCAGTAGGGAAACAGATAAAAAATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCG
*
90086017 AAATTT
128 AAA-TG
* * *
90086023 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * ** * * * * *
90086087 CAGTAGGGAAACAGATCGAAGACGAA-G-GGTCTTAAACCCCTAATCGGTAGGGTAAC-AGACCG
66 CAGTAGGGAAACAGAT-AAAAAATAATGAGCT-TTAACCCCCTAAGCAGTAGGGTAACAAG-TCG
*
90086149 AATTG
128 AAATG
* * * * * *
90086154 -C-AGATCTT-ATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAACCCCCT
1 ACAAG-CCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATCTTAACCCCCT
* * ** * * * *
90086213 AAGCAGTAGGAAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG-CC
63 AACCAGTAGGGAAACAGATAAAAAATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCG
*
90086277 AAATTT
128 AAA-TG
* * * *
90086283 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* *
90086348 CAGTAGGGAAACAGATAAAAAATAATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCGAAT
66 CAGTAGGGAAACAGATAAAAAATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCGAAA
*
90086413 TT
131 TG
* * *
90086415 ACAAACATTAAACCCTTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
* * ** ** * * *
90086480 CAGTAGGGTAACAGGTTGAATTTACA-GATC-TTAACCCCTTAAGCAGTTGGG-AA-ATAGATCG
66 CAGTAGGGAAACAGATAAAAAATA-ATGAGCTTTAACCCCCTAAGCAGTAGGGTAACA-AG-TCG
90086541 AAGATG
128 AA-ATG
*** * * * *
90086547 ATGGGCCTTAAACCCCTAAGTAGTAGGATAACAGGCT-AAAAATTACAAAT
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAAT
90086597 TTCTTTTTCC
Statistics
Matches: 561, Mismatches: 106, Indels: 73
0.76 0.14 0.10
Matches are distributed among these distances:
128 19 0.03
129 114 0.20
130 105 0.19
131 122 0.22
132 197 0.35
133 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (132 bp):
ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAC
CAGTAGGGAAACAGATAAAAAATAATGAGCTTTAACCCCCTAAGCAGTAGGGTAACAAGTCGAAA
TG
Found at i:90086720 original size:68 final size:68
Alignment explanation
Indices: 90086598--90086795 Score: 283
Period size: 68 Copynumber: 2.9 Consensus size: 68
90086588 ATTACAAATT
* * *
90086598 TCTTTT-TCCCTGAAATGGCATTGGAGCAGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
90086661 AAGA
66 AA-A
* * *
90086665 TCTTTTCTTCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
90086730 AAA
66 AAA
* * * *
90086733 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA
90086796 ATGGAAGAAG
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
67 6 0.05
68 108 0.93
69 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:90086921 original size:44 final size:43
Alignment explanation
Indices: 90086849--90087434 Score: 357
Period size: 44 Copynumber: 13.3 Consensus size: 43
90086839 AGAAGTAGAC
* * * * *
90086849 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGAT
*
90086894 CGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACA-AGT
1 CGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-T
* * * * * * *
90086937 TGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAAAT
1 CGAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGAT
* * * * * *
90086981 CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGAT
1 CGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGAT
* * *
90087026 CAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAAT
1 CGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGAT
* * * * *
90087069 CGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGTGAAGCAGAT
1 CGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGAT
* *
90087113 CAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACA-AGT
1 CGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-T
* * * *
90087156 TGAA-AGCATCAGATTTTGCATCCCTGTGCTTATAGGGAACAAAT
1 CGAAGA-TATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGAT
* * * * * **
90087200 CAAAGATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGAT
1 CGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGAT
* * *
90087245 CAAAGATTTCAGCA-TGGCATCCCTGTGTTTATAGGGAACA-AGT
1 CGAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-T
* * *
90087288 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA-AGT
1 CGAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAGA-T
* * *
90087332 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC-GAAT
1 CGAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAG-AT
* * * * * * *
90087376 CGAAGATAGCAAATCTGACATTCCTGTGTTTACAGTGAAGCAGAT
1 CGAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAA-CAGAT
* *
90087421 CAAAGATAGCAGAT
1 CGAAGATATCAGAT
90087435 ATCGCCTTCC
Statistics
Matches: 425, Mismatches: 86, Indels: 60
0.74 0.15 0.11
Matches are distributed among these distances:
42 8 0.02
43 64 0.15
44 293 0.69
45 56 0.13
46 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (43 bp):
CGAAGATATCAGATTGGCATCCCTGTGCTTATAGGGAACAGAT
Found at i:90087097 original size:132 final size:133
Alignment explanation
Indices: 90086849--90087427 Score: 501
Period size: 132 Copynumber: 4.4 Consensus size: 133
90086839 AGAAGTAGAC
* *
90086849 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCA
1 CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG-ATTGGCA
* * *
90086913 TCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGACA-TCCATGTGCTTATAGGGAA-
65 TCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATCTGACATTCC-TGTGCTTATAGGGAAG
90086976 CAAAT
129 CAAAT
90086981 CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-TGGCA
1 CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG-ATTGGCA
* * * *
90087045 TCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGTGAAGC
65 TCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATCTGACATTCCTGTGCTTATAGGGAAGC
*
90087109 AGAT
130 AAAT
** * * * * * *
90087113 C-AAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAAGCA--TCAGATTT
1 CGAAA-ATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAG-ATTTCAGA-TT
* * * * *
90087172 TGCATCCCTGTGCTTATAGGGAACAAATC-AAAGATAACAGATCTGACATTCCTGTGCTTACAGT
61 GGCATCCCTGTGCTTATAGGGAACAAATCGAAA-ACAGCAGATCTGACATTCCTGTGCTTATAGG
* *
90087236 AAAGCAGAT
125 GAAGCAAAT
** * * * * * * * **
90087245 C-AAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA-CAAGTTGAAA-ACATCAGATTTG
1 CGAAA-ATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGA-TTG
* * * * * *
90087305 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGA
62 GCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATCTGACATTCCTGTGCTTATAGGGA
*
90087370 A-CGAAT
127 AGCAAAT
* * *
90087376 CGAAGATAGCAAATCTGACATTCCTGTGTTTACAGTGAAGCAGATCAAAGAT
1 CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
90087428 AGCAGATATC
Statistics
Matches: 381, Mismatches: 48, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
129 1 0.00
130 9 0.02
131 97 0.25
132 265 0.70
133 9 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (133 bp):
CGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGATTGGCAT
CCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCA
AAT
Found at i:90087169 original size:87 final size:87
Alignment explanation
Indices: 90086955--90087206 Score: 343
Period size: 87 Copynumber: 2.9 Consensus size: 87
90086945 GCAGATTTGA
*
90086955 CATCCATGTGCTTATAGGGAACAAATCGAAA-ATAGCAGATCTGACATTCCTGTGCTTACAGTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAAGAT--CAGATCTGACATTCCTGTGCTTACAGTGA
90087019 AGCAGATCAAAGATTTCAGCATGG
64 AGCAGATCAAAGATTTCAGCATGG
90087043 CATCCCTGTGCTTATAGGGAACAAATCG-AAGATAGCAGATCTGACATTCCTGTGCTTAC-GTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAAGAT--CAGATCTGACATTCCTGTGCTTACAGTGA
90087106 AGCAGATCAAAGATTTCAGCATGG
64 AGCAGATCAAAGATTTCAGCATGG
* * * * * *
90087130 CATCCCTGTGCTTATAGGGAACAAGTTGAAAGCATCAGATTTTG-CATCCCTGTGCTTATAGGGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAAG-ATCAGA-TCTGACATTCCTGTGCTTACAGTGA
*
90087194 A-CAAATCAAAGAT
64 AGCAGATCAAAGAT
90087207 AACAGATCTG
Statistics
Matches: 151, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
87 84 0.56
88 65 0.43
89 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (87 bp):
CATCCCTGTGCTTATAGGGAACAAATCGAAAGATCAGATCTGACATTCCTGTGCTTACAGTGAAG
CAGATCAAAGATTTCAGCATGG
Found at i:90087198 original size:131 final size:132
Alignment explanation
Indices: 90087040--90087329 Score: 519
Period size: 132 Copynumber: 2.2 Consensus size: 132
90087030 GATTTCAGCA
* *
90087040 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC-GT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGT
* *
90087104 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCATCAGA
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
90087169 TT
131 TT
*
90087171 TTGCATCCCTGTGCTTATAGGGAACAAATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGT
*
90087236 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAACATCAGA
66 AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
90087301 TT
131 TT
90087303 TGGCATCCCTGTGCTTATAGGGAACAA
1 TGGCATCCCTGTGCTTATAGGGAACAA
90087330 GTTGAAAACA
Statistics
Matches: 151, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
131 59 0.39
132 92 0.61
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAATCAAAGATAACAGATCTGACATTCCTGTGCTTACAGT
AAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGA
TT
Found at i:90087229 original size:219 final size:220
Alignment explanation
Indices: 90086849--90087285 Score: 772
Period size: 219 Copynumber: 2.0 Consensus size: 220
90086839 AGAAGTAGAC
*
90086849 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
90086914 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAA
* *
90086979 ATCGAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
131 ATCGAAAATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGC
90087044 ATCCCTGTGCTTATAGGGAACAAAT
