Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold198
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: 3915534
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 240068 characters in sequence are not A, C, G, or T
File 4 of 13
Found at i:813690 original size:14 final size:14
Alignment explanation
Indices: 813671--813702 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
813661 AGATTCAATA
813671 AAAAAATCAAAATC
1 AAAAAATCAAAATC
*
813685 AAAAAATTAAAATC
1 AAAAAATCAAAATC
813699 AAAA
1 AAAA
813703 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAAATCAAAATC
Found at i:813710 original size:14 final size:14
Alignment explanation
Indices: 813671--813710 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
813661 AGATTCAATA
*
813671 AAAAAATCAAAATC
1 AAAAAATAAAAATC
*
813685 AAAAAATTAAAATC
1 AAAAAATAAAAATC
*
813699 AAAATATAAAAA
1 AAAAAATAAAAA
813711 AATGAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAAATAAAAATC
Found at i:814597 original size:8 final size:7
Alignment explanation
Indices: 814577--814623 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
814567 AAAAAAAATG
814577 ATGAAAA
1 ATGAAAA
814584 ATGAAAA
1 ATGAAAA
814591 CATGAAAA
1 -ATGAAAA
814599 ATGAAAAA
1 ATG-AAAA
814607 ATGAAAA
1 ATGAAAA
814614 A-GTAAAA
1 ATG-AAAA
814621 ATG
1 ATG
814624 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 1 0.03
7 20 0.56
8 15 0.42
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:814597 original size:15 final size:15
Alignment explanation
Indices: 814577--814623 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
814567 AAAAAAAATG
*
814577 ATGAAAAATGAAAAC
1 ATGAAAAATGAAAAA
814592 ATGAAAAATGAAAAA
1 ATGAAAAATGAAAAA
*
814607 ATGAAAAA-GTAAAA
1 ATGAAAAATGAAAAA
814621 ATG
1 ATG
814624 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 8 0.27
15 22 0.73
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (15 bp):
ATGAAAAATGAAAAA
Found at i:815991 original size:46 final size:45
Alignment explanation
Indices: 815808--816185 Score: 170
Period size: 44 Copynumber: 8.6 Consensus size: 45
815798 AAAATGATGA
* ** * *
815808 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG---CCAG
1 ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATACAG
* * * * * *
815850 TAATCCTATTTCCCTGAGATTACAGTGGAA-CGAATTAA-AATAAAGG
1 --ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATACA-G
* * * * *
815896 ATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-T--CGCAT-CAG
1 ATCTTATCTCCCTGAGA-TTACAGTGGAATAGACTGAAGAATACAG
* * *
815937 GTCTTATCTTCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
1 ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAA-TACAG
* * *
815983 ATCTTATCTCCCTGAGATTACAG-CGAAGTAGATTGAAG---CCAG
1 ATCTTATCTCCCTGAGATTACAGTGGAA-TAGACTGAAGAATACAG
* * * ** * *
816025 TAATCCTATTTCCCTGAGATTACAGTAGAACGGA-TTAA-AATAAAG
1 --ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATACAG
* * * * *
816070 AATATTATCTCTCC-GA-AGTTACAGTAGAGTAGA-T--CGTAT-CAG
1 -ATCTTATCTC-CCTGAGA-TTACAGTGGAATAGACTGAAGAATACAG
* *
816112 GTCTTATCTCCCTGATATTACAGTGGAATAGACTGAAGAATTACAG
1 ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAA-TACAG
816158 ATCTTATCTCCCTGAGATTACAGTGGAA
1 ATCTTATCTCCCTGAGATTACAGTGGAA
816186 CAGATTAAAG
Statistics
Matches: 247, Mismatches: 57, Indels: 58
0.68 0.16 0.16
Matches are distributed among these distances:
40 2 0.01
41 49 0.20
42 9 0.04
43 14 0.06
44 96 0.39
45 15 0.06
46 62 0.25
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (45 bp):
ATCTTATCTCCCTGAGATTACAGTGGAATAGACTGAAGAATACAG
Found at i:816099 original size:175 final size:175
Alignment explanation
Indices: 815808--816180 Score: 647
Period size: 175 Copynumber: 2.1 Consensus size: 175
815798 AAAATGATGA
*
815808 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * * *
815873 AGTGGAACGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTAGAACGAATTAAAATAAAGAATATTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGG
*
815938 TCTTATCTTCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
*
815983 ATCTTATCTCCCTGAGATTACAGCGAAGTAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* *
816048 AGTAGAACGGATTAAAATAAAGAATATTATCTCTCCGAAGTTACAGTAGAGTAGATCGTATCAGG
66 AGTAGAACGAATTAAAATAAAGAATATTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGG
* *
816113 TCTTATCTCCCTGATATTACAGTGGAATAGACTGAAGAATTACAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
816158 ATCTTATCTCCCTGAGATTACAG
1 ATCTTATCTCCCTGAGATTACAG
816181 TGGAACAGAT
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 187 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTAGAACGAATTAAAATAAAGAATATTATCTCTCCGAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
Found at i:816351 original size:100 final size:100
Alignment explanation
Indices: 816178--816895 Score: 1091
Period size: 100 Copynumber: 7.2 Consensus size: 100
816168 CCTGAGATTA
* * * *
816178 CAGTGGAACAGATTAAAGTCACATCGGTGAATCTCGCTTCCCTGACGTTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
816243 AAGCCACAGTGGCGAATCCTACTTCCTTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
*
816278 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGGTTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
816343 AAGCCACAGTGGCGAATCCTACTT-CTCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCT-TGGCGGTG
* * * * *
816378 CAGTAGAGCAGATTAAAGCCATATCGGTGAATCTCGCTTCTCTGACATTGTAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * * **
816443 AAGCCACAGCGGTGAATCATACTTCCCTATCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
* * *
816478 CAATGGAGCAGATTAAAGCCATATCAGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
816543 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
* * * *
816578 TAGTTGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGATATTGCAGTTAAAAAGGTTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
816643 AAGCCACAGCGGCAAATCCTGCTT-CTCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCT-TGGCGGTG
* *
816678 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCTCCGACATTGCAGTTCAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
816743 AAGCCACAGCGGCGAATCCTACTTCCCTAGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
816778 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * *
816843 AAGCCACAGCGGCAAATCTTACTTCCCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
*
816878 CAGTGGA-CAGATTGAAGC
1 CAGTGGAGCAGATTAAAGC
816896 TACAACAGTA
Statistics
Matches: 561, Mismatches: 53, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
99 14 0.02
100 545 0.97
101 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (100 bp):
CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
AAGCCACAGCGGCGAATCCTACTTCCTTGGCGGTG
Found at i:817516 original size:13 final size:13
Alignment explanation
Indices: 817486--817510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
817476 GGGGGATTTG
817486 ATTTTTATTTTTT
1 ATTTTTATTTTTT
817499 ATTTTTATTTTT
1 ATTTTTATTTTT
817511 CTTTTTCTTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:818345 original size:18 final size:18
Alignment explanation
Indices: 818314--818348 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
818304 ATCATTATTG
818314 TTAGTATTATTATTTATA
1 TTAGTATTATTATTTATA
818332 TTAGT-TTATATATTTAT
1 TTAGTATTAT-TATTTAT
818349 CTACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TTAGTATTATTATTTATA
Found at i:818503 original size:12 final size:12
Alignment explanation
Indices: 818486--818511 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
818476 CAAAACAGGC
818486 TTTTAGCAGCGT
1 TTTTAGCAGCGT
818498 TTTTAGCAGCGT
1 TTTTAGCAGCGT
818510 TT
1 TT
818512 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCAGCGT
Found at i:818571 original size:40 final size:39
Alignment explanation
Indices: 818517--818644 Score: 116
Period size: 40 Copynumber: 3.2 Consensus size: 39
818507 CGTTTGGACA
* * *
818517 AAAAACGCCACTAAAAATCGAGCATTAGCGGTACTTTTAT-
1 AAAAACGCCTCTAAAAAT-AAGCATTAGCGGCACTTTT-TG
** * *
818557 AAAAACGCCTCTAAAGGTATAGCATTAGCAGCGCTTTTTG
1 AAAAACGCCTCTAAAAATA-AGCATTAGCGGCACTTTTTG
* *
818597 GAAAACGCCTCTAAAAATAAGCATTAGCGGC-GTTTTCTG
1 AAAAACGCCTCTAAAAATAAGCATTAGCGGCACTTTT-TG
*
818636 AAAAGCGCC
1 AAAAACGCC
818645 GCAAAAAGCC
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
38 4 0.06
39 21 0.30
40 46 0.65
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (39 bp):
AAAAACGCCTCTAAAAATAAGCATTAGCGGCACTTTTTG
Found at i:818756 original size:41 final size:41
Alignment explanation
Indices: 818688--818928 Score: 313
Period size: 41 Copynumber: 5.9 Consensus size: 41
818678 GAGTTTTTGG
*
818688 GGCCTTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
** * * *
818729 GGCCTTTAACGGTATTTCTAAAAAAGCGCCGCTAATGCTCG
1 GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* * * *
818770 GGCCTTTAGCGGCGTTTTTGTAGAAGCGCCACTAATGCTCT
1 GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* **
818811 GGCTTTTAACGGCGTTTTTGATGAAGCGCCGCTAATGCTC-
1 GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* *
818851 GGACCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAATGCTCT
1 GG-CCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
* *
818893 GGACTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAAT
818929 AATAATAAAA
Statistics
Matches: 173, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 2 0.01
41 169 0.98
42 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (41 bp):
GGCCTTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:818911 original size:123 final size:123
Alignment explanation
Indices: 818692--818928 Score: 350
Period size: 123 Copynumber: 1.9 Consensus size: 123
818682 TTTTGGGGCC
*
818692 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAACGGTATTTCTAAAAAAGCG
1 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAACGGCATTTCTAAAAAAGCG
* * *
818757 CCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGTAGAAGCGCCACTAATGCTCTGGCT
66 CCGCTAATGCTCGGGACTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCTGGCT
* * * * * *
818815 TTTAACGGCGTTTTTGATGAAGCGCCGCTAATGCTC-GGACCTTTAGCGGCGTTTTTGATAAAGC
1 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGG-CCTTTAACGGCATTTCTAAAAAAGC
* *
818879 GCCGCTAATGCTCTGGACTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
65 GCCGCTAATGCTCGGGACTTTAGCGGCGTTTTTGAAAAAGCGCCACTAAT
818929 AATAATAAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
122 2 0.02
123 99 0.98
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (123 bp):
TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGCCTTTAACGGCATTTCTAAAAAAGCG
CCGCTAATGCTCGGGACTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCTGGCT
Found at i:820515 original size:148 final size:148
Alignment explanation
Indices: 820363--820629 Score: 371
Period size: 148 Copynumber: 1.8 Consensus size: 148
820353 GATTTTTAGT
* *
820363 AAAAGGTAAGTAATAGCTG-CG-TTTTTATAAAAAATGCCACAAAAAATAATTTTACTTTAAAAA
