Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1737518 original size:6 final size:6
Alignment explanation
Indices: 1737508--1737537 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1737498 AACAGGGGTT
*
1737508 TGAAAT TGAAAC TGAAAC TGAAAC TGAAAC
1 TGAAAC TGAAAC TGAAAC TGAAAC TGAAAC
1737538 AGAGTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
TGAAAC
Found at i:1755624 original size:2 final size:2
Alignment explanation
Indices: 1755617--1755644 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1755607 TTTCTCGTTG
1755617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1755645 TGGCTGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1755986 original size:29 final size:25
Alignment explanation
Indices: 1755936--1755987 Score: 68
Period size: 29 Copynumber: 1.9 Consensus size: 25
1755926 TCTTGCAAAA
1755936 ATTTTAATTTTTATATAATTTAAAT
1 ATTTTAATTTTTATATAATTTAAAT
1755961 ATTTTATAGTTTTTATTAATAATTTAA
1 ATTTTA-A-TTTTTA-T-ATAATTTAA
1755988 TTGTATGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.26
26 1 0.04
27 6 0.26
28 1 0.04
29 9 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTTAATTTTTATATAATTTAAAT
Found at i:1777256 original size:15 final size:16
Alignment explanation
Indices: 1777224--1777271 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
1777214 AACACAAAAA
* *
1777224 AGGAAAATAATCAAAT
1 AGGAAAACAATTAAAT
*
1777240 AGGCAAA-AATTAAAT
1 AGGAAAACAATTAAAT
1777255 AGGAAAACAATTAAAT
1 AGGAAAACAATTAAAT
1777271 A
1 A
1777272 AAAAGAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AGGAAAACAATTAAAT
Found at i:1778167 original size:13 final size:13
Alignment explanation
Indices: 1778151--1778189 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
1778141 AATCAGTAAG
1778151 CAAAAAGAAAAAA
1 CAAAAAGAAAAAA
1778164 CAAAAAGAAAAAA
1 CAAAAAGAAAAAA
1778177 CAAAAAGAGAAAA
1 CAAAAAGA-AAAA
1778190 TGGTACCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (13 bp):
CAAAAAGAAAAAA
Found at i:1779342 original size:24 final size:24
Alignment explanation
Indices: 1779315--1779384 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
1779305 AACATAATTT
1779315 AGGTCAAGTATCATATCAGAATCC
1 AGGTCAAGTATCATATCAGAATCC
*
1779339 AGGTTAAGTATCATATCAGAATCC
1 AGGTCAAGTATCATATCAGAATCC
* *
1779363 AGGTCAAGTATTATAACAGAAT
1 AGGTCAAGTATCATATCAGAAT
1779385 TCGAATCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (24 bp):
AGGTCAAGTATCATATCAGAATCC
Found at i:1783448 original size:24 final size:24
Alignment explanation
Indices: 1783421--1783508 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 24
1783411 TATATCAAAA
* *
1783421 ATCAAAACATAATTCAGGTCAAGT
1 ATCATAACAGAATTCAGGTCAAGT
* *
1783445 ATCATATCAGAATCCAGGTCAAGT
1 ATCATAACAGAATTCAGGTCAAGT
* * * *
1783469 ATTAGATCAGAATACAGGTCAAGT
1 ATCATAACAGAATTCAGGTCAAGT
* *
1783493 ATTATAACATAATTCA
1 ATCATAACAGAATTCA
1783509 AATTGAAAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (24 bp):
ATCATAACAGAATTCAGGTCAAGT
Found at i:1786766 original size:16 final size:16
Alignment explanation
Indices: 1786732--1786768 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1786722 TTTTTTAATG
*
1786732 ATAATAATATAACATA
1 ATAATAATATAACACA
*
1786748 ATAATAATATAATACA
1 ATAATAATATAACACA
1786764 ATAAT
1 ATAAT
1786769 GATCGAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAATATAACACA
Found at i:1797445 original size:20 final size:20
Alignment explanation
Indices: 1797420--1797474 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1797410 ATTTTCTAGG
1797420 TTGTAGTATCGATATTGTTC
1 TTGTAGTATCGATATTGTTC
*
1797440 TTGTAGTATCGATATTGTTT
1 TTGTAGTATCGATATTGTTC
1797460 TTGTAGTATCGATAT
1 TTGTAGTATCGATAT
1797475 CAATATCGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (20 bp):
TTGTAGTATCGATATTGTTC
Found at i:1797483 original size:12 final size:12
Alignment explanation
Indices: 1797466--1797492 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1797456 GTTTTTGTAG
1797466 TATCGATATCAA
1 TATCGATATCAA
1797478 TATCGATATCAA
1 TATCGATATCAA
1797490 TAT
1 TAT
1797493 TATTCTTGAA
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:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (12 bp):
TATCGATATCAA
Found at i:1798057 original size:21 final size:22
Alignment explanation
Indices: 1798032--1798087 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
1798022 AGTAGGTTTT
1798032 GGATCGATCCCTTCACA-AAAAA
1 GGATCGATCCCTTCA-AGAAAAA
1798054 -GATCGATCCC-TCAAGGAAAAA
1 GGATCGATCCCTTCAA-GAAAAA
1798075 GGATCGATCCCTT
1 GGATCGATCCCTT
1798088 GCCCTAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.10
21 15 0.50
22 10 0.33
23 1 0.03
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.20
Consensus pattern (22 bp):
GGATCGATCCCTTCAAGAAAAA
Found at i:1802931 original size:16 final size:16
Alignment explanation
Indices: 1802899--1802932 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