196 ATCCCTGTGCTTATAGGGAACAAAT
90087069 CGAAGATAGCAGATCTGACATTCCTGTGCTTAC-GTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* * *
90087133 CCCTGTGCTTATAGGGAACAAGTTGAAAGCATCAGATTTTG-CATCCCTGTGCTTATAGGGAACA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA-TTTGACATCCATGTGCTTATAGGGAACA
90087197 AATC-AAAGATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATG
130 AATCGAAA-ATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATG
*
90087261 GCATCCCTGTGTTTATAGGGAACAA
194 GCATCCCTGTGCTTATAGGGAACAA
90087286 GTTGAAAACA
Statistics
Matches: 208, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
218 3 0.01
219 168 0.81
220 37 0.18
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (220 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAA
ATCGAAAATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGC
ATCCCTGTGCTTATAGGGAACAAAT
Found at i:90087316 original size:219 final size:220
Alignment explanation
Indices: 90086856--90087371 Score: 747
Period size: 219 Copynumber: 2.4 Consensus size: 220
90086846 GACCGAAGAT
* *
90086856 AGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTG
1 AGCAGATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTG
90086921 CTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAAATCGAAA
66 CTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAAATCGAAA
* *
90086986 ATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTG
131 ATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGCATCCCTG
* *
90087051 TGCTTATAGGGAACAAATCGAAGAT
196 TGCTTATAGGGAACAAATCGAAAAC
*
90087076 AGCAGATCTGACATTCCTGTGCTTAC-GTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTG
1 AGCAGATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTG
* * *
90087140 CTTATAGGGAACAAGTTGAAAGCATCAGATTTTG-CATCCCTGTGCTTATAGGGAACAAATC-AA
66 CTTATAGGGAACAAGTTGAAAACAGCAGA-TTTGACATCCATGTGCTTATAGGGAACAAATCGAA
90087203 AGATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGCATCCC
130 A-ATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGCATCCC
* * *
90087268 TGTGTTTATAGGGAACAAGTTGAAAAC
194 TGTGCTTATAGGGAACAAATCGAAAAC
* * * * * * * **
90087295 ATCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATTTGGCATCCCT
1 AGCAGATCTGACATCCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--TGGCATCCCT
90087357 GTGCTTATAGGGAAC
63 GTGCTTATAGGGAAC
90087372 GAATCGAAGA
Statistics
Matches: 269, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
218 4 0.01
219 200 0.74
220 65 0.24
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (220 bp):
AGCAGATCTGACATCCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTG
CTTATAGGGAACAAGTTGAAAACAGCAGATTTGACATCCATGTGCTTATAGGGAACAAATCGAAA
ATAACAGATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGCATCCCTG
TGCTTATAGGGAACAAATCGAAAAC
Found at i:90089286 original size:1 final size:1
Alignment explanation
Indices: 90089280--90089304 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
90089270 ATGATGCTGG
90089280 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
90089305 GCAGAGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:90089405 original size:27 final size:28
Alignment explanation
Indices: 90089375--90089432 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
90089365 AATGGGGAAG
90089375 AAATAGTTAATGCTATGTAAGAAA-AAA
1 AAATAGTTAATGCTATGTAAGAAAGAAA
*
90089402 AAATAGTTAATGCTGTGTAAGAAAGAAA
1 AAATAGTTAATGCTATGTAAGAAAGAAA
90089430 AAA
1 AAA
90089433 AATGTCCGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.55, C:0.03, G:0.17, T:0.24
Consensus pattern (28 bp):
AAATAGTTAATGCTATGTAAGAAAGAAA
Found at i:90092814 original size:20 final size:20
Alignment explanation
Indices: 90092789--90092826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90092779 GGAAAGGCCA
*
90092789 AAAATAATAAAAGAAATAGT
1 AAAATAACAAAAGAAATAGT
*
90092809 AAAATAACAAAATAAATA
1 AAAATAACAAAAGAAATA
90092827 AAATAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAACAAAAGAAATAGT
Found at i:90092922 original size:18 final size:18
Alignment explanation
Indices: 90092901--90092937 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90092891 TATCGATGAT
*
90092901 AATAGAATAATAATAATA
1 AATAAAATAATAATAATA
*
90092919 AATAAAATAATACTAATA
1 AATAAAATAATAATAATA
90092937 A
1 A
90092938 CAGTAAAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
AATAAAATAATAATAATA
Found at i:90093095 original size:22 final size:21
Alignment explanation
Indices: 90093056--90093104 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
90093046 GTAAATAACT
*
90093056 AAATAAAATAAAACTATAAAA
1 AAATAAAATAAAAATATAAAA
*
90093077 AAATAAAATAAAAAATATATAA
1 AAATAAAAT-AAAAATATAAAA
90093099 AAATAA
1 AAATAA
90093105 TAATCTAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAAATATAAAA
Found at i:90101009 original size:22 final size:22
Alignment explanation
Indices: 90100984--90101025 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90100974 TGGCCCTTTT
90100984 TTATAT-TGAAAAATAAAAAAAA
1 TTATATAT-AAAAATAAAAAAAA
*
90101006 TTATATATAAATATAAAAAA
1 TTATATATAAAAATAAAAAA
90101026 TATCATACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TTATATATAAAAATAAAAAAAA
Found at i:90113532 original size:13 final size:13
Alignment explanation
Indices: 90113514--90113538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90113504 AAATACTAAC
90113514 AATGTATGCCAAT
1 AATGTATGCCAAT
90113527 AATGTATGCCAA
1 AATGTATGCCAA
90113539 ATAAATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AATGTATGCCAAT
Found at i:90127896 original size:2 final size:2
Alignment explanation
Indices: 90127889--90127930 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
90127879 TATCAATTTT
* *
90127889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90127931 AATCATGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90128601 original size:21 final size:22
Alignment explanation
Indices: 90128575--90128616 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
90128565 AATAAAAAAT
*
90128575 GTATAAAATTAT-TAAATATTA
1 GTATAAAATAATATAAATATTA
90128596 GTATAAAATAATATAAATATT
1 GTATAAAATAATATAAATATT
90128617 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
GTATAAAATAATATAAATATTA
Found at i:90129460 original size:2 final size:2
Alignment explanation
Indices: 90129453--90129477 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90129443 ATTTTAAGAA
90129453 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
90129478 AAATTAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90130028 original size:25 final size:25
Alignment explanation
Indices: 90129986--90130037 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
90129976 TAATATTATT
*
90129986 TTATATTAATTACATAAAATAAATATA
1 TTATATTAATAACAT-AAATAAA-ATA
90130013 TTAT-TTAATAAC-TAAATAAAATA
1 TTATATTAATAACATAAATAAAATA
90130036 TT
1 TT
90130038 TAACATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 7 0.29
25 1 0.04
26 7 0.29
27 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATATTAATAACATAAATAAAATA
Found at i:90130165 original size:20 final size:20
Alignment explanation
Indices: 90130116--90130167 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
90130106 TTTATTTTTT
*
90130116 ATAAATTTTAAAAAATTAAA
1 ATAAATTTTTAAAAATTAAA
* *
90130136 CTAAAATTTTAAAAATTAAA
1 ATAAATTTTTAAAAATTAAA
*
90130156 ATATATTTTTAA
1 ATAAATTTTTAA
90130168 TTTTATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAATTTTTAAAAATTAAA
Found at i:90130860 original size:2 final size:2
Alignment explanation
Indices: 90130847--90130880 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
90130837 AACTAGCTTT
90130847 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
90130881 TATTTGTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90132598 original size:6 final size:6
Alignment explanation
Indices: 90132587--90132626 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
90132577 TATTTTTTTT
* *
90132587 TAAAAA TAAAAA TTAAAAT TAAAAA TATAAA TAAAAA TAA
1 TAAAAA TAAAAA -TAAAAA TAAAAA TAAAAA TAAAAA TAA
90132627 TATTTATACA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:90132602 original size:13 final size:13
Alignment explanation
Indices: 90132586--90132624 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
90132576 ATATTTTTTT
90132586 TTAAAAATAAAAA
1 TTAAAAATAAAAA
*
90132599 TTAAAATTAAAAA
1 TTAAAAATAAAAA
*
90132612 -TATAAATAAAAA
1 TTAAAAATAAAAA
90132624 T
1 T
90132625 AATATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:90132610 original size:19 final size:19
Alignment explanation
Indices: 90132586--90132624 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
90132576 ATATTTTTTT
*
90132586 TTAAAAATAAAAATTAAAA
1 TTAAAAATAAAAATAAAAA
*
90132605 TTAAAAATATAAATAAAAA
1 TTAAAAATAAAAATAAAAA
90132624 T
1 T
90132625 AATATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TTAAAAATAAAAATAAAAA
Found at i:90137021 original size:42 final size:44
Alignment explanation
Indices: 90136975--90137062 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
90136965 ACGAGATTCA
*
90136975 AGTACTTTGGGCCTCTAAG-T-TCATTTTCAATTTCTTTTTGTT
1 AGTACTTTGGGCCTCTAAGTTATCATTTTCAAATTCTTTTTGTT
90137017 AGTACTTTGGGCCTCTAAGTTATCATTTTCAAATTCTTTTTGTT
1 AGTACTTTGGGCCTCTAAGTTATCATTTTCAAATTCTTTTTGTT
90137061 AG
1 AG
90137063 GGGTCTCACT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 19 0.44
43 1 0.02
44 23 0.53
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (44 bp):
AGTACTTTGGGCCTCTAAGTTATCATTTTCAAATTCTTTTTGTT
Found at i:90147251 original size:2 final size:2
Alignment explanation
Indices: 90147244--90147272 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90147234 TTGCTAAAAC