1 AAAAGGTAAGCAATAGC-GACGTTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAA
* * *
820426 AATAGCT-CCTTTTTAGCATAGCAAAATAGTGTCGTTTTA-TTCTAAATAAAATAATTTTTTGCA
65 AAAAG-TGCCATTTTA-CATAGCAAAATAGTGTCATTTTATTTC-AAATAAAATAATTTTTTGCA
820489 GCGTTTTTATGAAAAACGCCGC
127 GCGTTTTTATGAAAAACGCCGC
* * * *
820511 AAAAGTTAAGCAATAGCGACGTTTTTTTTTAAAAACGCCACAAAAAATAATTTTATTTTAAAAAA
1 AAAAGGTAAGCAATAGCGACGTTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAA
* *
820576 AAAGTGTCATTTTATATAGCAAAATAGTGTCATTTTATTTCAAATAAAATAATT
66 AAAGTGCCATTTTACATAGCAAAATAGTGTCATTTTATTTCAAATAAAATAATT
820630 GTTGCGGCGT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
147 1 0.01
148 52 0.50
149 51 0.49
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (148 bp):
AAAAGGTAAGCAATAGCGACGTTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAA
AAAGTGCCATTTTACATAGCAAAATAGTGTCATTTTATTTCAAATAAAATAATTTTTTGCAGCGT
TTTTATGAAAAACGCCGC
Found at i:825231 original size:43 final size:43
Alignment explanation
Indices: 825164--825250 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
825154 GAGTTCATTG
* *
825164 CAAGATTTCCTTGATTAAATAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGATTAAATAAATGCATTATATCTTTTATTAC
* *
825207 CAAGATTTACTTGATTAAGA-AAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGATTAA-ATAAATGCATTATATCTTTTATTAC
825250 C
1 C
825251 TTGCATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAATAAATGCATTATATCTTTTATTAC
Found at i:832077 original size:38 final size:38
Alignment explanation
Indices: 832026--832101 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
832016 TAATGAAAAC
832026 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
1 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
832064 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
1 TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
832102 GAGGATTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (38 bp):
TTGGATAAAAAGAAAACCAAGTCTTACTTGTAGATAGG
Found at i:836393 original size:3 final size:3
Alignment explanation
Indices: 836380--836416 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
836370 TTAATCACTT
836380 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
836417 TTCCTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:862314 original size:21 final size:22
Alignment explanation
Indices: 862249--862320 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 22
862239 TGAGAAACCC
862249 CACA-TCTATTGTTTGAAGCGA
1 CACATTCTATTGTTTGAAGCGA
*
862270 CACCATTTCTTATGTTGCTTGAAGCGA
1 CA-CA-TTC-TA--TTGTTTGAAGCGA
862297 CAC-TTCTATTGTTTGAAGCGA
1 CACATTCTATTGTTTGAAGCGA
862318 CAC
1 CAC
862321 CACTCATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 17 0.40
22 2 0.05
23 2 0.05
24 5 0.12
25 2 0.05
26 1 0.02
27 14 0.33
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (22 bp):
CACATTCTATTGTTTGAAGCGA
Found at i:862324 original size:24 final size:24
Alignment explanation
Indices: 862248--862324 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
862238 ATGAGAAACC
*
862248 CCACATCTATTGTTTGAAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
* *
862272 CCATTTCTTATGTTGCTTGAAGCG--A
1 CCACTTC-TA--TTGTTTGAAGCGACA
862297 -CACTTCTATTGTTTGAAGCGACA
1 CCACTTCTATTGTTTGAAGCGACA
862320 CCACT
1 CCACT
862325 CATATAGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
21 11 0.26
23 3 0.07
24 14 0.33
25 3 0.07
27 11 0.26
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (24 bp):
CCACTTCTATTGTTTGAAGCGACA
Found at i:863043 original size:13 final size:13
Alignment explanation
Indices: 863025--863049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
863015 CACCCTGAAA
863025 TCTGGGTTAAATT
1 TCTGGGTTAAATT
863038 TCTGGGTTAAAT
1 TCTGGGTTAAAT
863050 CTGTAATTGT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
TCTGGGTTAAATT
Found at i:871251 original size:6 final size:6
Alignment explanation
Indices: 871240--871273 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
871230 ATAAACCTTA
871240 TATTAC TATTAC TATTAC TATTAC TATTAC TATT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATT
871274 TGATAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAC
Found at i:871474 original size:9 final size:9
Alignment explanation
Indices: 871457--871493 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
871447 TGAGTTTTTG
871457 AATTCGAAT
1 AATTCGAAT
*
871466 AACTCGAAT
1 AATTCGAAT
871475 AATTCGAAT
1 AATTCGAAT
871484 AATTCGAAT
1 AATTCGAAT
871493 A
1 A
871494 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:874669 original size:15 final size:16
Alignment explanation
Indices: 874649--874687 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
874639 CTACCATCGT
874649 CTTTCTTCTT-TTTTC
1 CTTTCTTCTTCTTTTC
*
874664 CTTTCTTCTTCTTTTT
1 CTTTCTTCTTCTTTTC
874680 C-TTCTTCT
1 CTTTCTTCT
874688 CGTCATCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
CTTTCTTCTTCTTTTC
Found at i:874811 original size:18 final size:18
Alignment explanation
Indices: 874790--874825 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
874780 TGGTCACGAT
*
874790 CACGACTGCTATCGCGAC
1 CACGACTACTATCGCGAC
*
874808 CACGGCTACTATCGCGAC
1 CACGACTACTATCGCGAC
874826 GACGGTCGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.17
Consensus pattern (18 bp):
CACGACTACTATCGCGAC
Found at i:874937 original size:21 final size:21
Alignment explanation
Indices: 874911--874952 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
874901 CTTTGCGTTC
*
874911 CTTGTGCTTATGGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
874932 CTTGTGCTTATCGTCATCTTT
1 CTTGTGCTTATCGTCATCTTT
874953 ATCACCAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.21, G:0.17, T:0.52
Consensus pattern (21 bp):
CTTGTGCTTATCGTCATCTTT
Found at i:875114 original size:105 final size:105
Alignment explanation
Indices: 874851--875114 Score: 413
Period size: 105 Copynumber: 2.5 Consensus size: 105
874841 GATCGTCATC
* * * * * * *
874851 CCCGTGGATCTTGTCTTTGATCTTATCTAGCATCCCTTCATCCTTGTGTTCTTTGCGTTCCTTGT
1 CCCGT-GATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTTGCGGTCCTTGT
*
874916 GCTTATGGTCATCTTTCTTGTGCTTATCGTCATCTTTATCA
65 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
*
874957 CCAGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTGC-TCTTTGCGGTCCTTGT
1 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGT-CTTCTTTGCGGTCCTTGT
875021 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
65 GCTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
*
875062 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCTTTGTCTTCTTT
1 CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTT
875115 ATGATCTTTA
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
104 1 0.01
105 140 0.97
106 4 0.03
ACGTcount: A:0.13, C:0.27, G:0.14, T:0.46
Consensus pattern (105 bp):
CCCGTGATCATGTCCTTGATTTTATCCATCATCCCTTCATCCTTGTCTTCTTTGCGGTCCTTGTG
CTTATGGTCATCTTTCTTATGCTTATCGTCATCTTTATCA
Found at i:875151 original size:18 final size:18
Alignment explanation
Indices: 875100--875152 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
875090 TCATCCCTTC
*
875100 ATCTTTGTC-TTCTTTATG
1 ATCTTTGTCTTTC-TTGTG
**
875118 ATCTTTACCTTTCTTGTG
1 ATCTTTGTCTTTCTTGTG
875136 ATCTTTGTCTTTCTTGT
1 ATCTTTGTCTTTCTTGT
875153 CCTTTTTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.09, C:0.19, G:0.11, T:0.60
Consensus pattern (18 bp):
ATCTTTGTCTTTCTTGTG
Found at i:876076 original size:19 final size:19
Alignment explanation
Indices: 876035--876076 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
876025 ATACCACCTA
* *
876035 TTTTTTAATAATTTTTTTG
1 TTTTTTAAAAATTATTTTG
876054 TTTTTTAAAAATATATTTT-
1 TTTTTTAAAAAT-TATTTTG
876073 TTTT
1 TTTT
876077 ATTATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTAAAAATTATTTTG
Found at i:876084 original size:24 final size:24
Alignment explanation
Indices: 876046--876093 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
876036 TTTTTAATAA
* *
876046 TTTTTTTGTTTTTTAAAAATATAT
1 TTTTTTTATTATTTAAAAATATAT
876070 TTTTTTTATTATTTAAAAATATAT
1 TTTTTTTATTATTTAAAAATATAT
876094 ATATCTGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTTTTATTATTTAAAAATATAT
Found at i:876378 original size:24 final size:24
Alignment explanation
Indices: 876334--876397 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
876324 GAGCAGGAGT
* *
876334 GAAGAAAAAAAGAGTGAAAGAAAGGA
1 GAAGAAAAAAAGA-AGAAAG-AAGAA
876360 GAAGAAAAAAAGAAG-AAGAAGAA
1 GAAGAAAAAAAGAAGAAAGAAGAA
*
876383 GAAAGAAAGAAAGAA
1 G-AAGAAAAAAAGAA
876398 AAAATGTAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.15
24 15 0.44
25 1 0.03
26 13 0.38
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (24 bp):
GAAGAAAAAAAGAAGAAAGAAGAA
Found at i:876392 original size:14 final size:14
Alignment explanation
Indices: 876349--876397 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
876339 AAAAAAGAGT
*
876349 GAAAGAAAGGAGAA
1 GAAAGAAAGAAGAA
*
876363 GAAAAAAAGAAGAA
1 GAAAGAAAGAAGAA
876377 G-AAG-AAG-A-AA
1 GAAAGAAAGAAGAA
876387 GAAAGAAAGAA
1 GAAAGAAAGAA
876398 AAAATGTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
10 3 0.10
11 4 0.14
12 6 0.21
13 3 0.10
14 13 0.45
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGAAGAA
Found at i:876392 original size:17 final size:17
Alignment explanation
Indices: 876349--876393 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
876339 AAAAAAGAGT
*
876349 GAAAGAAAGGAGAAGAA
1 GAAAGAAAGAAGAAGAA
*
876366 -AAAAAGAAGAAGAAGAA
1 GAAAGA-AAGAAGAAGAA
876383 GAAAGAAAGAA
1 GAAAGAAAGAA
876394 AGAAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAGAAGAA
Found at i:876732 original size:105 final size:105
Alignment explanation
Indices: 876612--877346 Score: 1368
Period size: 105 Copynumber: 7.0 Consensus size: 105
876602 TTGTGTTTAG
*
876612 TTTTTTATTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
876677 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
876717 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
876782 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
876822 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
876887 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
876927 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
876992 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
877032 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
877097 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
*
877137 TTTTTTTTTAAAAA-AATTTATAGTTTTTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
* *
877201 TGTTAAGTTTTGTGTTTTGTGATTTTTTTAGTAATGTAGA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
***
877241 TTTTTTTTTTTTAA-AATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
1 TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
* *
877305 TGTTTAGTTTAGTGTTTTGTGATTTTTT-AGTAATGTAAA
66 TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
877344 TTT
1 TTT
877347 ATTTGATTTT
Statistics
Matches: 619, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
103 13 0.02
104 173 0.28
105 433 0.70
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (105 bp):
TTTTTTTTTAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAG
TGTTAAGTTTAGTGTTTTGTGATTTTTTAAGTAATGTAGA
Found at i:879389 original size:33 final size:33
Alignment explanation
Indices: 879343--879460 Score: 114
Period size: 33 Copynumber: 3.6 Consensus size: 33
879333 CAGCCCACTA
*
879343 CCACCTTAGTACTCCACTCCTTCCGGCCCGTAT
1 CCACCTCAGTACTCCACTCCTTCCGGCCCGTAT
* * * *
879376 CCACCTCAATACTCCACTCCTCCCAGCCCATAT
1 CCACCTCAGTACTCCACTCCTTCCGGCCCGTAT
* * **
879409 CCACTTTAGTAC-CCACTCC-TCTCGGCTTGTAT
1 CCACCTCAGTACTCCACTCCTTC-CGGCCCGTAT
* *
879441 CCACCGCAGTACTTCACTCC
1 CCACCTCAGTACTCCACTCC
879461 CCAGCTCAAG
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
31 1 0.02
32 22 0.33
33 43 0.65
ACGTcount: A:0.19, C:0.46, G:0.09, T:0.26
Consensus pattern (33 bp):
CCACCTCAGTACTCCACTCCTTCCGGCCCGTAT
Found at i:879442 original size:65 final size:66
Alignment explanation
Indices: 879333--879460 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 66
879323 TTGATATCTT
*
879333 CAGCCCACTACCACCTTAGTACTCCACTCCTTCCGGCCCGTATCCACCTCAATACTCCACTCCTC
1 CAGCCCACTACCACCTTAGTACTCCACTCCTTCCGGCCCGTATCCACCGCAATACTCCACTCCTC
879398 C
66 C
* ** * *
879399 CAGCCCA-TATCCACTTTAGTAC-CCACTCC-TCTCGGCTTGTATCCACCGCAGTACTTCACTCC
1 CAGCCCACTA-CCACCTTAGTACTCCACTCCTTC-CGGCCCGTATCCACCGCAATACTCCACTCC
879461 CCAGCTCAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
64 2 0.04
65 34 0.63
66 18 0.33
ACGTcount: A:0.20, C:0.46, G:0.09, T:0.25
Consensus pattern (66 bp):
CAGCCCACTACCACCTTAGTACTCCACTCCTTCCGGCCCGTATCCACCGCAATACTCCACTCCTC
C
Found at i:879745 original size:75 final size:75
Alignment explanation
Indices: 879635--879789 Score: 231
Period size: 75 Copynumber: 2.1 Consensus size: 75
879625 TTTAAGGGGG
*
879635 TTTTGCAATTTGAATAATCAAGTTTGTATTTATGTAATGACTTTTTT-TCCATTTCAATTATTAA
1 TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGT-CATTTCAATTATTAA
879699 TTTTAGGGGTT
65 TTTTAGGGGTT
* * * * *
879710 TTTTTCAATTTAAATAGTTAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTTAGTTATTAAT
1 TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTCAATTATTAAT
879775 TTTAGGGGTT
66 TTTAGGGGTT
*
879785 CTTTG
1 TTTTG
879790 TATTATTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 70 0.99
76 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.54
Consensus pattern (75 bp):
TTTTGCAATTTAAATAATCAAGTTTGTATTTATGTAATGACTTTTTTGTCATTTCAATTATTAAT
TTTAGGGGTT
Found at i:893563 original size:17 final size:17
Alignment explanation
Indices: 893541--893593 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
893531 TGCTTTCATA
893541 TATTTGACTATCTTAAT
1 TATTTGACTATCTTAAT
* *
893558 TATTTG-CTTTCAT-A-
1 TATTTGACTATCTTAAT
893572 TATTTGACTATCTTAAT
1 TATTTGACTATCTTAAT
893589 TATTT
1 TATTT
893594 ATACACCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 6 0.21
17 11 0.38
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (17 bp):
TATTTGACTATCTTAAT
Found at i:893565 original size:31 final size:31
Alignment explanation
Indices: 893530--893593 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
893520 TTGCAGTTGA
893530 TTGCTTTCATATATTTGACTATCTTAATTAT
1 TTGCTTTCATATATTTGACTATCTTAATTAT
893561 TTGCTTTCATATATTTGACTATCTTAATTAT
1 TTGCTTTCATATATTTGACTATCTTAATTAT
893592 TT
1 TT
893594 ATACACCAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (31 bp):
TTGCTTTCATATATTTGACTATCTTAATTAT
Found at i:893577 original size:14 final size:14
Alignment explanation
Indices: 893530--893577 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
893520 TTGCAGTTGA
893530 TTGCTTTCATATAT
1 TTGCTTTCATATAT
* *
893544 TTGACTATCTTAATTAT
1 TTG-CTTTCAT-A-TAT
893561 TTGCTTTCATATAT
1 TTGCTTTCATATAT
893575 TTG
1 TTG
893578 ACTATCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 9 0.33
15 6 0.22
16 6 0.22
17 6 0.22
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.56
Consensus pattern (14 bp):
TTGCTTTCATATAT
Found at i:894444 original size:65 final size:66
Alignment explanation
Indices: 894322--894448 Score: 157
Period size: 65 Copynumber: 1.9 Consensus size: 66
894312 TATTGAAACT
* * * * *
894322 TTTAAATATTGTTCGCATATACATATATATAATCTAATTTTTAATTTCTTGATAAATTATATATA
1 TTTAAATATTGTTCACATATA-ATATATATAACCTAAGTTTTAATTTCTTCAGAAATTATATATA
894387 CA
65 CA
* * * *
894389 TTTAAATATTTTTCACATAT-ATATTTATAGCCTAAGTTTTAGTTTCTTCAGAAATTATAT
1 TTTAAATATTGTTCACATATAATATATATAACCTAAGTTTTAATTTCTTCAGAAATTATAT
894449 GTTTTTTGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 33 0.65
67 18 0.35
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (66 bp):
TTTAAATATTGTTCACATATAATATATATAACCTAAGTTTTAATTTCTTCAGAAATTATATATAC
A
Found at i:897108 original size:60 final size:60
Alignment explanation
Indices: 897015--897153 Score: 233
Period size: 60 Copynumber: 2.3 Consensus size: 60
897005 TAGGGTCTGA
*
897015 ATTTAGCTTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGAG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGAG
* *
897075 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGAG
* *
897135 ATTTAGCCTAGACTAGTAA
1 ATTTAGCCTGGACTGGTAA
897154 GGATGAGGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (60 bp):
ATTTAGCCTGGACTGGTAATTCAGATCCAAGCTCATTAGAGTAAATTGTCGTTGCAAGAG
Found at i:903301 original size:17 final size:18
Alignment explanation
Indices: 903268--903302 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
903258 GGAAACTTTG
903268 ATTGTTATCTGTCTATTA
1 ATTGTTATCTGTCTATTA
*
903286 ATTGTT-TCTGTTTATTA
1 ATTGTTATCTGTCTATTA
903303 CCATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (18 bp):
ATTGTTATCTGTCTATTA
Found at i:907644 original size:12 final size:12
Alignment explanation
Indices: 907627--907653 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
907617 GCTAACATAC
907627 AATAAACAATGA
1 AATAAACAATGA
907639 AATAAACAATGA
1 AATAAACAATGA
907651 AAT
1 AAT
907654 GTATGGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAACAATGA
Found at i:908971 original size:77 final size:77
Alignment explanation
Indices: 908811--909562 Score: 633
Period size: 77 Copynumber: 9.8 Consensus size: 77
908801 ATTGTGAATT
* * * * * *
908811 AGCGAACTATTAGAAAA-CTGAAAGTCGTGATATTAAATCAA-CGGACTGTAAAAATGACAGTCA
1 AGCGAACTATTAGAAAATC-GAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCG
*
908874 CGATATTAAATCA
65 CAATATTAAATCA
* ** * * *
908887 AGTGAACTATTAGAAAA-CTGATGGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGACAGCCG
1 AGCGAACTATTAGAAAATC-GAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCG
*
908951 CAATATTAAATCG
65 CAATATTAAATCA
* * * * * *
908964 AGCGAACTATTAGAATATCGAAGGTCGGGATCTTAAATCAAGCGAATCGTAAAAATGAAAACCGC
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGC
909029 AATATTAAATCA
66 AATATTAAATCA
* * * * * * * *
909041 AGTGAACTGTTAGAATATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGATAACCGC
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGC
909106 AATATTAAATCA
66 AATATTAAATCA
* * * * * * * * * *
909118 AGCAAACCA-TA-AAAAT-GATAGTCGCGATATTAAATCAAGCAAACTGTTAGAATATCAAAGGT
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCG-TA-AAAATGACA-GC
* *
909180 CGCGATCTTAAATCA
63 CGCAATATTAAATCA
* * * * ** * * *
909195 AACGAACTGTTAGAATATCGAAGGTCATGATCTTAAATCGAGCAAACCGTGAAAATGACA-CTCG
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGC-CG
* *
909259 CGATATTAAATCG
65 CAATATTAAATCA
* * * * * * * *
909272 AGCGAACTGTTAGAATATTGGATGTCGCGATCTTATATCGAGCGAACCGTAAAAATGACAGTCGC
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGC
*
909337 GATATTAAATCA
66 AATATTAAATCA
* *
909349 AGTGAAC-AGTTAGAATATC-AAATGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCC
1 AGCGAACTA-TTAGAAAATCGAAA-GTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCC
909412 GCAATATTAAATCA
64 GCAATATTAAATCA
* * * * * * * * * * *
909426 AGCGAATTGTTAGAATATCGAAGGTCGTGATATTAAATCGAGCAAACCATAAAAATGACAGCTGT
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGC
*
909491 GATATTAAATCA
66 AATATTAAATCA
* ** * * **
909503 AGCAAACTGCTAGAAAATCGAAGGTCGCGATATTAAATC-AGCGATTCGTAAAAATGACAG
1 AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAG
909563 TCAAACTAAA
Statistics
Matches: 549, Mismatches: 113, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
74 23 0.04
75 6 0.01
76 60 0.11
77 421 0.77
78 11 0.02
79 5 0.01
80 23 0.04
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (77 bp):
AGCGAACTATTAGAAAATCGAAAGTCGCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCCGC
AATATTAAATCA
Found at i:909042 original size:37 final size:37
Alignment explanation
Indices: 908913--909559 Score: 238
Period size: 37 Copynumber: 16.9 Consensus size: 37
908903 ACTGATGGTT
* * *
908913 GCAATCTTAAATCAAGTGAACCGTAAAAATGACAGCC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
* ** * * *
908950 GCAATATTAAATCGAGCGAACTATTAGAATATCGAAGGTC
1 GCAATATTAAATCAAGCGAAC-CGTA-AAAAT-GAAAGCC
** * * *
908990 GGGATCTTAAATCAAGCGAATCGTAAAAATGAAAACC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
* * * **
909027 GCAATATTAAATCAAGTGAACTGTTAGAATATCGAAAGTT
1 GCAATATTAAATCAAGCGAACCG-TA-AAAAT-GAAAGCC
* *
909067 GCAATCTTAAATCAAGTGAACCGTAAAAATGATAA-CC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGA-AAGCC
* * * *
909104 GCAATATTAAATCAAGCAAACCATAAAAATGATAGTC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
* * * * * *
909141 GCGATATTAAATCAAGCAAACTGTTAGAATATCAAAGGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AAAATGAAA-GCC
* * * * * * *
909181 GCGATCTTAAATCAAACGAACTGTTAGAATATCGAAGGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AAAAT-GAAAGCC
*** * * * * *
909221 ATGATCTTAAATCGAGCAAACCGTGAAAATGACA-CTC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGC-C
* * * * * * *
909258 GCGATATTAAATCGAGCGAACTGTTAGAATATTGGATGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AA-AATGAAAGCC
* * * * * *
909298 GCGATCTTATATCGAGCGAACCGTAAAAATGACAGTC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
* * * * * *
909335 GCGATATTAAATCAAGTGAACAGTTAGAATATCAAATGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AAAATGAAA-GCC
* * *
909375 GCGATCTTAAATCAAGCGAACCGTAAAAATGACAGCC
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
** * * *
909412 GCAATATTAAATCAAGCGAATTGTTAGAATATCGAAGGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AAAAT-GAAAGCC
** * * * * *
909452 GTGATATTAAATCGAGCAAACCATAAAAATGACAGCT
1 GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
** * * * *
909489 GTGATATTAAATCAAGCAAACTGCTAGAAAATCGAAGGTC
1 GCAATATTAAATCAAGCGAACCG-TA-AAAAT-GAAAGCC
* **
909529 GCGATATTAAATC-AGCGATTCGTAAAAATGA
1 GCAATATTAAATCAAGCGAACCGTAAAAATGA
909560 CAGTCAAACT
Statistics
Matches: 456, Mismatches: 128, Indels: 53
0.72 0.20 0.08
Matches are distributed among these distances:
36 3 0.01
37 184 0.40
38 41 0.09