90147244 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90147273 ATTGCAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90150033 original size:163 final size:164
Alignment explanation
Indices: 90149764--90150090 Score: 442
Period size: 163 Copynumber: 2.0 Consensus size: 164
90149754 TTAGCTTAGA
* ** * * * *
90149764 GCCAAGCGTCAATGCATAGACTTTAGCCGCCAATTCCGAAGAGGAATATATTAGTGCGCTGGCGC
1 GCCAAGCGTCAATGCATAGACTTTAGCCACCAACACCAAAAAGGAATATATTAGCGCGATGGCGC
* *
90149829 CAACAATTACACTTCTAAGATGGTTGCGAACAAAAGCCACTATTCTAGCTTTGGATGAAGC-A-G
66 CAACAATTACACTTCTAAGATGGTTGCGAACAAAAGCCACTATTCCAGCTTTGGATGAAGCAATA
* * *
90149892 AAGAGAACGTTGCATCACAGTTAATATGTACTTT
131 AAGACAACGCTACATCACAGTTAATATGTACTTT
* * *
90149926 GCCAAGCGTCAATGCATAAGGCTTTAGCCACCAACACCAAAAAGGAATATATTAGCGTGATGGCT
1 GCCAAGCGTCAATGCAT-AGACTTTAGCCACCAACACCAAAAAGGAATATATTAGCGCGATGGCG
* * * *
90149991 CCAATAATTACACTTCTAAGATGGTTGCGTACAAGAGCCACTATTCCCGCTTTGGATGAAGCAAA
65 CCAACAATTACACTTCTAAGATGGTTGCGAACAAAAGCCACTATTCCAGCTTTGGATGAAGC-AA
90150056 TTAAAGACAACGCTACATCACAGTTAATATGTACT
129 -TAAAGACAACGCTACATCACAGTTAATATGTACT
90150091 GCACCTTCTG
Statistics
Matches: 141, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
162 17 0.12
163 94 0.67
165 1 0.01
167 29 0.21
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (164 bp):
GCCAAGCGTCAATGCATAGACTTTAGCCACCAACACCAAAAAGGAATATATTAGCGCGATGGCGC
CAACAATTACACTTCTAAGATGGTTGCGAACAAAAGCCACTATTCCAGCTTTGGATGAAGCAATA
AAGACAACGCTACATCACAGTTAATATGTACTTT
Found at i:90159523 original size:12 final size:11
Alignment explanation
Indices: 90159492--90159525 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
90159482 CGTTTTTTAC
90159492 AAAAAAAAA-A
1 AAAAAAAAAGA
90159502 AAAAAAAAAGA
1 AAAAAAAAAGA
90159513 AAAAACAAAAGA
1 AAAAA-AAAAGA
90159525 A
1 A
90159526 TGAACATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.41
11 6 0.27
12 7 0.32
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:90168109 original size:21 final size:21
Alignment explanation
Indices: 90168083--90168139 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
90168073 ATAAATAAAA
90168083 ACCTTGGCCACCTACTCCACC
1 ACCTTGGCCACCTACTCCACC
*
90168104 ACCTTGGCCACCAACTCCACC
1 ACCTTGGCCACCTACTCCACC
90168125 ACCCTTGGCCACCTA
1 A-CCTTGGCCACCTA
90168140 AACCACCCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.21, C:0.51, G:0.11, T:0.18
Consensus pattern (21 bp):
ACCTTGGCCACCTACTCCACC
Found at i:90168271 original size:23 final size:23
Alignment explanation
Indices: 90168209--90168324 Score: 100
Period size: 23 Copynumber: 5.1 Consensus size: 23
90168199 TTTATAGGGG
90168209 GGTTTTTGTTT-TTTTTTGGAGAA
1 GGTTTTT-TTTGTTTTTTGGAGAA
* *
90168232 GGATTGTTCTTTG--TTTTGGAGGA
1 GG-TT-TTTTTTGTTTTTTGGAGAA
90168255 GGTTTTTTTTGTTTTTTGGAG-A
1 GGTTTTTTTTGTTTTTTGGAGAA
*
90168277 TG-TTTTTTTGTTTTTTGGAAAGAA
1 GGTTTTTTTTGTTTTTTGG--AGAA
* *
90168301 GGTTATTTTTGTTTCTTGGA-AA
1 GGTTTTTTTTGTTTTTTGGAGAA
90168323 GG
1 GG
90168325 CTAGTTTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
21 22 0.29
22 8 0.10
23 24 0.31
24 7 0.09
25 16 0.21
ACGTcount: A:0.15, C:0.02, G:0.28, T:0.56
Consensus pattern (23 bp):
GGTTTTTTTTGTTTTTTGGAGAA
Found at i:90168309 original size:25 final size:23
Alignment explanation
Indices: 90168245--90168323 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 23
90168235 TTGTTCTTTG
*
90168245 TTTTGG-AGGAGGTTTTTTTTGTT
1 TTTTGGAAAGAGG-TTTTTTTGTT
*
90168268 TTTTGG--AGATGTTTTTTTGTT
1 TTTTGGAAAGAGGTTTTTTTGTT
90168289 TTTTGGAAAGAAGGTTATTTTTGTT
1 TTTTGGAAAG-AGGTT-TTTTTGTT
*
90168314 TCTTGGAAAG
1 TTTTGGAAAG
90168324 GCTAGTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.33
22 3 0.06
23 8 0.17
24 4 0.08
25 17 0.35
ACGTcount: A:0.16, C:0.01, G:0.27, T:0.56
Consensus pattern (23 bp):
TTTTGGAAAGAGGTTTTTTTGTT
Found at i:90168637 original size:3 final size:3
Alignment explanation
Indices: 90168623--90168733 Score: 90
Period size: 3 Copynumber: 36.3 Consensus size: 3
90168613 GAGCTTCGTT
* *
90168623 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
90168667 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA TATA TATA TTA
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA T-TA T-TA TTA
90168714 TTA -TA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
90168734 ATATGCCCTC
Statistics
Matches: 91, Mismatches: 6, Indels: 22
0.76 0.05 0.18
Matches are distributed among these distances:
2 9 0.10
3 66 0.73
4 14 0.15
5 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90168661 original size:27 final size:27
Alignment explanation
Indices: 90168622--90168735 Score: 87
Period size: 28 Copynumber: 4.3 Consensus size: 27
90168612 AGAGCTTCGT
90168622 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
90168649 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
90168674 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
* *
90168700 TTATATATATATTATTA-TATTATTATTA
1 TT-TATAT-TATTATTATTTTTACTATTA
90168728 TATTATAT
1 T-TTATAT
90168736 ATGCCCTCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
23 2 0.03
24 10 0.14
25 7 0.10
26 7 0.10
27 17 0.24
28 18 0.26
29 9 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:90168683 original size:21 final size:18
Alignment explanation
Indices: 90168623--90168733 Score: 109
Period size: 18 Copynumber: 5.9 Consensus size: 18
90168613 GAGCTTCGTT
*
90168623 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
90168643 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
90168661 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
90168682 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
90168700 TTA-TATATATATTATTA
1 TTATTATTTATATTATTA
90168717 -TATTATTATTATATTAT
1 TTATTA-T-TTATATTAT
90168734 ATATGCCCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.03
17 15 0.19
18 22 0.28
19 17 0.22
20 10 0.13
21 12 0.15
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:90168696 original size:36 final size:36
Alignment explanation
Indices: 90168644--90168733 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 36
90168634 TTATTTTTAC
* *
90168644 TATTATTTATATTATTATTATTATTTCTCATGTA-TATAT
1 TATTA-TTATATTATTATTA-TATATAT-AT-TATTATAT
90168683 TATTATTTATATTATTATTATATATATATTATTATAT
1 TATTA-TTATATTATTATTATATATATATTATTATAT
90168720 TATTATTATATTAT
1 TATTATTATATTAT
90168734 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
36 11 0.23
37 12 0.25
38 5 0.10
39 20 0.42
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (36 bp):
TATTATTATATTATTATTATATATATATTATTATAT
Found at i:90168721 original size:25 final size:24
Alignment explanation
Indices: 90168623--90168730 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 24
90168613 GAGCTTCGTT
90168623 TTATTATT-T-TATTATT-TT-TA
1 TTATTATTATATATTATTATTATA
*
90168643 CTATTATT-TATATTATTATTATTA
1 TTATTATTATATATTATTATTA-TA
90168667 TT-TCTCATGTATATATTATTATTTATA
1 TTAT-T-AT-TATATATTATTA-TTATA
90168694 TTATTATTATATATATATTATTATA
1 TTATTATTATATAT-TATTATTATA
90168719 TTATTATTATAT
1 TTATTATTATAT
90168731 TATATATGCC
Statistics
Matches: 75, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
20 8 0.11
21 7 0.09
22 2 0.03
23 1 0.01
24 4 0.05
25 26 0.35
26 8 0.11
27 15 0.20
28 4 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
TTATTATTATATATTATTATTATA
Found at i:90169065 original size:39 final size:39
Alignment explanation
Indices: 90168981--90169081 Score: 95
Period size: 39 Copynumber: 2.6 Consensus size: 39
90168971 TATATATATA
*
90168981 TATATTT-ATATTTATA-TATAGTATTGTTTTTTATTAC
1 TATATTTAATATTTTTATTATAGTATTGTTTTTTATTAC
* *
90169018 TTTAATTTAATATTTTTATTATA-T-TTGCTTTTTGTATTTC
1 TAT-ATTTAATATTTTTATTATAGTATTG-TTTTT-TATTAC
* *
90169058 TATATTTATTATTATTA-TATAGTA
1 TATATTTAATATTTTTATTATAGTA
90169082 GTGTGTATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
37 2 0.04
38 11 0.22
39 27 0.53
40 11 0.22
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (39 bp):
TATATTTAATATTTTTATTATAGTATTGTTTTTTATTAC
Found at i:90169160 original size:123 final size:125
Alignment explanation
Indices: 90168936--90169162 Score: 300
Period size: 123 Copynumber: 1.8 Consensus size: 125
90168926 TTGCTATCAC
* * *
90168936 TATTACTATTATATATTAGTGTATATTTTTATGTATATATATATATATATTTATATTTATATATA
1 TATTACTATTATATAGTAGTGTATATTTCTA-GTATATATACATATATA-TTATATTTATATATA
* * *
90169001 GTATTGTTTTTTATTACTTTAATTTAATATTTTTATTATATTTGCTTTTTGTATTTCTATATT
64 GTATTATTGTTTATTACTTTAA-TTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
* *
90169064 TATTATTATTATATAGTAGTGTGTATTTCTA-T-TATATACATATATA-TATATTTATATATAGT
1 TATTACTATTATATAGTAGTGTATATTTCTAGTATATATACATATATATTATATTTATATATAGT
*
90169126 ATTATTGTTTACTTTACTTTAA-TATTATTCTTATTAT
66 ATTATTGTTTA--TTACTTTAATTAATATTCTTATTAT
90169163 CATTATATCC
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
123 38 0.43
125 22 0.25
126 1 0.01
128 27 0.31
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (125 bp):
TATTACTATTATATAGTAGTGTATATTTCTAGTATATATACATATATATTATATTTATATATAGT
ATTATTGTTTATTACTTTAATTAATATTCTTATTATATTTGCTTTTTGTATTTCTATATT
Found at i:90171572 original size:19 final size:19
Alignment explanation
Indices: 90171550--90171596 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
90171540 CTTCCTTTCT
90171550 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
90171569 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
90171588 TTTGCATTA
1 TTTGCATTA
90171597 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:90174392 original size:6 final size:6
Alignment explanation
Indices: 90174381--90174420 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
90174371 GGAGTTATAT
90174381 GGCAAA GGCAAA GGCAAA -G-AAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