39 47 0.10
40 179 0.39
41 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (37 bp):
GCAATATTAAATCAAGCGAACCGTAAAAATGAAAGCC
Found at i:909054 original size:154 final size:154
Alignment explanation
Indices: 908811--909562 Score: 727
Period size: 154 Copynumber: 4.9 Consensus size: 154
908801 ATTGTGAATT
* * * * * *
908811 AGCGAACTATTAGAA-AACTGAAAGTCGTGATATTAAATCAA-CGGACTGTAAAAATGACAGTCA
1 AGCGAACTATTAGAATATC-GAAGGTCGCGATATTAAATCAAGCGAACCGTAAAAATGACAGTCG
* * *
908874 CGATATTAAATCAAGTGAACTATTAGAAAA-CTGATGGTTGCAATCTTAAATCAAGTGAACCGTA
65 CGATATTAAATCAAGTGAACTGTTAGAAAATC-GAAGGTTGCAATCTTAAATCAAGCGAACCGTA
*
908938 AAAATGACAGCCGCAATATTAAATCG
129 AAAATGACAGCCGCAATATTAAATCA
* * * * **
908964 AGCGAACTATTAGAATATCGAAGGTCGGGATCTTAAATCAAGCGAATCGTAAAAATGAAAACCGC
1 AGCGAACTATTAGAATATCGAAGGTCGCGATATTAAATCAAGCGAACCGTAAAAATGACAGTCGC
* * * *
909029 AATATTAAATCAAGTGAACTGTTAGAATATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAA
66 GATATTAAATCAAGTGAACTGTTAGAAAATCGAAGGTTGCAATCTTAAATCAAGCGAACCGTAAA
* *
909094 AATGATAACCGCAATATTAAATCA
131 AATGACAGCCGCAATATTAAATCA
* * * * * * * *
909118 AGCAAACCA-TA-AAAAT-GATA-GTCGCGATATTAAATCAAGCAAACTGTTAGAATATCAAAGG
1 AGCGAACTATTAGAATATCGA-AGGTCGCGATATTAAATCAAGCGAACCG-TA-AAAATGACA-G
* ** * * *
909179 TCGCGATCTTAAATCAAACGAACTGTTAGAATATCGAAGG-T-CATGATCTTAAATCGAGCAAAC
62 TCGCGATATTAAATCAAGTGAACTGTTAGAAAATCGAAGGTTGCA--ATCTTAAATCAAGCGAAC
* * *
909242 CGTGAAAATGACA-CTCGCGATATTAAATCG
125 CGTAAAAATGACAGC-CGCAATATTAAATCA
* * * * * * *
909272 AGCGAACTGTTAGAATATTGGATGTCGCGATCTTATATCGAGCGAACCGTAAAAATGACAGTCGC
1 AGCGAACTATTAGAATATCGAAGGTCGCGATATTAAATCAAGCGAACCGTAAAAATGACAGTCGC
* * * * * *
909337 GATATTAAATCAAGTGAACAGTTAGAATATCAAATGTCGCGATCTTAAATCAAGCGAACCGTAAA
66 GATATTAAATCAAGTGAACTGTTAGAAAATCGAAGGTTGCAATCTTAAATCAAGCGAACCGTAAA
909402 AATGACAGCCGCAATATTAAATCA
131 AATGACAGCCGCAATATTAAATCA
* * * * * *
909426 AGCGAATTGTTAGAATATCGAAGGTCGTGATATTAAATCGAGCAAACCATAAAAATGACAG-CTG
1 AGCGAACTATTAGAATATCGAAGGTCGCGATATTAAATCAAGCGAACCGTAAAAATGACAGTC-G
* ** * * * * **
909490 TGATATTAAATCAAGCAAACTGCTAGAAAATCGAAGGTCGCGATATTAAATC-AGCGATTCGTAA
65 CGATATTAAATCAAGTGAACTGTTAGAAAATCGAAGGTTGCAATCTTAAATCAAGCGAACCGTAA
909554 AAATGACAG
130 AAATGACAG
909563 TCAAACTAAA
Statistics
Matches: 492, Mismatches: 89, Indels: 36
0.80 0.14 0.06
Matches are distributed among these distances:
151 23 0.05
152 9 0.02
153 65 0.13
154 355 0.72
155 10 0.02
156 8 0.02
157 22 0.04
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (154 bp):
AGCGAACTATTAGAATATCGAAGGTCGCGATATTAAATCAAGCGAACCGTAAAAATGACAGTCGC
GATATTAAATCAAGTGAACTGTTAGAAAATCGAAGGTTGCAATCTTAAATCAAGCGAACCGTAAA
AATGACAGCCGCAATATTAAATCA
Found at i:909267 original size:231 final size:229
Alignment explanation
Indices: 908811--909561 Score: 697
Period size: 231 Copynumber: 3.3 Consensus size: 229
908801 ATTGTGAATT
* * * * * * * ** *
908811 AGCGAACTATTAGAA-AACTGAAAGTCGTGATATTAAATCAACGGACTGTAAAAATGACAGTCAC
1 AGCGAACTGTTAGAATATC-GAAAGTCGCGATCTTAAATCAGCGAACCGTAAAAATGACAACCGC
* ** * ** * * * **
908875 GATATTAAATCAAGTGAACTATTAGAAAA-CTGATGGTTGCAATCTTAAATCAAGTGAACCGTAA
65 AATATTAAATCAAGCAAAC-AGTAGAAAATCAAAT-GTCGCGATATTAAATCAAGCAAACCGTAA
* * * * * *
908939 AAATGACAGCCGCAATATTAAATCGAGCGAACTATTAGAATATCGAAGGTCGGGATCTTAAATCA
128 AAATCAAAGCCGCAATATTAAATCAAGCGAACTGTTAGAATATCGAAGGTCGTGATCTTAAATCG
* * * *
909004 AGCGAATCGTAAAAATGAAAAC-CGCAATATTAAATCA
193 AGCAAACCGTAAAAATG-ACACTCGCGATATTAAATCA
* * * * *
909041 AGTGAACTGTTAGAATATCGAAAGTTGCAATCTTAAATCAAGTGAACCGTAAAAATGATAACCGC
1 AGCGAACTGTTAGAATATCGAAAGTCGCGATCTTAAATC-AGCGAACCGTAAAAATGACAACCGC
* * *
909106 AATATTAAATCAAGCAAACCA-TA-AAAATGATA-GTCGCGATATTAAATCAAGCAAACTGTTAG
65 AATATTAAATCAAGCAAA-CAGTAGAAAATCAAATGTCGCGATATTAAATCAAGCAAACCG-TA-
* * * * * *
909168 AATATCAAAGGTCGCGATCTTAAATCAAACGAACTGTTAGAATATCGAAGGTCATGATCTTAAAT
127 AAAATCAAA-GCCGCAATATTAAATCAAGCGAACTGTTAGAATATCGAAGGTCGTGATCTTAAAT
* *
909233 CGAGCAAACCGTGAAAATGACACTCGCGATATTAAATCG
191 CGAGCAAACCGTAAAAATGACACTCGCGATATTAAATCA
* * * * **
909272 AGCGAACTGTTAGAATATTGGATGTCGCGATCTTATATCGAGCGAACCGTAAAAATGACAGTCGC
1 AGCGAACTGTTAGAATATCGAAAGTCGCGATCTTAAATC-AGCGAACCGTAAAAATGACAACCGC
* ** * * *
909337 GATATTAAATCAAGTGAACAGTTAGAATATCAAATGTCGCGATCTTAAATCAAGCGAACCGTAAA
65 AATATTAAATCAAGCAAACAG-TAGAAAATCAAATGTCGCGATATTAAATCAAGCAAACCGTAAA
* * * *
909402 AATGACAGCCGCAATATTAAATCAAGCGAATTGTTAGAATATCGAAGGTCGTGATATTAAATCGA
129 AATCAAAGCCGCAATATTAAATCAAGCGAACTGTTAGAATATCGAAGGTCGTGATCTTAAATCGA
* *
909467 GCAAACCATAAAAATGACAGCT-GTGATATTAAATCA
194 GCAAACCGTAAAAATGACA-CTCGCGATATTAAATCA
* * * * * **
909503 AGCAAACTGCTAGAAAATCGAAGGTCGCGATATTAAATCAGCGATTCGTAAAAATGACA
1 AGCGAACTGTTAGAATATCGAAAGTCGCGATCTTAAATCAGCGAACCGTAAAAATGACA
909562 GTCAAACTAA
Statistics
Matches: 418, Mismatches: 90, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
228 20 0.05
229 6 0.01
230 61 0.15
231 289 0.69
232 11 0.03
233 8 0.02
234 23 0.06
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (229 bp):
AGCGAACTGTTAGAATATCGAAAGTCGCGATCTTAAATCAGCGAACCGTAAAAATGACAACCGCA
ATATTAAATCAAGCAAACAGTAGAAAATCAAATGTCGCGATATTAAATCAAGCAAACCGTAAAAA
TCAAAGCCGCAATATTAAATCAAGCGAACTGTTAGAATATCGAAGGTCGTGATCTTAAATCGAGC
AAACCGTAAAAATGACACTCGCGATATTAAATCA
Found at i:912484 original size:13 final size:13
Alignment explanation
Indices: 912466--912490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
912456 AGTTAACACC
912466 TCTATCATCTTCA
1 TCTATCATCTTCA
912479 TCTATCATCTTC
1 TCTATCATCTTC
912491 TTCAAGTTTC
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:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TCTATCATCTTCA
Found at i:912831 original size:25 final size:25
Alignment explanation
Indices: 912803--912852 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
912793 TGGTAGGAGG
912803 AGGGAAGATATGGAGAGTTAAAGTA
1 AGGGAAGATATGGAGAGTTAAAGTA
* ** *
912828 AGGGTATTTTTGGAGAGTTAAAGTA
1 AGGGAAGATATGGAGAGTTAAAGTA
912853 CCAATAGCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (25 bp):
AGGGAAGATATGGAGAGTTAAAGTA
Found at i:916404 original size:23 final size:23
Alignment explanation
Indices: 916378--916428 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
916368 TGATTTTTAA
*
916378 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
916401 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
916424 ATTTA
1 ATTTA
916429 AGAAAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:916405 original size:13 final size:13
Alignment explanation
Indices: 916387--916428 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
916377 AATTTTGAAT
916387 TATTTAGTGATAA
1 TATTTAGTGATAA
*
916400 TATTTA--GA-AT
1 TATTTAGTGATAA
916410 TATTTAGTGATAA
1 TATTTAGTGATAA
916423 TATTTA
1 TATTTA
916429 AGAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:925001 original size:16 final size:16
Alignment explanation
Indices: 924980--925029 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
924970 TTCATAATAG
924980 TGGATTTATTCACTTA
1 TGGATTTATTCACTTA
*
924996 TGGATTTATTCATTTA
1 TGGATTTATTCACTTA
925012 TGGATTTATTCACTTA
1 TGGATTTATTCACTTA
925028 TG
1 TG
925030 ACATAGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (16 bp):
TGGATTTATTCACTTA
Found at i:925158 original size:210 final size:210
Alignment explanation
Indices: 924796--925193 Score: 769
Period size: 210 Copynumber: 1.9 Consensus size: 210
924786 ATCTTGAATC
924796 CATTTATGAATTTATTCACTTATGACATAGTGTGACATACCTTAATCTTGAGTGTATGATGAACT
1 CATTTATGAATTTATTCACTTATGACATAGTGTGACATACCTTAATCTTGAGTGTATGATGAACT
*
924861 ATGTATGCGTGACTTGTATACTTTGATGTAAGTAAAAGTCTAAGTTTGAATAGATAAGAAACCGA
66 ATGTATGCGTGACTTGTATACTTTGATGTAAGTAAAAGTCTAAATTTGAATAGATAAGAAACCGA
924926 AAGTTGGTGCGTTGGGTATATGACTTCTGTAGTATGTAACATCATTCATAATAGTGGATTTATTC
131 AAGTTGGTGCGTTGGGTATATGACTTCTGTAGTATGTAACATCATTCATAATAGTGGATTTATTC
924991 ACTTATGGATTTATT
196 ACTTATGGATTTATT
*
925006 CATTTATGGATTTATTCACTTATGACATAGTGTGACATACCTTAATCTTGAGTGTATGATGAACT
1 CATTTATGAATTTATTCACTTATGACATAGTGTGACATACCTTAATCTTGAGTGTATGATGAACT
*
925071 ATGTATGCGTGACTTGTATACTTTGATGTAAGTAAAAGTCTAAATTTGAATAGATAAGGAACCGA
66 ATGTATGCGTGACTTGTATACTTTGATGTAAGTAAAAGTCTAAATTTGAATAGATAAGAAACCGA
925136 AAGTTGGTGCGTTGGGTATATGACTTCTGTAGTATGTAACATCATTCATAATAGTGGA
131 AAGTTGGTGCGTTGGGTATATGACTTCTGTAGTATGTAACATCATTCATAATAGTGGA
925194 ATTCATAGCC
Statistics
Matches: 185, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 185 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (210 bp):
CATTTATGAATTTATTCACTTATGACATAGTGTGACATACCTTAATCTTGAGTGTATGATGAACT
ATGTATGCGTGACTTGTATACTTTGATGTAAGTAAAAGTCTAAATTTGAATAGATAAGAAACCGA
AAGTTGGTGCGTTGGGTATATGACTTCTGTAGTATGTAACATCATTCATAATAGTGGATTTATTC
ACTTATGGATTTATT
Found at i:926949 original size:31 final size:29
Alignment explanation
Indices: 926914--926980 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
926904 TAAAAAATTT
926914 ATGTGTAT-ATATGAACTACAATCAAAGGTTC
1 ATGTGTATAAT-TGAACTA-AATCAAA-GTTC
* *
926945 ATGTGTATAATTGCAGTAAATCAAAGTTC
1 ATGTGTATAATTGAACTAAATCAAAGTTC
926974 ATGTGTA
1 ATGTGTA
926981 ATTTTGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 11 0.33
30 7 0.21
31 13 0.39
32 2 0.06
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (29 bp):
ATGTGTATAATTGAACTAAATCAAAGTTC
Found at i:949551 original size:18 final size:20
Alignment explanation
Indices: 949508--949556 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
949498 AAGCCTAAAA
*
949508 TAAATAAATAATTTTTTCCT
1 TAAATAAATAATTTTGTCCT
949528 TAAATAAA-AATTTTGT-CT
1 TAAATAAATAATTTTGTCCT
*
949546 TCAATAAATAA
1 TAAATAAATAA
949557 CCCAACGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAATAAATAATTTTGTCCT
Found at i:952543 original size:9 final size:9
Alignment explanation
Indices: 952529--952564 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
952519 ATAGTTTGAG
952529 ATTCGAATT
1 ATTCGAATT
952538 ATTCGAATT
1 ATTCGAATT
952547 ATTCGAATT
1 ATTCGAATT
*
952556 ATTTGAATT
1 ATTCGAATT
952565 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (9 bp):
ATTCGAATT
Found at i:955728 original size:6 final size:6
Alignment explanation
Indices: 955717--955746 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
955707 CAATTTTCTT
955717 AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA
955747 GAATCATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:958845 original size:19 final size:20
Alignment explanation
Indices: 958809--958846 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
958799 ATATGCTTGA
*
958809 TAAGTATTTAGGTGAAATTT
1 TAAGTATTTAGGTAAAATTT
*
958829 TAAGT-TTTAGTTAAAATT
1 TAAGTATTTAGGTAAAATT
958847 GTTATTACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
TAAGTATTTAGGTAAAATTT
Found at i:966416 original size:76 final size:76
Alignment explanation
Indices: 966279--966425 Score: 231
Period size: 76 Copynumber: 1.9 Consensus size: 76
966269 GAATATGACC
* * * *
966279 TTCCCTATTGATTTGTTGATAATGCCGTTTGGTGATTTTGATATGCTTTTAGGTATGGATTGGCT
1 TTCCCTATTGATTTGTTGATAATGCCATTTGGTGATTTTGATATGATTTTAGGCATAGATTGGCT
966344 TACGAAGCATG
66 TACGAAGCATG
* * *
966355 TTCCCTGTTGATTTGTTGATAATGCCATTTGGTGATTTTGATGTGATTTTGGGCATAGATTGGCT
1 TTCCCTATTGATTTGTTGATAATGCCATTTGGTGATTTTGATATGATTTTAGGCATAGATTGGCT
966420 TACGAA
66 TACGAA
966426 ACACAGGATG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.44
Consensus pattern (76 bp):
TTCCCTATTGATTTGTTGATAATGCCATTTGGTGATTTTGATATGATTTTAGGCATAGATTGGCT
TACGAAGCATG
Found at i:969878 original size:10 final size:10
Alignment explanation
Indices: 969865--969928 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 10
969855 AAAACAAAAT
969865 AAAGAAAGAA
1 AAAGAAAGAA
969875 AAAGAAATAGAA
1 AAAG-AA-AGAA
969887 AGATAGAAACGAA
1 A-A-AGAAA-GAA
*
969900 ACAAAAAAGAA
1 A-AAGAAAGAA
969911 GAAAGAAAGAA
1 -AAAGAAAGAA
969922 AAAGAAA
1 AAAGAAA
969929 AAGGAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 11 0.24
11 13 0.29
12 11 0.24
13 8 0.18
14 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:969926 original size:37 final size:36
Alignment explanation
Indices: 969852--969930 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
969842 ATATTATTAT
* * *
969852 GATAAAACAAAATAAAGAAAGAAAAAGAAATAGAAA
1 GATAAAACAAAACAAAGAAAGAAAAAGAAAGAAAAA
*
969888 GATAGAAACGAAACAAA-AAAGAAGAAAGAAAGAAAAA
1 GATA-AAACAAAACAAAGAAAGAA-AAAGAAAGAAAAA
969925 GA-AAAA
1 GATAAAA
969931 GGAAATGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.08
36 11 0.30
37 23 0.62
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.05
Consensus pattern (36 bp):
GATAAAACAAAACAAAGAAAGAAAAAGAAAGAAAAA
Found at i:969935 original size:17 final size:18
Alignment explanation
Indices: 969869--969940 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
969859 CAAAATAAAG
*
969869 AAAGAA-AAAGAAAT-AG
1 AAAGAAGAAAGAAATGAA
**
969885 AAAGATAGAAACGAAACAAA
1 AAAGA-AGAAA-GAAATGAA
969905 AAAGAAGAAAGAAA-GAA
1 AAAGAAGAAAGAAATGAA
969922 AAAGAA-AAAGGAAATGAA
1 AAAGAAGAAA-GAAATGAA
969940 A
1 A
969941 GAAGGAAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 11 0.23
19 9 0.19
20 6 0.13
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAGAAGAAAGAAATGAA
Found at i:971438 original size:10 final size:10
Alignment explanation
Indices: 971425--971488 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 10
971415 AAAACAAAAT
971425 AAAGAAAGAA
1 AAAGAAAGAA
971435 AAAGAAATAGAA
1 AAAG-AA-AGAA
971447 AGATAGAAACGAA
1 A-A-AGAAA-GAA
*
971460 ACAAAAAAGAA
1 A-AAGAAAGAA
971471 GAAAGAAAGAA
1 -AAAGAAAGAA
971482 AAAGAAA
1 AAAGAAA
971489 AAGGAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 11 0.24
11 13 0.29
12 11 0.24
13 8 0.18
14 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:971486 original size:37 final size:36
Alignment explanation
Indices: 971412--971490 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
971402 ATATTATTAT
* * *
971412 GATAAAACAAAATAAAGAAAGAAAAAGAAATAGAAA
1 GATAAAACAAAACAAAGAAAGAAAAAGAAAGAAAAA
*
971448 GATAGAAACGAAACAAA-AAAGAAGAAAGAAAGAAAAA
1 GATA-AAACAAAACAAAGAAAGAA-AAAGAAAGAAAAA
971485 GA-AAAA
1 GATAAAA
971491 GGAAATGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.08
36 11 0.30
37 23 0.62
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.05
Consensus pattern (36 bp):
GATAAAACAAAACAAAGAAAGAAAAAGAAAGAAAAA
Found at i:971495 original size:17 final size:18
Alignment explanation
Indices: 971429--971500 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 18
971419 CAAAATAAAG
*
971429 AAAGAA-AAAGAAAT-AG
1 AAAGAAGAAAGAAATGAA
**
971445 AAAGATAGAAACGAAACAAA
1 AAAGA-AGAAA-GAAATGAA
971465 AAAGAAGAAAGAAA-GAA
1 AAAGAAGAAAGAAATGAA
971482 AAAGAA-AAAGGAAATGAA
1 AAAGAAGAAA-GAAATGAA
971500 A
1 A
971501 GAAGGAAGGA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 8 0.17
17 13 0.28
18 11 0.23
19 9 0.19
20 6 0.13
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (18 bp):
AAAGAAGAAAGAAATGAA
Found at i:972373 original size:41 final size:40
Alignment explanation
Indices: 972328--972462 Score: 150
Period size: 41 Copynumber: 3.4 Consensus size: 40
972318 GACTTCGAGT
*
972328 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATT-ATC
* * ** *
972369 CGATGAGGCACTGAGTGTCAATTTACT--TT-GGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
* * *
972406 CAATGAGACACTGCGTGTCAATTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
*
972446 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
972463 CCAAACTGAT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 24 0.32
38 3 0.04
39 4 0.05
40 19 0.25
41 25 0.33
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
Found at i:975040 original size:43 final size:42
Alignment explanation
Indices: 974989--975143 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
974979 TGTGTTTTCA
*
974989 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTG-TTGACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TTGTGATT-ACG
* *
975032 TGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATT-TG
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTGTGATTACG
* * *
975073 TGTATGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCGAT-TGTGATTACG
975116 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
975144 TGTACAAGTC
Statistics
Matches: 95, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.29
42 7 0.07
43 56 0.59
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTGTGATTACG
Found at i:978480 original size:3 final size:3
Alignment explanation
Indices: 978474--978502 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
978464 TTATGGTTTA
978474 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
978503 AATAAAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:978879 original size:12 final size:12
Alignment explanation
Indices: 978862--978892 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
978852 GAAGCAGGGG
978862 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
978874 AGAAAAAGGGAA
1 AGAAAAAGCGAA
978886 AGAAAAA
1 AGAAAAA
978893 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:979590 original size:12 final size:12
Alignment explanation
Indices: 979571--979612 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
979561 GTGTATGTAT
979571 AATTGAATATTG
1 AATTGAATATTG
* *
979583 ATTTGAAT-GTG
1 AATTGAATATTG
979594 AATTGAATATTG
1 AATTGAATATTG
*
979606 ACTTGAA
1 AATTGAA
979613 AAAAAATTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (12 bp):
AATTGAATATTG
Found at i:979620 original size:23 final size:23
Alignment explanation
Indices: 979571--979623 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
979561 GTGTATGTAT
* ****
979571 AATTGAATATTGATTTGAATGTG
1 AATTGAATATTGACTTGAAAAAA
979594 AATTGAATATTGACTTGAAAAAA
1 AATTGAATATTGACTTGAAAAAA
979617 AATTGAA
1 AATTGAA
979624 AGGTGAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (23 bp):
AATTGAATATTGACTTGAAAAAA
Found at i:987210 original size:2 final size:2
Alignment explanation
Indices: 987203--987232 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
987193 GTGTCTATAA
987203 TC TC TC TC TC T- 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 T
987233 AATGTGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:990640 original size:17 final size:17
Alignment explanation
Indices: 990620--990652 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
990610 ACCAATTCTT
990620 CTTTT-CTTTTCTTTTTG
1 CTTTTGCTTTT-TTTTTG
990637 CTTTTGCTTTTTTTTT
1 CTTTTGCTTTTTTTTT
990653 TTTGTACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (17 bp):
CTTTTGCTTTTTTTTTG
Found at i:993554 original size:15 final size:15
Alignment explanation
Indices: 993528--993563 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
993518 CCATTTTGAG
993528 TCTTTATTCTTTTTTT
1 TCTTT-TTCTTTTTTT
993544 TCTTTTTCTTTTTTT
1 TCTTTTTCTTTTTTT
993559 T-TTTT
1 TCTTTT
993564 CTAGAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (15 bp):
TCTTTTTCTTTTTTT
Found at i:997143 original size:28 final size:29
Alignment explanation
Indices: 997112--997169 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
997102 TGATTTTCAG
* * *
997112 ACTTTAAAA-ATTCTAGTTACATCCTCAA
1 ACTTCAAAATATTCTAATTACATCCACAA
997140 ACTTCAAAATATTCTAATTACATCCACAA
1 ACTTCAAAATATTCTAATTACATCCACAA
997169 A
1 A
997170 ATATGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (29 bp):
ACTTCAAAATATTCTAATTACATCCACAA
Found at i:1008490 original size:9 final size:9
Alignment explanation
Indices: 1008476--1008503 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1008466 TTTTGTTACA
1008476 ACAATTAAT
1 ACAATTAAT
1008485 ACAATTAAT
1 ACAATTAAT
1008494 ACAATTAAT
1 ACAATTAAT
1008503 A
1 A
1008504 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:1008525 original size:68 final size:66
Alignment explanation
Indices: 1008446--1008587 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
1008436 TCAAGTTTGT
* *
1008446 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAAAAATTTGAT
1008511 AAA
64 AAA
1008514 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAAAAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAAAAATTTGATAA
*
1008579 T
66 A
1008580 TTTACTAA
1 TTTACTAA
1008588 CAATTAGTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 26 0.37
67 1 0.01
68 44 0.62
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAAAAATTTGATAA
A
Found at i:1008601 original size:22 final size:23
Alignment explanation
Indices: 1008576--1008628 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1008566 AAAAATTTGA
* * *
1008576 TAATTTTACT-AACAATTAGTTT
1 TAATTTTACTAAAAAAATAATTT
*
1008598 TAATTTTATTAAAAAAATAATTT
1 TAATTTTACTAAAAAAATAATTT
1008621 TAATTTTA
1 TAATTTTA
1008629 ATTAAAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TAATTTTACTAAAAAAATAATTT
Found at i:1009818 original size:135 final size:139
Alignment explanation
Indices: 1009569--1009847 Score: 417
Period size: 135 Copynumber: 2.0 Consensus size: 139
1009559 ATTTGTATTT
* *
1009569 TTTATTTCATGTTGTTTTAAGCTTTTTATTAATTTTAATTAATTTTTTAACATATTAGCTCCTTT
1 TTTATTTCATGTTGTTTTAAGCTTTTTATTAATTTTAATTAATTTTTTAACATATTAACTCCCTT
* * *
1009634 GGTTAAATAGTTAAATGATAATGATTTTATCCTTGAGTCCCAATTTCAATTCCTCCTCTTCTAAA
66 AGTTAAATAG-TAAAT-ATAATGATTTTATCCTTGAATCCCAAGTTCAATTCCTCCTCTTCTAAA
*
1009699 TATATTTGTAA
129 TACATTTGTAA
*
1009710 TTTATTTCATGTTGTTTTAAGCTTTTTTATTATTTTTAATTAATATTTTTAACATATTAACTCCC
1 TTTATTTCATGTTGTTTTAAGC-TTTTTATTAATTTTAATTAAT-TTTTTAACATATTAACTCCC
1009775 TTAGTT-AA-A-T-AAT-T-ATGATTTTATCCTTGAATCCCAAGTTCAATTCCTCCTCTTCTAAA
64 TTAGTTAAATAGTAAATATAATGATTTTATCCTTGAATCCCAAGTTCAATTCCTCCTCTTCTAAA
1009834 TACATTTGTAA
129 TACATTTGTAA
1009845 TTT
1 TTT
1009848 TTATTTTATG
Statistics
Matches: 129, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
135 56 0.43
136 1 0.01
138 3 0.02
139 1 0.01
141 23 0.18
142 22 0.17
143 23 0.18
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (139 bp):
TTTATTTCATGTTGTTTTAAGCTTTTTATTAATTTTAATTAATTTTTTAACATATTAACTCCCTT