90174421 AAAAAAAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.09
5 2 0.06
6 27 0.84
ACGTcount: A:0.53, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:90174405 original size:16 final size:16
Alignment explanation
Indices: 90174384--90174415 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90174374 GTTATATGGC
90174384 AAAGGCAAAGGCAAAG
1 AAAGGCAAAGGCAAAG
90174400 AAAGGCAAAGGCAAAG
1 AAAGGCAAAGGCAAAG
90174416 GCAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.31, T:0.00
Consensus pattern (16 bp):
AAAGGCAAAGGCAAAG
Found at i:90174458 original size:15 final size:15
Alignment explanation
Indices: 90174418--90174458 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
90174408 AGGCAAAGGC
90174418 AAAAAAAAAAACACA
1 AAAAAAAAAAACACA
* *
90174433 AAAACACAAAACACA
1 AAAAAAAAAAACACA
90174448 AAAAAAAAAAA
1 AAAAAAAAAAA
90174459 AATTCTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACACA
Found at i:90175696 original size:66 final size:66
Alignment explanation
Indices: 90175596--90175722 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
90175586 CATTCATATA
*
90175596 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
90175661 C
66 C
*
90175662 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
90175723 TAAGCATAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:90175970 original size:43 final size:43
Alignment explanation
Indices: 90175786--90176462 Score: 343
Period size: 43 Copynumber: 15.7 Consensus size: 43
90175776 ATTCACAAGC
* * * * *
90175786 CTTAAACCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* *
90175831 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * * * * * *
90175874 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * *
90175916 CTTATCTCCCTAAGCAGTAGTGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
90175959 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* **
90176002 CTTAA--CCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * ** * *
90176043 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGAT-GAAGAT
* * * * *
90176087 CTTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* * **
90176132 CTTAACCCCCTAAGCAGTAGGGAAACAGAT-AAAAAT-AATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GAT
* * ** *
90176174 CTTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-T
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGAT-GAAGAT
* * * * *
90176217 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* * ** * *
90176262 CTTAA-CCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-C
1 CTTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGAT-GAAGAT
* * * * *
90176304 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGAT
* * * * * *
90176349 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AGAT
* * * * **
90176392 CTTAA-CCCTTAAGCAGTTA-GAAAATAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAG-TAGGGAAACAGATCGAAGATGA-AGAT
* * *
90176435 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAG
90176463 GCTGGAAATT
Statistics
Matches: 492, Mismatches: 99, Indels: 83
0.73 0.15 0.12
Matches are distributed among these distances:
41 36 0.07
42 86 0.17
43 175 0.36
44 124 0.25
45 71 0.14
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
Found at i:90176194 original size:130 final size:130
Alignment explanation
Indices: 90175958--90176461 Score: 596
Period size: 130 Copynumber: 3.9 Consensus size: 130
90175948 AAGATGAAGA
* * * *
90175958 TCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAA-CCCTAAGCAGTA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAACCCCTAAGCAGTA
* *
90176019 GGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCGAATTTACA
65 GGGAAACAGATCGAAGATAATGGGC-TTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACA
90176084 AG
129 AG
* *
90176086 CCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CCCCTAAGCAGTA
* * *
90176151 GGGAAACAGAT-AAAAATAATGGGCTTTAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
65 GGGAAACAGATCGAAGATAATGGGCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAA
90176215 G
130 G
*
90176216 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCTAAGCAGTAG
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAGTAG
* * ** * * * *
90176281 GGTAACA-AGCCGAATTTACA-AGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTA
66 GGAAACAGA-TCGAAGATA-ATGGGCTTAAACCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTA
*
90176344 CAAA
127 CAAG
* * * *
90176348 TCTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCCTTAAGCAGTTA
1 TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAG-TA
* * * *
90176411 -GAAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACA
65 GGGAAACAGATCGAAGATAATGGG-CTTAAACCCCTAAGCAGTAGGGTAACA
90176462 GGCTGGAAAT
Statistics
Matches: 322, Mismatches: 40, Indels: 25
0.83 0.10 0.06
Matches are distributed among these distances:
128 30 0.09
129 25 0.08
130 164 0.51
131 42 0.13
132 61 0.19
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (130 bp):
TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAGTAG
GGAAACAGATCGAAGATAATGGGCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAATTTACAAG
Found at i:90176267 original size:87 final size:86
Alignment explanation
Indices: 90175770--90176408 Score: 485
Period size: 87 Copynumber: 7.4 Consensus size: 86
90175760 TCCCTAGAAT
* * *
90175770 CAGT-GAATTCACAAGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTT
1 CAGTCGAATTTACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTT
*
90175834 AACCCCTAAGCAGTAGGGAAA
66 AACCCCTAAGCAGTAGGGTAA
* * * * * *
90175855 CAGATCGAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TTGCAGA
1 CAG-TCGAATTTAC-AA--GTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA
* * *
90175915 TCTTATCTCCCTAAGCAGTAGTGAAA
62 TCTTAAC-CCCTAAGCAGTAGGGTAA
** * * * * *
90175941 CAGATCGAAGAT-GAAGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGAT
1 CAG-TCGAATTTACAAG-TCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGAT
*
90176002 CTTAA-CCCTAAGCAGTAGGGAAA
63 CTTAACCCCTAAGCAGTAGGGTAA
* * ** * * * *
90176025 CAGATCGAAGATGA-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTTACA-AG
1 CAG-TCGAA-TTTACAAGTC-TTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGA-
*
90176086 CCTTAAACCCCTAAGCAGTAGGGTAA
62 TCTT-AACCCCTAAGCAGTAGGGTAA
* * * * * **
90176112 CTGGCTGAAGATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACA-GAT-AA-AAATA-ATG
1 CAGTC-G-A-ATTTACAAG-TCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACA-G
**
90176172 GGCTTTAACCCCTAAGCAGTAGGGTAA
61 ATC-TTAACCCCTAAGCAGTAGGGTAA
* *
90176199 CAAGCCGAATTTACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCT
1 C-AGTCGAATTTACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCT
90176264 TAACCCCTAAGCAGTAGGGTAA
65 TAACCCCTAAGCAGTAGGGTAA
* * *
90176286 CAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCT
1 C-AGTCGAATTTACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCT
*
90176351 TAACCCCCTAACCAGTAGGGTAA
65 TAA-CCCCTAAGCAGTAGGGTAA
* *
90176374 CAGGTTGAATTTAC-AGATCTT-AACCCTTAAGCAGT
1 CA-GTCGAATTTACAAG-TCTTAAACCCCTAAGCAGT
90176409 TAGAAAATAG
Statistics
Matches: 451, Mismatches: 64, Indels: 76
0.76 0.11 0.13
Matches are distributed among these distances:
83 1 0.00
84 32 0.07
85 105 0.23
86 51 0.11
87 163 0.36
88 96 0.21
89 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (86 bp):
CAGTCGAATTTACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTT
AACCCCTAAGCAGTAGGGTAA
Found at i:90176477 original size:217 final size:217
Alignment explanation
Indices: 90175780--90176478 Score: 607
Period size: 217 Copynumber: 3.2 Consensus size: 217
90175770 CAGTGAATTC
* *
90175780 ACAAGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAA-CCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAG
* * * * * * * *
90175844 CAGTAGGGAAAC-AGATCGAA--GACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG
66 CAGTAGGGTAACAAG-CCGAATTTAC-AA--GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG
* * * * * * * * *
90175906 -A-A-TTGCAGATCTTATCTCCCTAAGCAGTAGTGAAACAGATCGAAGATGAA-GATC-TTAACC
127 AAGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGAT-AAAAAT-AATGAGCTTTAA-C
* * *
90175966 CCCTAAGCAGTAGGGAAACAGATCGAAGATG
189 CCCTAAGCAGTAGGTAAAAAG-CCGAA-ATG
* * * * ****
90175997 --AAGATCTT-AA-CCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-TGGGCTTTAACCCCCT
1 ACAAG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAATC-TTAACCCCCT
*
90176055 AAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGA
63 AAGCAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGA
* * *
90176120 AGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAATAATGGGCTTTAACCCCT
128 AGATTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAATAATGAGCTTTAACCCCT
* * *
90176185 AAGCAGTAGGGTAACAAGCCGAATTT
193 AAGCAGTA-GGTAAAAAGCCGAAATG
*
90176211 ACAAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAA-CCCCTAAG
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAG
90176275 CAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGA
66 CAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGA
* * * ** * *
90176340 TTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACA-GATC-TTAACCCTTA
131 TTTACAAATCTTAACCCCCTAACCAGTAGGGAAACA-GATAAAAATA-ATGAGCTTTAACCCCTA
*
90176403 AGCAGTTA-G-AAAATAGATCGAAGATG
194 AGCAG-TAGGTAAAA-AG-CCGAA-ATG
*** *
90176429 ATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGCTGGAA-A-TTACAAAT
1 ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAAAT
90176479 TTCTTTTTCC
Statistics
Matches: 397, Mismatches: 58, Indels: 54
0.78 0.11 0.11
Matches are distributed among these distances:
212 2 0.01
213 36 0.09
214 50 0.13
215 40 0.10
216 57 0.14
217 155 0.39
218 52 0.13
219 5 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (217 bp):
ACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAG
CAGTAGGGTAACAAGCCGAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGA
TTTACAAATCTTAACCCCCTAACCAGTAGGGAAACAGATAAAAATAATGAGCTTTAACCCCTAAG
CAGTAGGTAAAAAGCCGAAATG
Found at i:90176593 original size:67 final size:68
Alignment explanation
Indices: 90176480--90176676 Score: 294
Period size: 67 Copynumber: 2.9 Consensus size: 68
90176470 ATTACAAATT
*
90176480 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
*
90176543 AGGA
66 A-AA
*
90176547 TCTTTTCTTCCTGAAATGGCATTGG-GCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
90176611 AAA
66 AAA
* * * *
90176614 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCA-AGCAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
90176677 TGGAAGAAGA
Statistics
Matches: 119, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
67 88 0.74
68 31 0.26
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:90176885 original size:44 final size:44
Alignment explanation
Indices: 90176788--90177809 Score: 745
Period size: 44 Copynumber: 23.3 Consensus size: 44
90176778 TTCAGCATGA
* * * *
90176788 CATCCCTGTGCTTATAGGGAACAAGTTTGAAAATAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAA-ATCGAAGATAGCAGATCTGG
*
90176833 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * * * * **
90176877 CATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* * * * * *
90176921 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
*
90176965 CAT-CCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * * * * **
90177008 CATTCCTGTGCTTACAGTGAAGCAGATCATAAGATTTCAG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATC-GAAGATAGCAGATC-TGG
* * * * * *
90177053 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * *
90177097 CAT-CCTGTGCTTATAGGGAACAGATCGAAGACAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * * * * **
90177140 CATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* * * *
90177184 CATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
*
90177228 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * * * ** *
90177272 CATTCCTGTGCTTACAGTGAAGCAGATC-AAGATTTCTG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* * * * * *
90177315 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
*
90177359 CATCCCTGTGCTTATAGGGAACAAGATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAA-ATCGAAGATAGCAGATCTGG
* * * * **
90177404 CATTCCTGTGCTTATAGTGAAGCAGATCAAAGATTTCAG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* ** * * *
90177448 CATCCCTGTGCTTATAGGGAACAAGTTAAAAACATCAGAT-TGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
*
90177491 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCA-ATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * ** * * **
90177534 CATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAG--CATGG
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* * * * * * *
90177578 CATCCTTGTGCTTATA-GGAACAAGTTGAAAACAACAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
** *
90177621 CA-CCCTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
* * * * * ** *
90177664 CATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG--CATGA
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGCAGATC-TGG
* * * * *
90177708 CATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGG
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
** * * *
90177752 CATCCCTGTGCTTATAGGGAACGGATCGAAGATAGAAAATCTGA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
*
90177796 CATTCCTGTGCTTA
1 CATCCCTGTGCTTA
90177810 CAGTTGAAAC
Statistics
Matches: 749, Mismatches: 191, Indels: 75
0.74 0.19 0.07
Matches are distributed among these distances:
42 27 0.04
43 230 0.31
44 346 0.46
45 136 0.18
46 10 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGCAGATCTGG
Found at i:90177071 original size:132 final size:132
Alignment explanation
Indices: 90176728--90177830 Score: 1882
Period size: 132 Copynumber: 8.4 Consensus size: 132
90176718 GAGGAGAGAC
* *
90176728 CGAAGATAGCAGATCTGACATTCCTGT--TTACAGTGAAGCAGATCCAAGATTTCAGCATGACAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
90176791 CCCTGTGCTTATAGGGAACAAGTTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
66 CCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
90176856 AAT
130 AAT
90176859 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
90176924 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCAT-CCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90176988 AT
131 AT
90176990 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCATAAGATTTCAGCATGGCA
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCA-AAGATTTCAGCATGGCA
90177055 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCAT-CCTGTGCTTATAGGGAACA
65 TCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
*
90177119 GAT
130 AAT
*
90177122 CGAAGACAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
90177187 CCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90177252 AT
131 AT
*
90177254 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC-AAGATTTCTGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
90177318 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90177383 GAT
131 -AT
*
90177386 CGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
90177451 CCCTGTGCTTATAGGGAACAAGTTAAAAACATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90177515 AT
131 AT
*
90177517 CGAAGATAGCA-ATCTGACATTCCTGTGCTTACAGTAAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* * **
90177581 CCTTGTGCTTATA-GGAACAAGTTGAAAACAACAGATTTGGCA-CCCTGTGCTTATAGGGAACGG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90177644 AT
131 AT
* * *
90177646 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGACAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* **
90177711 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
90177776 AT
131 AT
* * *
90177778 CGAAGATAGAAAATCTGACATTCCTGTGCTTACAGTTGAAACAGATCAAAGAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCAAAGAT
90177831 AGCGGATATC
Statistics
Matches: 927, Mismatches: 34, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
129 52 0.06
130 130 0.14
131 277 0.30
132 346 0.37
133 122 0.13
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:90178135 original size:22 final size:21
Alignment explanation
Indices: 90178105--90178168 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
90178095 TAAATAAAAA
90178105 CCTTGGCCACCTACTCCACCAC
1 CCTTGGCCACCTACTCCACC-C
* *
90178127 CGTTGGCCACCAACTCCACCC
1 CCTTGGCCACCTACTCCACCC
**
90178148 CCTT-GCCACCTAAACCACCC
1 CCTTGGCCACCTACTCCACCC
90178168 C
1 C
90178169 AACCACTCCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 14 0.39
21 4 0.11
22 18 0.50
ACGTcount: A:0.20, C:0.55, G:0.09, T:0.16
Consensus pattern (21 bp):
CCTTGGCCACCTACTCCACCC
Found at i:90178261 original size:22 final size:19
Alignment explanation
Indices: 90178227--90178324 Score: 74
Period size: 20 Copynumber: 4.7 Consensus size: 19
90178217 GTTTTTAGGG
90178227 GGTTTTTTT-TTTTGGAGA
1 GGTTTTTTTGTTTTGGAGA
90178245 GGATTGTTCTTTGTTTTGGAGGA
1 GG-TT-TT-TTTGTTTTGGA-GA
*
90178268 GGTTTTTTTTTTTTGGAG-
1 GGTTTTTTTGTTTTGGAGA
*
90178286 GTGTTTTTTTTTTTTTGGAAAGAA
1 G-G-TTTTTTTGTTTTGG--AG-A
90178310 GGTTATTTTTGTTTT
1 GGTT-TTTTTGTTTT
90178325 TTGGAAAGGC
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
18 3 0.05
19 4 0.06
20 26 0.39
21 5 0.08
22 13 0.20
23 14 0.21
24 1 0.02
ACGTcount: A:0.12, C:0.01, G:0.27, T:0.60
Consensus pattern (19 bp):
GGTTTTTTTGTTTTGGAGA
Found at i:90178281 original size:20 final size:20
Alignment explanation
Indices: 90178229--90178304 Score: 91
Period size: 20 Copynumber: 3.7 Consensus size: 20
90178219 TTTTAGGGGG
90178229 TTTTTTTTTTTGGA-GAGGAT
1 TTTTTTTTTTTGGAGGAGG-T
*
90178249 TGTTCTTTGTTTTGGAGGAGGT
1 T-TT-TTTTTTTTGGAGGAGGT
* *
90178271 TTTTTTTTTTTGGAGGTGTT
1 TTTTTTTTTTTGGAGGAGGT
90178291 TTTTTTTTTTTGGA
1 TTTTTTTTTTTGGA
90178305 AAGAAGGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 29 0.59
21 4 0.08
22 12 0.24
23 4 0.08
ACGTcount: A:0.09, C:0.01, G:0.26, T:0.63
Consensus pattern (20 bp):
TTTTTTTTTTTGGAGGAGGT
Found at i:90178285 original size:17 final size:18
Alignment explanation
Indices: 90178228--90178299 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 18
90178218 TTTTTAGGGG
90178228 GTTTTTTTTTTTGGAGAG-
1 GTTTTTTTTTTTGGAG-GT
*
90178246 GATTGTTCTTTGTTTTGGAGGAG
1 G-TT-TT-TTT-TTTTGGAGG-T
90178269 GTTTTTTTTTTTTGGAGGT
1 G-TTTTTTTTTTTGGAGGT
90178288 GTTTTTTTTTTT
1 GTTTTTTTTTTT
90178300 TTGGAAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
18 12 0.26
19 3 0.07
20 11 0.24
21 7 0.15
22 10 0.22
23 3 0.07
ACGTcount: A:0.08, C:0.01, G:0.26, T:0.64
Consensus pattern (18 bp):
GTTTTTTTTTTTGGAGGT
Found at i:90178333 original size:22 final size:22
Alignment explanation
Indices: 90178270--90178333 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 22
90178260 TTGGAGGAGG
90178270 TTTTTTTTTTTTGG--AGGTGT
1 TTTTTTTTTTTTGGAAAGGTGT
90178290 TTTTTTTTTTTTGGAAAGAAG-GT
1 TTTTTTTTTTTTGGAAAG--GTGT
90178313 TATTTTTGTTTTTTGGAAAGG
1 T-TTTTT-TTTTTTGGAAAGG
90178334 CTAGTTTGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 14 0.37
22 2 0.05
23 4 0.11
24 6 0.16
25 12 0.32
ACGTcount: A:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (22 bp):
TTTTTTTTTTTTGGAAAGGTGT
Found at i:90178650 original size:3 final size:3
Alignment explanation
Indices: 90178634--90178709 Score: 72
Period size: 3 Copynumber: 25.3 Consensus size: 3
90178624 CGTTTTATAT