AGTTAAATAGTAAATATAATGATTTTATCCTTGAATCCCAAGTTCAATTCCTCCTCTTCTAAATA
CATTTGTAA
Found at i:1020442 original size:1 final size:1
Alignment explanation
Indices: 1020436--1020477 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
1020426 AGTAGCCCTA
1020436 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1020478 CAACTTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1021717 original size:24 final size:24
Alignment explanation
Indices: 1021685--1021747 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
1021675 GTATAATCGG
* *
1021685 AGTTCAACTAGGAAAAGATAGC-AA
1 AGTTTAACTAGGAAAAGA-AACTAA
* *
1021709 AGTTTAACTAGGAGAAGAAACTCA
1 AGTTTAACTAGGAAAAGAAACTAA
1021733 A-TTTAACTAGGAAAA
1 AGTTTAACTAGGAAAA
1021748 TATCTATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 15 0.45
24 18 0.55
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (24 bp):
AGTTTAACTAGGAAAAGAAACTAA
Found at i:1023033 original size:16 final size:17
Alignment explanation
Indices: 1023007--1023039 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1022997 TAGAATTGGG
*
1023007 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
1023024 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
1023040 ATTAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:1024481 original size:13 final size:13
Alignment explanation
Indices: 1024476--1024500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1024466 AGATGATAGA
1024476 ATCAGATATACAG
1 ATCAGATATACAG
1024489 ATCAGATATACA
1 ATCAGATATACA
1024501 AAATCCTACC
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:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (13 bp):
ATCAGATATACAG
Found at i:1032727 original size:26 final size:27
Alignment explanation
Indices: 1032685--1032738 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1032675 TTAAAATATG
* *
1032685 TTTAAAATAAATTTTTTTATTTTTTATT
1 TTTAAAATAAA-TTTTTTAGTGTTTATT
1032713 TTTAAAATAAA-TTTTTAGTGTTTATT
1 TTTAAAATAAATTTTTTAGTGTTTATT
1032739 AAAAAATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
28 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTAAAATAAATTTTTTAGTGTTTATT
Found at i:1034487 original size:31 final size:31
Alignment explanation
Indices: 1034438--1034518 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
1034428 CACTAGATAG
* *
1034438 TCCTAACGGAC-ATCCACTTCTTTTGTTAAT
1 TCCTAACGGTCAATCCACTTCCTTTGTTAAT
1034468 TCCTAACGGTCAATCCACTTCCTTTGTTAAT
1 TCCTAACGGTCAATCCACTTCCTTTGTTAAT
1034499 TCCTAACGGTCAATCCACTT
1 TCCTAACGGTCAATCCACTT
1034519 AAGATAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 10 0.21
31 38 0.79
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.37
Consensus pattern (31 bp):
TCCTAACGGTCAATCCACTTCCTTTGTTAAT
Found at i:1034548 original size:28 final size:28
Alignment explanation
Indices: 1034516--1034602 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
1034506 GGTCAATCCA
* * *
1034516 CTTAAGATAGTCCTTGGTGGTCTTCTCT
1 CTTAAGAGAGTCCTTGGTGGACTTCCCT
*
1034544 CTTAAGAGAGTCCTTGGTGGACTCCCCT
1 CTTAAGAGAGTCCTTGGTGGACTTCCCT
*
1034572 CTTAAGAGAGTCCCTT-GTGGGCTTCCCT
1 CTTAAGAGAGT-CCTTGGTGGACTTCCCT
1034600 CTT
1 CTT
1034603 TTCTGGTGAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 48 0.92
29 4 0.08
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (28 bp):
CTTAAGAGAGTCCTTGGTGGACTTCCCT
Found at i:1038148 original size:35 final size:35
Alignment explanation
Indices: 1038104--1038195 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
1038094 CTATTATTTG
* *
1038104 CACGGTGTCACCCTGAAAGACCTATATACCGTTTA
1 CACGATGTCACCCTGAAAGACCTATATACCGTTAA
* * *
1038139 CATGATGTCACTCC-GAAGGACATATATACCGTTAA
1 CACGATGTCAC-CCTGAAAGACCTATATACCGTTAA
* *
1038174 CACGGTGTCTCCCTGAAAGACC
1 CACGATGTCACCCTGAAAGACC
1038196 AGTAGATAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
34 2 0.04
35 41 0.91
36 2 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (35 bp):
CACGATGTCACCCTGAAAGACCTATATACCGTTAA
Found at i:1039102 original size:19 final size:19
Alignment explanation
Indices: 1039078--1039116 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1039068 GTTAAAGTTG
1039078 ATGTTAATTGTGTAAATTA
1 ATGTTAATTGTGTAAATTA
1039097 ATGTTAATTGTGTAAATTA
1 ATGTTAATTGTGTAAATTA
1039116 A
1 A
1039117 GGCTAGTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (19 bp):
ATGTTAATTGTGTAAATTA
Found at i:1040504 original size:31 final size:31
Alignment explanation
Indices: 1040452--1040521 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
1040442 TATATATACA
** **
1040452 ATATATATGGGTGAGTCTATAGGTTTTA-AAT
1 ATATATATGCATGAGTCTATA-GTCATATAAT
1040483 ATATATATGCATGAGAT-TATAGTCATATAAT
1 ATATATATGCATGAG-TCTATAGTCATATAAT
1040514 ATATATAT
1 ATATATAT
1040522 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 4 0.12
31 28 0.85
32 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (31 bp):
ATATATATGCATGAGTCTATAGTCATATAAT
Found at i:1050442 original size:21 final size:21
Alignment explanation
Indices: 1050416--1050494 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
1050406 TTAGACCTTT
* *
1050416 TTATTATTCTTGTTATC-TTA
1 TTATTATTATTATTATCATTA
1050436 TTGATTATTATTATTATCATTA
1 TT-ATTATTATTATTATCATTA
*
1050458 TTATTATTATTATTATTATTA
1 TTATTATTATTATTATCATTA
1050479 TTATTATTATTATTAT
1 TTATTATTATTATTAT
1050495 TATANNNNNN
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.04
21 47 0.87
22 5 0.09
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (21 bp):
TTATTATTATTATTATCATTA
Found at i:1050447 original size:3 final size:3
Alignment explanation
Indices: 1050433--1050497 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
1050423 TCTTGTTATC
*
1050433 TTA TTGA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1050479 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
1050498 ANNNNNNNNN
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1051598 original size:21 final size:21
Alignment explanation
Indices: 1051572--1051611 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1051562 CATATTAATT
1051572 TTATTCACATTAT-CATATTTG
1 TTATTC-CATTATACATATTTG
1051593 TTATTCCATTATACATATT
1 TTATTCCATTATACATATT
1051612 AACACCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATTCCATTATACATATTTG
Found at i:1051835 original size:106 final size:106
Alignment explanation
Indices: 1051650--1051887 Score: 379
Period size: 106 Copynumber: 2.2 Consensus size: 106
1051640 TCTAAATAAA
* * ** * **
1051650 GCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCTAATTTTCTGGGTTTCGATTTTTTCGTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCTAACGTGCTGGGTTTCGATTTTCACGTT
*
1051715 CGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAG
66 CGACCAAATAGCCAAATATCCTTTTAAAAATTCAAAGTAAG
1051756 GCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAACGTGCTGGGTTTCGA-TTTCACGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACATG-CCTAACGTGCTGGGTTTCGATTTTCACGT
*
1051820 TCGACCAATTAGCCAAATATCCTTTTAAAAATTCAAAGTAAG
65 TCGACCAAATAGCCAAATATCCTTTTAAAAATTCAAAGTAAG
1051862 GCAATATTTTGCGTTTGGAAATTCGA
1 GCAATATTTTGCGTTTGGAAATTCGA
1051888 CCAATTAGCC
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
106 105 0.86
107 17 0.14
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (106 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCTAACGTGCTGGGTTTCGATTTTCACGTT
CGACCAAATAGCCAAATATCCTTTTAAAAATTCAAAGTAAG
Found at i:1052866 original size:29 final size:29
Alignment explanation
Indices: 1052834--1052910 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
1052824 AAAAATTCTT
1052834 AAAAAAAAGAGAAAAAA-GAAAAAAGAAGG
1 AAAAAAAAGA-AAAAAAGGAAAAAAGAAGG
* *
1052863 AAAAAGAAGAAAAAAAGGAAAGAAGAA-G
1 AAAAAAAAGAAAAAAAGGAAAAAAGAAGG
*
1052891 -AAGAAAAG--AAAAAGGAAAAA
1 AAAAAAAAGAAAAAAAGGAAAAA
1052911 GGAGAGGCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 11 0.26
27 6 0.14
28 7 0.17
29 18 0.43
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (29 bp):
AAAAAAAAGAAAAAAAGGAAAAAAGAAGG
Found at i:1052867 original size:19 final size:20
Alignment explanation
Indices: 1052845--1052900 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
1052835 AAAAAAAGAG
1052845 AAAA-AAGAAAAAAGAAGGA
1 AAAAGAAGAAAAAAGAAGGA
1052864 AAAAGAAG-AAAAA-AAGGA
1 AAAAGAAGAAAAAAGAAGGA
1052882 AAGAAGAAGAAGAAAAGAA
1 AA-AAGAAGAA-AAAAGAA
1052901 AAAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.22
19 15 0.47
20 4 0.12
21 4 0.12
22 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAAAGAAGAAAAAAGAAGGA
Found at i:1052904 original size:25 final size:25
Alignment explanation
Indices: 1052837--1052908 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 25
1052827 AATTCTTAAA
* * *
1052837 AAAAAGAGAAAAAAGAAAAAAGAAGG
1 AAAAAGA-AGAAAAGAAAAAGGAAAG
1052863 AAAAAGAAG--AA-AAAAAGGAAAG
1 AAAAAGAAGAAAAGAAAAAGGAAAG
*
1052885 AAGAAGAAGAAAAGAAAAAGGAAA
1 AAAAAGAAGAAAAGAAAAAGGAAA
1052909 AAGGAGAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 17 0.44
23 2 0.05
24 2 0.05
25 11 0.28
26 7 0.18
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (25 bp):
AAAAAGAAGAAAAGAAAAAGGAAAG
Found at i:1054357 original size:129 final size:129
Alignment explanation
Indices: 1054176--1054429 Score: 364
Period size: 129 Copynumber: 2.0 Consensus size: 129
1054166 GAAGACACCA
* * *
1054176 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGTAGGTCCTGTCTCCCTAAGCAGTA
1 GTCCTATCTCCCCAAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
* * * *
1054241 GTGGAGTATATCGAAGATGGTAAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAACCG
66 GTGGAGCAGATCAAAGATGGTAAATCTTATCTTCCCAAGATAGTAAGGAAGCAGATTTAAACCG
* * **
1054305 GTCCTATCTCCCCGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATTTTGTCTCCCTAAGCAGTA
1 GTCCTATCTCCCCAAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
* * * **
1054370 GTGGTGCAGATCAAAGATGGTGAATCTTATCTTCCTAAGATAGTGCGGAAGCAGATTTAA
66 GTGGAGCAGATCAAAGATGGTAAATCTTATCTTCCCAAGATAGTAAGGAAGCAGATTTAA
1054430 GCCATTGATG
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (129 bp):
GTCCTATCTCCCCAAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCCTGTCTCCCTAAGCAGTA
GTGGAGCAGATCAAAGATGGTAAATCTTATCTTCCCAAGATAGTAAGGAAGCAGATTTAAACCG
Found at i:1054800 original size:129 final size:131
Alignment explanation
Indices: 1054659--1054909 Score: 389
Period size: 129 Copynumber: 1.9 Consensus size: 131
1054649 CAGATTTAAG
*
1054659 AAGCCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAA
1 AAGCCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTAA
* *
1054724 AGTTGCAGTAGAGCATATCG-CAT-CCAGTCTTATCACCCTGAAGTTGCAGTGGAGCAGACAGAA
66 AGTTGCAGTAGAGCAGATCGACATACCAATCTTATCACCCTGAAGTTGCAGTGGAGCAGACAGAA
1054787 A
131 A
* *
1054788 AAGCCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTGA
1 AAGCCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTAA
* * * * *
1054853 AGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 AGTTGCAGTAGAGCAGATCG-ACATACCAATCTTATCACCCTGAAGTTGCAGTGGAG
1054910 AAGATTGAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
129 78 0.72
131 2 0.02
132 29 0.27
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (131 bp):
AAGCCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGAATTAAAACCACAGATCTTATCTCTCTAA
AGTTGCAGTAGAGCAGATCGACATACCAATCTTATCACCCTGAAGTTGCAGTGGAGCAGACAGAA
A
Found at i:1054921 original size:44 final size:44
Alignment explanation
Indices: 1054662--1054918 Score: 226
Period size: 44 Copynumber: 5.9 Consensus size: 44
1054652 ATTTAAGAAG
* * *
1054662 CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATT-AAA-AC
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAC
* * * * * *
1054704 CACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCATATCG-CAT--
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAC
* * ** * *
1054747 CCAGTCTTATCACCCTGAAGTTGCAGTGGAGCAGACAGAAAAAG
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAC
*
1054791 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GAATT-AAA-AC
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAATAC
* *
1054833 CACAGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAC
*
1054879 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAA
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1054919 GATGAAAGAT
Statistics
Matches: 172, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
41 27 0.16
42 6 0.03
43 9 0.05
44 122 0.71
45 5 0.03
46 2 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (44 bp):
CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAC
Found at i:1056467 original size:103 final size:104
Alignment explanation
Indices: 1056343--1056551 Score: 411
Period size: 103 Copynumber: 2.0 Consensus size: 104
1056333 TATGCGCGTG
1056343 TTCAGAATGGTCCCCTTTTTGTTTTATTTCTGATTTTTCCCCAATCTCTGTTTTAAAATTCAAAT
1 TTCAGAATGGTCCCCTTTTTGTTTTATTTCTGATTTTTCCCCAATCTCTGTTTTAAAATTCAAAT
1056408 TAGTCCTTTTTATTATTCTTGTTATCTTA-TGATTATTA
66 TAGTCCTTTTTATTATTCTTGTTATCTTATTGATTATTA
1056446 TTCAGAATGGTCCCCTTTTTGTTTTATTTCTGATTTTTCCCCAATCTCTGTTTTAAAATTCAAAT
1 TTCAGAATGGTCCCCTTTTTGTTTTATTTCTGATTTTTCCCCAATCTCTGTTTTAAAATTCAAAT
1056511 TAGTCCTTTTTATTATTCTTGTTATCTTATTGATTATTA
66 TAGTCCTTTTTATTATTCTTGTTATCTTATTGATTATTA
1056550 TT
1 TT
1056552 ATTATTATTA
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 94 0.90
104 11 0.10
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (104 bp):
TTCAGAATGGTCCCCTTTTTGTTTTATTTCTGATTTTTCCCCAATCTCTGTTTTAAAATTCAAAT
TAGTCCTTTTTATTATTCTTGTTATCTTATTGATTATTA
Found at i:1056551 original size:3 final size:3
Alignment explanation
Indices: 1056537--1056571 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
1056527 TCTTGTTATC
1056537 TTA TTGA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1056572 ACTTCTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1056911 original size:21 final size:21
Alignment explanation
Indices: 1056885--1056924 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1056875 CATATTAATT
1056885 TTATTCACATTAT-CATATTTG
1 TTATTC-CATTATACATATTTG
1056906 TTATTCCATTATACATATT
1 TTATTCCATTATACATATT
1056925 AACACCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATTCCATTATACATATTTG
Found at i:1057307 original size:110 final size:107
Alignment explanation
Indices: 1056963--1057377 Score: 604
Period size: 106 Copynumber: 3.9 Consensus size: 107
1056953 TCTAAATAAA
1056963 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTG-CCTAATGTGCT-GGTTTCGATTTTTTCGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCGT
*
1057026 TCGACCAAATAGCCAAATATCCTTTTAAAATTTCAACGTAAG
66 TCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAG
* * ** * **
1057068 GTAATATTTTGTGTTTGGAAATTCGAGAAAATATGCCCTAACGTGCTGGGTTTCGA-TTTCACGT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCGT
*
1057132 TCGACCAATTAGCCAAATATCCTTTTAAAATTTCAAAGTAAG
66 TCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAG
* * *
1057174 GCAATATTTTGCGGTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTTTTT
1 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--TTTTTTC
* *
1057239 GTTCGACCAAATAGCCAAATATCATTTTTAAACTTTCAAAGTAAG
64 GTTCGACCAAATAGCCAAATATC-CTTTTAAAATTTCAAAGTAAG
* *
1057284 ACAATATTTT-CTGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTTCG
1 GCAATATTTTGC-GTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCG
* *
1057348 TTTGACCAAATAGCCAAATATCCTCTTAAA
65 TTCGACCAAATAGCCAAATATCCTTTTAAA
1057378 TCTAAATACA
Statistics
Matches: 275, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
105 31 0.11
106 105 0.38
107 14 0.05
108 28 0.10
109 26 0.09
110 71 0.26
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (107 bp):
GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTTCGT
TCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAG
Found at i:1057323 original size:216 final size:212
Alignment explanation
Indices: 1056963--1057377 Score: 616
Period size: 216 Copynumber: 1.9 Consensus size: 212
1056953 TCTAAATAAA
*
1056963 GCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTAATGTGCTGGTTTCGATTTTTTCGTTC
1 GCAATATTTTGCGGTTGGAAATTCGAGAAAACGTGCCTAATGTGCTGGTTTCGATTTTTTCGTTC
* ** *
1057028 GACCAAATAGCCAAATATCCTTTTAAAATTTCAACGTAAGGTAATATTTTGTGTTTGGAAATTCG
66 GACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAGACAATATTTTCTGTTTGGAAATTCG
* * *
1057093 AGAAAATATGCCCTAACGTGCTGGGTTTCGA-TTTCACGTTCGACCAATTAGCCAAATATCCTTT
131 AGAAAACATGCCCTAACGTGCTGGGTTTCGATTTTCACGTTCGACCAAATAGCCAAATATCCTCT
1057157 TAAAATTTCAAAGTAAG
196 TAAAATTTCAAAGTAAG
* *
1057174 GCAATATTTTGCGGTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTTTTT
1 GCAATATTTTGCGGTTGGAAATTCGAGAAAACGTG-CCTAATGTGCT-GGTTTCGA--TTTTTTC
* *
1057239 GTTCGACCAAATAGCCAAATATCATTTTTAAACTTTCAAAGTAAGACAATATTTTCTGTTTGGAA
62 GTTCGACCAAATAGCCAAATATC-CTTTTAAAATTTCAAAGTAAGACAATATTTTCTGTTTGGAA
* * * ** *
1057304 ATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTTCGTTTGACCAAATAGCCAAATAT
126 ATTCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTTCACGTTCGACCAAATAGCCAAATAT
1057369 CCTCTTAAA
191 CCTCTTAAA
1057378 TCTAAATACA
Statistics
Matches: 180, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 34 0.19
212 10 0.06
213 8 0.04
215 29 0.16
216 67 0.37
217 32 0.18
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (212 bp):
GCAATATTTTGCGGTTGGAAATTCGAGAAAACGTGCCTAATGTGCTGGTTTCGATTTTTTCGTTC
GACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGTAAGACAATATTTTCTGTTTGGAAATTCG
AGAAAACATGCCCTAACGTGCTGGGTTTCGATTTTCACGTTCGACCAAATAGCCAAATATCCTCT
TAAAATTTCAAAGTAAG
Found at i:1067718 original size:22 final size:22
Alignment explanation
Indices: 1067668--1067718 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1067658 AGCTATAATA
* *
1067668 TGTTAAATTATTTATTACTTTT
1 TGTTAAATTATTTATGACATTT
** *
1067690 TACTAAATTATTTATGAGATTT
1 TGTTAAATTATTTATGACATTT
1067712 TGTTAAA
1 TGTTAAA
1067719 AAAATACTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
TGTTAAATTATTTATGACATTT
Found at i:1070086 original size:43 final size:40
Alignment explanation
Indices: 1070025--1070162 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 40
1070015 AGTGATTCGG
1070025 GGAATCAGCACTTAGCAACCCCTTTCACATTCAAAAATACGGT
1 GGAATCAGCACTTAGCAACCCC-TTCACATT--AAAATACGGT
* *
1070068 GGAATCAGCACTTAGCAACCAC--CA-A-T-GAAT-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTAAAATACGGT
* *
1070101 GGAATCAGTACTTAGCAACCCCTCTCACATTTAAAATATGGT
1 GGAATCAGCACTTAGCAACCCCT-TCACA-TTAAAATACGGT
*
1070143 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
1070163 ACCAATGATT
Statistics
Matches: 78, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
33 20 0.26
34 3 0.04
35 3 0.04
36 2 0.03
37 1 0.01
38 1 0.01
39 2 0.03
40 5 0.06
41 2 0.03
42 18 0.23
43 21 0.27
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTAAAATACGGT
Found at i:1070114 original size:33 final size:33
Alignment explanation
Indices: 1070068--1070297 Score: 141
Period size: 33 Copynumber: 6.6 Consensus size: 33
1070058 AAAATACGGT
1070068 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * * *
1070101 GGAATCAGTACTTAGCAACCCCTCTCACATTTAAAATATGG
1 GGAATCAGCACTTAGCAA--CCAC-CA-A--T-GAAT-CGG
* *
1070142 TGGGATCAGCACTTAGCAACCACCAATGATTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
1070176 GGAATCAGCACTTAGCAACC-CC--T---T-GG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
1070202 GGAAATCAGCACTTAACAACCCCCTTCACATTTAAAATACGG
1 GG-AATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG
*
1070244 TGGAATCAGCATTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
*
1070278 GGAATCAACACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
1070298 CCTTAGGGGA
Statistics
Matches: 153, Mismatches: 18, Indels: 52
0.69 0.08 0.23
Matches are distributed among these distances:
26 4 0.03
27 16 0.10
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 54 0.35
34 5 0.03
35 8 0.05
36 5 0.03
37 1 0.01
38 2 0.01
39 5 0.03
40 7 0.05
41 5 0.03
42 32 0.21
43 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:1070167 original size:75 final size:76
Alignment explanation
Indices: 1069988--1070198 Score: 334
Period size: 75 Copynumber: 2.8 Consensus size: 76
1069978 TATCCGTTAT
* * * *
1069988 CGGTGGATTCAGCACTTAGCAACCACTAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCTCAC
1070053 ATTCAAAAATA
66 ATTCAAAAATA
* *
1070064 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGTACTTAGCAACCCCTCTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCTCAC
*
1070129 ATT-TAAAATA
66 ATTCAAAAATA
* *
1070139 TGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCT
1070199 TGGGGAAATC
Statistics
Matches: 124, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 62 0.50
76 62 0.50
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCTCAC
ATTCAAAAATA
Found at i:1070203 original size:26 final size:27
Alignment explanation
Indices: 1070174--1070224 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1070164 CCAATGATTC
*
1070174 GGGG-AATCAGCACTTAGCAACCCCTT
1 GGGGAAATCAGCACTTAACAACCCCTT
1070200 GGGGAAATCAGCACTTAACAACCCC
1 GGGGAAATCAGCACTTAACAACCCC
1070225 CTTCACATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (27 bp):
GGGGAAATCAGCACTTAACAACCCCTT
Found at i:1070252 original size:102 final size:103
Alignment explanation
Indices: 1070099--1070326 Score: 354
Period size: 102 Copynumber: 2.2 Consensus size: 103
1070089 CCAATGAATC
* * *
1070099 GGGGAATCAGTACTTAGCAA-CCCCTCTCACATTTAAAATATGGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
* *
1070163 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT-
66 ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTA
* *
1070200 GGGGAAATCAGCACTTAACAACCCCCT-TCACATTTAAAATACGGTGGAATCAGCATTTAGCAAC
1 GGGG-AATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
1070264 CACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTA
65 CACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTA
*