90178634 TTA TTA TT- TT- TTA TTA TTA TATA TTA -TA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
90178676 TCTCA TGTA TATA TTA TTA TTA -TA TTA TTA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA TTA TTA TTA TTA T
90178710 ATATATATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
2 9 0.14
3 45 0.70
4 8 0.12
5 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:90178658 original size:24 final size:25
Alignment explanation
Indices: 90178629--90178718 Score: 85
Period size: 30 Copynumber: 3.4 Consensus size: 25
90178619 AGCTTCGTTT
90178629 TATATTTATTATT-TTTTATTATTA
1 TATATTTATTATTATTTTATTATTA
90178653 TATATTATATTATTATTATTATT-TCTCA
1 TATATT-TATTATTATT-TTATTAT-T-A
*
90178681 TGTATATATTATTATTATATTATTATTA
1 --TATAT-TTATTATTATTTTATTATTA
*
90178709 TATATATATT
1 TATATTTATT
90178719 GCCCTCTCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
24 6 0.11
25 11 0.20
26 8 0.15
27 6 0.11
28 2 0.04
29 6 0.11
30 15 0.27
31 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (25 bp):
TATATTTATTATTATTTTATTATTA
Found at i:90178751 original size:11 final size:11
Alignment explanation
Indices: 90178729--90178830 Score: 50
Period size: 11 Copynumber: 8.8 Consensus size: 11
90178719 GCCCTCTCCA
90178729 TATTATTTATAT
1 TATTA-TTATAT
90178741 TATTATTATAT
1 TATTATTATAT
*
90178752 TATTGTTACT-T
1 TATTATTA-TAT
*
90178763 TATTATT-TTT
1 TATTATTATAT
*
90178773 TATT-TCTAACTAC
1 TATTAT-T-A-TAT
90178786 TATTATTATATAT
1 TATTA-T-TATAT
90178799 ATATTATGTATAT
1 -TATTAT-TATAT
* *
90178812 TGTT-TTTTAT
1 TATTATTATAT
90178822 TATTATTAT
1 TATTATTAT
90178831 TATATCACCC
Statistics
Matches: 69, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
9 2 0.03
10 13 0.19
11 24 0.35
12 9 0.13
13 13 0.19
14 6 0.09
15 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (11 bp):
TATTATTATAT
Found at i:90178957 original size:20 final size:20
Alignment explanation
Indices: 90178934--90178973 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
90178924 TATATTAGTG
*
90178934 TATATTTTTATGTATATATA
1 TATATTTATATGTATATATA
*
90178954 TATATTTATATTTATATATA
1 TATATTTATATGTATATATA
90178974 GTTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATATTTATATGTATATATA
Found at i:90179011 original size:27 final size:30
Alignment explanation
Indices: 90178983--90179038 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
90178973 AGTTTTTTTA
90178983 TTACTTTAATTT-AATATTT-TTATTATAT
1 TTACTTTAATTTCAATATTTATTATTATAT
* * *
90179011 TTGCTTTTATTTCTATATTTATTATTAT
1 TTACTTTAATTTCAATATTTATTATTAT
90179039 TATATAGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.43
29 6 0.26
30 7 0.30
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (30 bp):
TTACTTTAATTTCAATATTTATTATTATAT
Found at i:90192569 original size:13 final size:14
Alignment explanation
Indices: 90192531--90192562 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
90192521 ATGCTTGTGT
90192531 GAAAATTCTATGAG
1 GAAAATTCTATGAG
90192545 GAAAATTCTATGAG
1 GAAAATTCTATGAG
90192559 GAAA
1 GAAA
90192563 TTTTATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (14 bp):
GAAAATTCTATGAG
Found at i:90193988 original size:43 final size:42
Alignment explanation
Indices: 90193922--90194009 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
90193912 TTCGTGAGAT
*
90193922 ATGTGGCATCCAAGCTCGTTGAGTGGTTCGAGTTCATTATGG
1 ATGTGGCATCCAAGCTCGTTGAGTGATTCGAGTTCATTATGG
* *
90193964 ATGTGAGCATCCGAGCTTGTTGAGTGATTCGAGTTCATTATGG
1 ATGTG-GCATCCAAGCTCGTTGAGTGATTCGAGTTCATTATGG
90194007 ATG
1 ATG
90194010 AGAGGATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (42 bp):
ATGTGGCATCCAAGCTCGTTGAGTGATTCGAGTTCATTATGG
Found at i:90203805 original size:24 final size:25
Alignment explanation
Indices: 90203762--90203824 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 25
90203752 TTCTCCTAAA
* *
90203762 TTTCAATTTAATTTAATTATT-TATT
1 TTTCAAATT-ATTGAATTATTATATT
90203787 TTTCAAATTATTGAATTATTAATATT
1 TTTCAAATTATTGAATTATT-ATATT
90203813 TTATGCAAATTA
1 TT-T-CAAATTA
90203825 AATTTTTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 10 0.31
25 8 0.25
26 6 0.19
27 1 0.03
28 7 0.22
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTCAAATTATTGAATTATTATATT
Found at i:90207385 original size:20 final size:22
Alignment explanation
Indices: 90207356--90207396 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
90207346 GTTTATAAGC
*
90207356 AATTAGATG-TACTTA-ATATT
1 AATTAAATGTTACTTATATATT
90207376 AATTAAATGTTACTTATATAT
1 AATTAAATGTTACTTATATAT
90207397 GCTGAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
AATTAAATGTTACTTATATATT
Found at i:90208127 original size:2 final size:2
Alignment explanation
Indices: 90208120--90208145 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
90208110 TGTTTGGATC
90208120 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
90208146 ATGATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90211942 original size:2 final size:2
Alignment explanation
Indices: 90211935--90211975 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
90211925 CATTCAAAGG
*
90211935 CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
90211976 TTTCATCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.49, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:90214008 original size:40 final size:40
Alignment explanation
Indices: 90213964--90214044 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
90213954 TCAAATAAAT
90213964 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
90214004 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
90214044 T
1 T
90214045 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:90214053 original size:20 final size:19
Alignment explanation
Indices: 90214030--90214087 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
90214020 AACAATACAC
90214030 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
90214050 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
90214071 AAATT-AAAATATAAATA
1 AAATTGAAAATATAAATA
90214088 TAATTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 4 0.13
19 1 0.03
20 14 0.47
21 10 0.33
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:90220806 original size:2 final size:2
Alignment explanation
Indices: 90220799--90220855 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
90220789 TCAAAGGCAT
90220799 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
90220841 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
90220856 TACTTTCATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:90221957 original size:24 final size:26
Alignment explanation
Indices: 90221930--90221978 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
90221920 AATTAATGCA
90221930 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
90221954 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
90221979 ACATACCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:90223982 original size:30 final size:31
Alignment explanation
Indices: 90223946--90224015 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
90223936 TTGCACAAGA
* * * **
90223946 GTAAATATTCAAAATTTGAGGGGTTAA-AGT
1 GTAAATATTAAAAAGTTGAAGGACTAATAGT
*
90223976 GTAAATATGAAAAAGTTGAAGGACTAATAGT
1 GTAAATATTAAAAAGTTGAAGGACTAATAGT
90224007 GTAAATATT
1 GTAAATATT
90224016 TTAAGGGTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (31 bp):
GTAAATATTAAAAAGTTGAAGGACTAATAGT
Found at i:90224499 original size:21 final size:21
Alignment explanation
Indices: 90224475--90224515 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90224465 ATATATATTT
90224475 ATTAATA-ATAAATTATATTAA
1 ATTAATATAT-AATTATATTAA
*
90224496 ATTAATTTATAATTATATTA
1 ATTAATATATAATTATATTA
90224516 TAAGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAATATATAATTATATTAA
Found at i:90226587 original size:46 final size:46
Alignment explanation
Indices: 90226535--90226854 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
90226525 GCTCTTTGAA
**
90226535 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
90226581 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
90226627 ATGAAATGTCTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
90226673 AAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ** *
90226719 GGGAAATGAATAAGACCATGGTTGAAAGATACTATGGCCGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
90226765 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
90226811 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
90226855 TCAAAGATAA
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 245 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:90228398 original size:222 final size:216
Alignment explanation
Indices: 90227962--90228399 Score: 574
Period size: 222 Copynumber: 2.0 Consensus size: 216
90227952 TAGTCAATTG
* * * ** *
90227962 GGTATACGACTTTTGCAGTTTGTAACGTCATTCATAATAGTGGAATTTATAGCCCAATAAATGGG
1 GGTATACGACTTGTGCAGTATGTAACGTCATTCATAACAGTGGAATCCATAGCCCAAGAAATGGG
* * * *
90228027 TAAATGATATCCTCTCATTAGCATTACATGGTTGATGAAAAGTAAATATGGCCACTGGTCATTTG
66 T--ATGATATCCTCTCATTAGCATTACATGGTTGATGAAAAGTAAACATGGCCACGGGTCACTCG
* *
90228092 TTTATGTGTTGAATTACTCTTTGATAGTAATTGACTTTTCATGAAGGAAGATGTACTAGATAGCA
129 TTTATGTGTTGAATTACTATTTAATAGTAATTGACTTTTCATGAAGGAAGATGTACTAGATAGCA
90228157 TGAGATAAAATAAGATCATATTT
194 TGAGATAAAATAAGATCATATTT
*
90228180 GGTATACGACTTGTGCAGTATGTAGCGTCATTCATAACAGTGGAATCCATAGCCCAAGAAATGGG
1 GGTATACGACTTGTGCAGTATGTAACGTCATTCATAACAGTGGAATCCATAGCCCAAGAAATGGG
* * *
90228245 T-T-ATATCTTCTTATTGGCATTACATGGTTGATGAAAAGTAAACATGGCCACGGGTCACTCGTT
66 TATGATATCCTCTCATTAGCATTACATGGTTGATGAAAAGTAAACATGGCCACGGGTCACTCGTT
* * *
90228308 TATGTGATGAATGACCTGATTATTATTTAATAGTAATTGACTTTTCATGAAGGAAGATGTATTGG