1070303 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
1070327 TAGGAATCAA
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
101 4 0.03
102 102 0.89
103 9 0.08
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAACACTTAGCAACCCCTTA
Found at i:1070314 original size:27 final size:26
Alignment explanation
Indices: 1070276--1070350 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 26
1070266 CCAATGAATC
1070276 GGGGAATCAACACTTAGCAACCCCTTA
1 GGGGAATCAACACTTAGCAACCCC-TA
1070303 GGGGAATCAACACTTAGCAACCCCTA
1 GGGGAATCAACACTTAGCAACCCCTA
* *
1070329 --GGAATCAAAACTTAGCACCCCC
1 GGGGAATCAACACTTAGCAACCCC
1070351 CTTTATATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 20 0.43
26 2 0.04
27 24 0.52
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.16
Consensus pattern (26 bp):
GGGGAATCAACACTTAGCAACCCCTA
Found at i:1072521 original size:26 final size:26
Alignment explanation
Indices: 1072492--1072711 Score: 235
Period size: 26 Copynumber: 8.5 Consensus size: 26
1072482 AAGTCGGTAG
*
1072492 TTATTTAGCAGGCATTGAGCCGATGT
1 TTATTTAGCAGGCCTTGAGCCGATGT
*
1072518 TTATTTAGCAGGCATTGAGCC-AGTGT
1 TTATTTAGCAGGCCTTGAGCCGA-TGT
* * * *
1072544 CTATTTAGCAGGCCTTTAGCCGGTGG
1 TTATTTAGCAGGCCTTGAGCCGATGT
*
1072570 TTATTTAACAGGCCTTGAGCCGATGT
1 TTATTTAGCAGGCCTTGAGCCGATGT
* * * *
1072596 TTATTTAACATGCCTTGAGCCGGTGG
1 TTATTTAGCAGGCCTTGAGCCGATGT
* *
1072622 TTATTTAGTAGGCCTTGAGTCGATGT
1 TTATTTAGCAGGCCTTGAGCCGATGT
* * *
1072648 TTATTTAGCAAGCCTTGAGTCGGTGT
1 TTATTTAGCAGGCCTTGAGCCGATGT
* * *
1072674 TTATTTAACAGGCCTTGGGCTGATGT
1 TTATTTAGCAGGCCTTGAGCCGATGT
* *
1072700 ATATTTATCAGG
1 TTATTTAGCAGG
1072712 TACTATGTAC
Statistics
Matches: 162, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
25 1 0.01
26 161 0.99
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (26 bp):
TTATTTAGCAGGCCTTGAGCCGATGT
Found at i:1072601 original size:78 final size:78
Alignment explanation
Indices: 1072472--1072686 Score: 270
Period size: 78 Copynumber: 2.8 Consensus size: 78
1072462 ATACTGGAAA
* * *
1072472 AGCAGGCCTTAAGTCGGTAGTTATTTAGCAGGCATTGAGCCGATGTTTATTTAGCAGGCATTGAG
1 AGCAGGCCTTAAGTCGGTGGTTATTTAGCAGGCCTTGAGCCGATGTTTATTTAACAGGCATTGAG
1072537 CCAGT-GTCTATTT
66 CCAGTGGT-TATTT
* * * * *
1072550 AGCAGGCCTTTAGCCGGTGGTTATTTAACAGGCCTTGAGCCGATGTTTATTTAACATGCCTTGAG
1 AGCAGGCCTTAAGTCGGTGGTTATTTAGCAGGCCTTGAGCCGATGTTTATTTAACAGGCATTGAG
*
1072615 CCGGTGGTTATTT
66 CCAGTGGTTATTT
* * * * * * *
1072628 AGTAGGCCTTGAGTCGATGTTTATTTAGCAAGCCTTGAGTCGGTGTTTATTTAACAGGC
1 AGCAGGCCTTAAGTCGGTGGTTATTTAGCAGGCCTTGAGCCGATGTTTATTTAACAGGC
1072687 CTTGGGCTGA
Statistics
Matches: 117, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 115 0.98
79 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.34
Consensus pattern (78 bp):
AGCAGGCCTTAAGTCGGTGGTTATTTAGCAGGCCTTGAGCCGATGTTTATTTAACAGGCATTGAG
CCAGTGGTTATTT
Found at i:1076742 original size:2 final size:2
Alignment explanation
Indices: 1076735--1076858 Score: 207
Period size: 2 Copynumber: 63.0 Consensus size: 2
1076725 GCTTGAAAAC
1076735 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
1076777 A- AG -G GG GG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1076817 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1076859 GTGGAAGAGG
Statistics
Matches: 117, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
1 2 0.02
2 115 0.98
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1086167 original size:60 final size:59
Alignment explanation
Indices: 1086102--1086228 Score: 146
Period size: 59 Copynumber: 2.1 Consensus size: 59
1086092 CGACAGAATA
* * * **
1086102 AAAATTCTAAAACGAAATCAAAAAACAAATTTTTTAAACAGCAGGATTAAATCCCGAAAC
1 AAAATTATAAAACGAAATCAAAAAA-AAATCTTTTAAACAGCAGGAATAAATCCAAAAAC
** ** * *
1086162 AAAATTATATCATTAAATCAAAATAAAATCTTTTAAACAGCGGGAATAAATCCAAAAAC
1 AAAATTATAAAACGAAATCAAAAAAAAATCTTTTAAACAGCAGGAATAAATCCAAAAAC
1086221 AAAATTAT
1 AAAATTAT
1086229 TTGATTACAG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
59 37 0.66
60 19 0.34
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.24
Consensus pattern (59 bp):
AAAATTATAAAACGAAATCAAAAAAAAATCTTTTAAACAGCAGGAATAAATCCAAAAAC
Found at i:1086212 original size:59 final size:60
Alignment explanation
Indices: 1086116--1086228 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 60
1086106 TTCTAAAACG
* * **
1086116 AAATCAAAAAACAAATTTTTTAAACAGCAGGATTAAATCCCGAAACAAAATTATATCATT
1 AAATCAAAAAACAAATCTTTTAAACAGCAGGAATAAATCCAAAAACAAAATTATATCATT
* *
1086176 AAATCAAAATA-AAATCTTTTAAACAGCGGGAATAAATCCAAAAACAAAATTAT
1 AAATCAAAAAACAAATCTTTTAAACAGCAGGAATAAATCCAAAAACAAAATTAT
1086229 TTGATTACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 37 0.79
60 10 0.21
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (60 bp):
AAATCAAAAAACAAATCTTTTAAACAGCAGGAATAAATCCAAAAACAAAATTATATCATT
Found at i:1086543 original size:84 final size:84
Alignment explanation
Indices: 1086176--1086733 Score: 475
Period size: 84 Copynumber: 6.7 Consensus size: 84
1086166 TTATATCATT
* * ** ** * *
1086176 AAATCAAAATAAAATCTT-TTAAACAGCGGGAATAAATCCAAAAACA-AAATTATTTGATTACAG
1 AAATC-AAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTATA-
1086239 CTT-T-ATTTGGAAACAAAAT-
64 -TTCTGATTTGGAAACAAAATC
* * ** * * *
1086258 AATATCGAATAAAATCTTGTTAAATGAAGGGAATAAATCCCGAAACAGA-ATTATTTGATTACGT
1 AA-ATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTA--T
* *
1086322 CTT-T-CTTTGGAAACAAAA-C
63 ATTCTGATTTGGAAACAAAATC
* * * ** *
1086341 AATATCGAATAAATTCTTGTTAAACGGCGGGAATAAATCTTGAAACAAATTTTATTTAATTCA-A
1 AA-ATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATT-ATA
*
1086405 TT-TGAATTTGG-AA-AAAATA
64 TTCTG-ATTTGGAAACAAAATC
*
1086424 AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTATATT
1 AAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTATATT
1086489 CTGATTTGGAAACAAAATC
66 CTGATTTGGAAACAAAATC
* ** * *
1086508 AACTCAAATAAAATCTTGTTAAGTGGCGAGAATAAATCTCGAAACAAATTTTATTTAATTATATT
1 AAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTATATT
*
1086573 CTAATTTGGAAACAAAATC
66 CTGATTTGGAAACAAAATC
* * * * *
1086592 AAACCAAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACA-AGTTTTATTTTATT-TAA
1 AAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGA-TTTTATTTAATTAT-A
* *
1086655 TTTCTCGTTTTTGGCAACAAAATC
64 -TTCT-G-ATTTGGAAACAAAATC
** * * *
1086679 AAAATGTAAT-AAATC-CGTTGAACGGCGAGAATCAATCCCGAAACAGATTTTATTT
1 -AAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTT
1086734 TACTTGTTTT
Statistics
Matches: 398, Mismatches: 56, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
81 1 0.00
82 82 0.21
83 105 0.26
84 147 0.37
85 5 0.01
86 32 0.08
87 20 0.05
88 6 0.02
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.32
Consensus pattern (84 bp):
AAATCAAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTATATT
CTGATTTGGAAACAAAATC
Found at i:1086543 original size:166 final size:167
Alignment explanation
Indices: 1086182--1086733 Score: 513
Period size: 166 Copynumber: 3.3 Consensus size: 167
1086172 CATTAAATCA
* * * * * *
1086182 AAATAAAATCTT-TTAAACAGCGGGAATAAATC-CAAAAACAAA-ATTATTTGATTACAGCTT-T
1 AAATAAAATCTTGTTAAACGGCGAGAATAAATCTC-GAAACAAATTTTATTTAATTATA--TTCT
* * * *
1086243 -ATTTGGAAACAAAATAATATCGAATAAAATCTTGTTAAATGAAGGGAATAAATCCCGAAACAGA
63 AATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGA
* * * *
1086307 -ATTATTTGATTACGTCTTTCTTTGGAAACAAAACAATATC
128 TTTTATTTAATTAC-TATTTATTTGGAAACAAAACAATATC
* * * *
1086347 GAATAAATTCTTGTTAAACGGCGGGAATAAATCTTGAAACAAATTTTATTTAATTCA-ATT-TGA
1 AAATAAAATCTTGTTAAACGGCGAGAATAAATCTCGAAACAAATTTTATTTAATT-ATATTCT-A
*
1086410 ATTTGG-AA-AAAATAAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACAGAT
64 ATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGAT
*
1086473 TTTATTTAATTA-TATTCTGATTTGGAAACAAAATCAA-CTC
129 TTTATTTAATTACTATT-T-ATTTGGAAACAAAA-CAATATC
**
1086513 AAATAAAATCTTGTTAAGTGGCGAGAATAAATCTCGAAACAAATTTTATTTAATTATATTCTAAT
1 AAATAAAATCTTGTTAAACGGCGAGAATAAATCTCGAAACAAATTTTATTTAATTATATTCTAAT
* * * * *
1086578 TTGGAAACAAAATCAAACCAAATAAAATCTTATTAAACGACGAGAATAAATCCTGAAACAAGTTT
66 TTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAAC-AG---
* ** * * *
1086643 TATTTTATTTAATTTCTCGTT-TTTGGCAACAAAATCAAAATG
127 -ATTTTATTTAATTACTATTTATTTGGAAACAAAA-CAATATC
* * * * * *
1086685 TAAT-AAATC-CGTTGAACGGCGAGAATCAATCCCGAAACAGATTTTATTT
1 AAATAAAATCTTGTTAAACGGCGAGAATAAATCTCGAAACAAATTTTATTT
1086734 TACTTGTTTT
Statistics
Matches: 323, Mismatches: 43, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
164 3 0.01
165 64 0.20
166 112 0.35
167 22 0.07
168 46 0.14
169 2 0.01
170 33 0.10
171 21 0.07
172 4 0.01
173 14 0.04
174 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (167 bp):
AAATAAAATCTTGTTAAACGGCGAGAATAAATCTCGAAACAAATTTTATTTAATTATATTCTAAT
TTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACGACGGGAATAAATCCCGAAACAGATTT
TATTTAATTACTATTTATTTGGAAACAAAACAATATC
Found at i:1087048 original size:88 final size:86
Alignment explanation
Indices: 1086681--1087080 Score: 343
Period size: 79 Copynumber: 4.8 Consensus size: 86
1086671 ACAAAATCAA
* * * * * *
1086681 AATGTAAT-AAATCCGTTGAACGGCGAGAATCAATCCCGAAACAGATTTTATTTTA-C--T--TG
1 AATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTA-TTTACCTTTAATT
1086740 TT--TTTGGAAATAAAACAAAAT
65 TTCGTTTGGAAATAAAA-AAAAT
* * * * * * **
1086761 -TTGGAATAAAAT-TGTTGAACGGCGGGAATCAATCCCGAAACAGATTCTATTTTA-C--T--CG
1 AATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTA-TTTACCTTTAATT
1086819 TT--TTTGGAAATAAAAAAAA-
65 TTCGTTTGGAAATAAAAAAAAT
* * * * *
1086838 AATTGGAACAAAAT-CGTTCAACGGCGGGAATCAATCCCAAAATGGTTTTTATTTACCTTTAATT
1 AA-TGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTATTTACCTTTAATT
*
1086902 TCCCGTTTGGAAATAGAAACAAAAT
65 T-TCGTTTGGAAATA-AAA-AAAAT
* * * *
1086927 AATAGAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTACCTTTAAATT
1 AATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTATTTACCTTT-AATT
1086992 TTCGTTTGGAAATAAAATAAAAT
65 TTCGTTTGGAAATAAAA-AAAAT
* * *
1087015 AATGGAATAAAATCCGTTGAACAGTGGGAATAAATCCCAAAATAGATTTTATTTACTTTTAATTT
1 AATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTATTTACCTTTAATTT
1087080 T
66 T
1087081 GGAAACAAAA
Statistics
Matches: 268, Mismatches: 36, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
78 8 0.03
79 103 0.38
80 4 0.01
81 1 0.00
83 1 0.00
86 10 0.04
87 9 0.03
88 74 0.28
89 53 0.20
90 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (86 bp):
AATGGAATAAAATCCGTTGAACGGCGGGAATAAATCCCAAAATAGATTTTATTTACCTTTAATTT
TCGTTTGGAAATAAAAAAAAT
Found at i:1089294 original size:17 final size:17
Alignment explanation
Indices: 1089267--1089309 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1089257 CAAAGTGGTC
* *
1089267 ATTATATAAATTTGAAAG
1 ATTA-ATAAATCTCAAAG
1089285 ATTAATAAATCTCAAAG
1 ATTAATAAATCTCAAAG
1089302 ATTAATAA
1 ATTAATAA
1089310 TTAGCCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
ATTAATAAATCTCAAAG
Done.