131 TATGTG-T---TGA----ATTACTATTTAATAGTAATTGACTTTTCATGAAGGAAGATGTACTAG
* * *
90228373 TTATCATGAGATAAAATAGGATCATAT
188 ATAGCATGAGATAAAATAAGATCATAT
90228400 AGGGAGAACG
Statistics
Matches: 190, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
214 60 0.32
215 2 0.01
218 62 0.33
222 66 0.35
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (216 bp):
GGTATACGACTTGTGCAGTATGTAACGTCATTCATAACAGTGGAATCCATAGCCCAAGAAATGGG
TATGATATCCTCTCATTAGCATTACATGGTTGATGAAAAGTAAACATGGCCACGGGTCACTCGTT
TATGTGTTGAATTACTATTTAATAGTAATTGACTTTTCATGAAGGAAGATGTACTAGATAGCATG
AGATAAAATAAGATCATATTT
Found at i:90230584 original size:25 final size:23
Alignment explanation
Indices: 90230541--90230612 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
90230531 TTAATATTTT
90230541 TATATACAATA-AAATATAAATAA
1 TATATACAATATAAA-ATAAATAA
90230564 TATATACACCATATAAAATAATATAA
1 TATATACA--ATATAAAATAA-ATAA
* *
90230590 TAATATATAATATAATA-AAATAA
1 T-ATATACAATATAAAATAAATAA
90230613 ATGGATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
23 12 0.29
24 2 0.05
25 14 0.33
26 8 0.19
27 6 0.14
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
TATATACAATATAAAATAAATAA
Found at i:90230593 original size:8 final size:8
Alignment explanation
Indices: 90230580--90230612 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
90230570 CACCATATAA
90230580 AATAATAT
1 AATAATAT
90230588 AATAATAT
1 AATAATAT
90230596 -ATAATAT
1 AATAATAT
*
90230603 AATAAAAT
1 AATAATAT
90230611 AA
1 AA
90230613 ATGGATTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:90230597 original size:20 final size:20
Alignment explanation
Indices: 90230548--90230613 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
90230538 TTTTATATAC
90230548 AATAAAATAT-AAATAATAT
1 AATAAAATATAAAATAATAT
*
90230567 -ATACACCATATAAAATAATAT
1 AATA-A-AATATAAAATAATAT
* * *
90230588 AATAATATATAATATAATAA
1 AATAAAATATAAAATAATAT
90230608 AATAAA
1 AATAAA
90230614 TGGATTTCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.08
19 1 0.03
20 21 0.55
21 10 0.26
22 3 0.08
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAAATATAAAATAATAT
Found at i:90230691 original size:41 final size:41
Alignment explanation
Indices: 90230630--90230721 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 41
90230620 TCCAATACTT
* **
90230630 AATAATAAAGTATATAAATATAACATATAATTTTAATATAA
1 AATAATAAAGTATATAAATATAACATAAAATAATAATATAA
* *
90230671 AATAATAATGAGTAT-T-AATATAATATAAAATAATAATATAC
1 AATAATAA--AGTATATAAATATAACATAAAATAATAATATAA
90230712 AATAAATAAA
1 AAT-AATAAA
90230722 TAATAATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
40 1 0.02
41 31 0.72
42 6 0.14
43 5 0.12
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (41 bp):
AATAATAAAGTATATAAATATAACATAAAATAATAATATAA
Found at i:90230723 original size:28 final size:28
Alignment explanation
Indices: 90230663--90230723 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
90230653 CATATAATTT
** *
90230663 TAATATAAAATAATAATGAGTATTAATA
1 TAATATAAAATAATAATGACAATAAATA
*
90230691 TAATATAAAATAATAATATACAATAAATA
1 TAATATAAAATAATAAT-GACAATAAATA
90230720 -AATA
1 TAATA
90230724 ATAATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (28 bp):
TAATATAAAATAATAATGACAATAAATA
Found at i:90230724 original size:21 final size:22
Alignment explanation
Indices: 90230656--90230745 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 22
90230646 AATATAACAT
* *
90230656 ATAATTTTAATATAAA-ATAATA
1 ATAATATTAAAATAAATA-AATA
* *
90230678 ATGAGTATTAATATAATATAAAATA
1 AT-AATATTAAAATAA-AT-AAATA
*
90230703 ATAATA-TACAATAAATAAATA
1 ATAATATTAAAATAAATAAATA
90230724 ATAATATTTAAAATAAATAAAT
1 ATAATA-TTAAAATAAATAAAT
90230746 TTAAAAGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
21 11 0.20
22 4 0.07
23 30 0.54
24 4 0.07
25 6 0.11
26 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATATTAAAATAAATAAATA
Found at i:90230737 original size:15 final size:15
Alignment explanation
Indices: 90230719--90230751 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
90230709 TACAATAAAT
90230719 AAAT-AATAATATTTA
1 AAATAAATAA-ATTTA
90230734 AAATAAATAAATTTA
1 AAATAAATAAATTTA
90230749 AAA
1 AAA
90230752 GTGTAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAATAAATTTA
Found at i:90234529 original size:11 final size:11
Alignment explanation
Indices: 90234513--90234539 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
90234503 CAGACCATGC
90234513 AATAATATTAA
1 AATAATATTAA
90234524 AATAATATTAA
1 AATAATATTAA
90234535 AATAA
1 AATAA
90234540 AATTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATATTAA
Found at i:90239895 original size:26 final size:26
Alignment explanation
Indices: 90239858--90239993 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90239848 TGATACAAAT
* *
90239858 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90239884 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
90239910 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90239936 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90239962 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
90239988 TGATAA
1 TGATAA
90239994 GAATATAATG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:90241466 original size:28 final size:26
Alignment explanation
Indices: 90241435--90241509 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
90241425 AAAAGCAGCT
*
90241435 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATAATACCCCTA-G-ATGCA
* *
90241463 AAATTACTGTTATACCCCTAGATGCA
1 AAATTACTATAATACCCCTAGATGCA
* *
90241489 AAATTACCAAAATACCCCTAG
1 AAATTACTATAATACCCCTAG
90241510 GGTTAAATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.52
27 1 0.03
28 18 0.45
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGATGCA
Found at i:90244611 original size:40 final size:40
Alignment explanation
Indices: 90244567--90244758 Score: 156
Period size: 40 Copynumber: 4.8 Consensus size: 40
90244557 TATAACCACA
* * *
90244567 TGCACGAATGCCTTCAGGTCTTAGTCCGGATAGAACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACT
* * * **
90244607 TGCACAAATGCCTTCGGGTATTAGCCCGAATTTAACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACT
*
90244647 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGA--TAGAACAACT
* * * ** *
90244687 AGCA-TAATTGCCTTCGGGTCTTAACCCGGATTTAACTACT
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAGAACAACT
* ** * *
90244727 AGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATA
90244759 TCATTTAATT
Statistics
Matches: 121, Mismatches: 25, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 113 0.93
41 3 0.02
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACAACT
Found at i:90244700 original size:80 final size:81
Alignment explanation
Indices: 90244567--90244757 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 81
90244557 TATAACCACA
* * * *
90244567 TGCACGAATGCCTTCAGGTCTTAGTCCGGA-TAGAACGACTTGCACAAATGCCTTCGGGTATTAG
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCCTTCGGGTATTAA
90244631 CCCGAATTTAACAACT
66 CCCGAATTTAACAACT
* * * *
90244647 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAATTGCCTTCGGGTCTTA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAATGCCTTCGGGTATTA
* *
90244710 ACCCGGATTTAACTACT
65 ACCCGAATTTAACAACT
* ** * *
90244727 AGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
90244758 ATCATTTAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
79 1 0.01
80 89 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (81 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCCTTCGGGTATTAA
CCCGAATTTAACAACT
Found at i:90249302 original size:2 final size:2
Alignment explanation
Indices: 90249295--90249327 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
90249285 TCCAAAGGCT
90249295 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
90249328 TTGCGATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:90272049 original size:30 final size:30
Alignment explanation
Indices: 90272013--90272172 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
90272003 GACAAGATTG
* * * * *
90272013 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
90272043 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
90272071 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90272100 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90272130 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90272159 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90272173 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:90272140 original size:59 final size:57
Alignment explanation
Indices: 90272013--90272172 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
90272003 GACAAGATTG
* * * * * *
90272013 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
90272071 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
90272130 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
90272173 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:90279962 original size:30 final size:30
Alignment explanation
Indices: 90279926--90280085 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
90279916 GACAAGATTG
* * * * *
90279926 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
90279956 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
90279984 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90280013 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90280043 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90280072 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90280086 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:90280053 original size:59 final size:57
Alignment explanation
Indices: 90279926--90280085 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
90279916 GACAAGATTG
* * * * * *
90279926 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
90279984 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
90280043 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
90280086 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:90286466 original size:30 final size:30
Alignment explanation
Indices: 90286430--90286560 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
90286420 GACAAGATTG
* * * * *
90286430 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
90286460 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
90286488 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90286518 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90286547 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90286561 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:90286521 original size:58 final size:58
Alignment explanation
Indices: 90286430--90286560 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
90286420 GACAAGATTG
* * * * * *
90286430 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
90286488 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
90286547 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90286561 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:90294390 original size:30 final size:30
Alignment explanation
Indices: 90294354--90294484 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
90294344 GACAAGATTG
* * * * *
90294354 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
90294384 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
90294412 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90294442 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
90294471 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90294485 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:90294445 original size:58 final size:58
Alignment explanation
Indices: 90294354--90294484 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
90294344 GACAAGATTG
* * * * * *
90294354 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
90294412 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
90294471 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90294485 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:90298419 original size:28 final size:28
Alignment explanation
Indices: 90298354--90298454 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
90298344 ATAGTGAATC
*
90298354 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
90298383 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
90298411 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
90298441 CGCACACTTAGTGC
1 CGCACACTTAGTGC
90298455 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:90306364 original size:28 final size:28
Alignment explanation
Indices: 90306299--90306399 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
90306289 ATAGTGAATC
*
90306299 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
90306328 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
90306356 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
90306386 CGCACACTTAGTGC
1 CGCACACTTAGTGC
90306400 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:90308760 original size:40 final size:40
Alignment explanation
Indices: 90308528--90308753 Score: 228
Period size: 40 Copynumber: 5.7 Consensus size: 40
90308518 TCGAATGATG
* * *
90308528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
90308568 TCCGGACTATGAT-CCGAAGGCATTCGTGCGAGTGACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
90308608 TCCGGACTATGAT-CCAAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90308648 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90308688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
**
90308729 -CCGGGCTATTTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90308754 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 157 0.94
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90308760 original size:80 final size:79
Alignment explanation
Indices: 90308528--90308753 Score: 251
Period size: 80 Copynumber: 2.8 Consensus size: 79
90308518 TCGAATGATG
* * *
90308528 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTATGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAT-ATCCGAAGGCATT
* *
90308592 CGTGCGAGTGACTATA
64 TGTGCGAGTGACTAAA
* * * * *
90308608 TCCGGACTATGAT-CCAAAGGCATTCGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACT-ATATCCGAAGGCAT
*
90308671 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTGACTAAA
* * *
90308688 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATTTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTATAT-CCGAAGGCATTT
90308753 G
65 G
90308754 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
79 4 0.03
80 106 0.88
81 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTATATCCGAAGGCATTTG
TGCGAGTGACTAAA
Found at i:90318730 original size:44 final size:44
Alignment explanation
Indices: 90318680--90318768 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
90318670 GCAAAATAAA
90318680 ACATAGCAAGCATTAATAAATGCTTCTTTAAAAAGAAAAAGACT
1 ACATAGCAAGCATTAATAAATGCTTCTTTAAAAAGAAAAAGACT
90318724 ACATAGCAAGCATTAATAAATGCTTCTTTAAAAAGAAAAAGACT
1 ACATAGCAAGCATTAATAAATGCTTCTTTAAAAAGAAAAAGACT
90318768 A
1 A
90318769 AGTGATGTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.25
Consensus pattern (44 bp):
ACATAGCAAGCATTAATAAATGCTTCTTTAAAAAGAAAAAGACT
Found at i:90319506 original size:8 final size:8
Alignment explanation
Indices: 90319493--90319523 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
90319483 GTGTTCATGC
90319493 TAAAAAAA
1 TAAAAAAA
90319501 T-AAAAAA
1 TAAAAAAA
90319508 TAAAAAAA
1 TAAAAAAA
90319516 TAAAAAAA
1 TAAAAAAA
90319524 CAGAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:90319530 original size:15 final size:15
Alignment explanation
Indices: 90319493--90319522 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90319483 GTGTTCATGC
90319493 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
90319508 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
90319523 ACAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:90323539 original size:30 final size:30
Alignment explanation
Indices: 90323503--90323593 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
90323493 AATCGGAAGT
90323503 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
90323533 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
90323563 TTTGGCACTAAGTGTGCGATTT-AACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
90323592 TT
1 TT
90323594 CGGCTATTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 9 0.15
30 52 0.85
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:90325243 original size:80 final size:80
Alignment explanation
Indices: 90325159--90325310 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
90325149 TATGGTAACC
* * * *
90325159 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90325223 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
90325239 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90325304 CCGGATA
66 CCGGATA
90325311 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90325311 original size:40 final size:38
Alignment explanation
Indices: 90325168--90325312 Score: 146
Period size: 40 Copynumber: 3.7 Consensus size: 38
90325158 CCGCACCAAG
* * * *
90325168 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACGACTAGCAC-AAT
* * * *
90325208 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATA-TACGACTAGCAC-AAT
* *
90325248 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CGACTAGCACAA-T
90325288 GCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGTCTTAACCCGGATATA
90325313 ATTTCCAGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 86 0.97
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACGACTAGCACAAT
Found at i:90325328 original size:40 final size:38
Alignment explanation
Indices: 90325203--90325350 Score: 138
Period size: 40 Copynumber: 3.8 Consensus size: 38
90325193 ACGATTTGCA
* *
90325203 CAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-G
1 CAAATGCCTTCGGGTCTTAGCCCGGATATAATTAC-CAG
*** *
90325241 CACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAG
1 CA--AATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
* *
90325281 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
*
90325321 CATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 CA-AA-TGCCTTCGGGTCTTAGCCCGGATAT
90325351 CATTCAATTT
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.02
39 15 0.16
40 74 0.81
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATATAATTACCAG
Found at i:90325334 original size:80 final size:79
Alignment explanation
Indices: 90325200--90325350 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
90325190 ATCACGATTT
*
90325200 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
90325265 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
90325280 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
90325343 CCGGATAT
64 CCGGATAT
90325351 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:90331755 original size:29 final size:29
Alignment explanation
Indices: 90331722--90331823 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
90331712 TGACGAGATC
90331722 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
90331751 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
90331780 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
90331809 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
90331824 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Done.