1802889 TGAGGAGTTG
1802899 GATATTTTGATATATT
1 GATATTTTGATATATT
1802915 GATATCTTTGATA-ATT
1 GATAT-TTTGATATATT
1802931 GA
1 GA
1802933 ATAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (16 bp):
GATATTTTGATATATT
Found at i:1807797 original size:23 final size:23
Alignment explanation
Indices: 1807771--1807825 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
1807761 CAGTCGAGGG
1807771 ATTCTACGCGGTCCTTCGGGACA
1 ATTCTACGCGGTCCTTCGGGACA
* * *
1807794 ATTCTATGTGGTCCTTCGGGGCA
1 ATTCTACGCGGTCCTTCGGGACA
*
1807817 ATTATACGC
1 ATTCTACGC
1807826 AGTCTTTCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
ATTCTACGCGGTCCTTCGGGACA
Found at i:1807874 original size:24 final size:25
Alignment explanation
Indices: 1807842--1807896 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
1807832 TCAAGACAAA
* *
1807842 TCTATGTGGCACTTCGGTGC-ATAT
1 TCTACGTGGCACTTCGGTGCAAAAT
1807866 TCTACGTGGCACTTCGGTGCAAAAT
1 TCTACGTGGCACTTCGGTGCAAAAT
1807891 TCTACG
1 TCTACG
1807897 CGGTAGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (25 bp):
TCTACGTGGCACTTCGGTGCAAAAT
Found at i:1808775 original size:19 final size:20
Alignment explanation
Indices: 1808751--1808806 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
1808741 AAAAATTAGT
* *
1808751 TATGAATCTGAC-ATTAAGC
1 TATGAATCTGACAAATAAGA
1808770 TATGAATCTG-CAAATAAGA
1 TATGAATCTGACAAATAAGA
1808789 TATGAATCTGA-AAATAAG
1 TATGAATCTGACAAATAAG
1808807 TTCTGATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 32 0.97
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
TATGAATCTGACAAATAAGA
Found at i:1808875 original size:12 final size:12
Alignment explanation
Indices: 1808858--1808892 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1808848 TTATGAACAT
1808858 TGAATATGAAAA
1 TGAATATGAAAA
**
1808870 TGAATATGTGAA
1 TGAATATGAAAA
1808882 TGAATATGAAA
1 TGAATATGAAA
1808893 GTGGAAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (12 bp):
TGAATATGAAAA
Found at i:1820486 original size:15 final size:15
Alignment explanation
Indices: 1820468--1820518 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
1820458 TCAAGGGTAT
*
1820468 TGTAGTCCTTTGGGA
1 TGTAGTCCTTCGGGA
*
1820483 TGTAGTCATTCGGGA
1 TGTAGTCCTTCGGGA
*
1820498 CGTAGTCCTTCGGGA
1 TGTAGTCCTTCGGGA
1820513 TGTAGT
1 TGTAGT
1820519 GGTCCTACGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.35
Consensus pattern (15 bp):
TGTAGTCCTTCGGGA
Found at i:1828772 original size:21 final size:21
Alignment explanation
Indices: 1828748--1828862 Score: 108
Period size: 21 Copynumber: 5.6 Consensus size: 21
1828738 TATCGTAAAT
1828748 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
1828769 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
1828789 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
1828810 TCGTGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
1828830 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
1828851 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1828863 TTTCCATTTC
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 28 0.41
21 40 0.59
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:1828797 original size:20 final size:20
Alignment explanation
Indices: 1828769--1828882 Score: 93
Period size: 20 Copynumber: 5.6 Consensus size: 20
1828759 TAGTTGAAAA
1828769 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
1828789 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
* *
1828810 TCGTGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1828830 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1828851 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1828871 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1828883 AGTCTACAGT
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 40 0.59
21 28 0.41
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1828804 original size:41 final size:41
Alignment explanation
Indices: 1828747--1828885 Score: 251
Period size: 41 Copynumber: 3.4 Consensus size: 41
1828737 CTATCGTAAA
1828747 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
* * *
1828788 TTCGCATTGCGATAGTTGAAAATCGTGTTGCGATTTTTCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1828829 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1828870 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
1828886 CTACAGTTGT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:1828919 original size:82 final size:81
Alignment explanation
Indices: 1828745--1828922 Score: 243
Period size: 82 Copynumber: 2.2 Consensus size: 81
1828735 CACTATCGTA
1828745 AATTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAA
*
1828810 TCGTGTTGCGATTTTTC
65 TCGTGTTGCGATTTTCC
* * *
1828827 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACA
1 AATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGT-TGAAA
* *
1828891 GTTGTCGTTGCGATTTTCC
64 ATCGT-GTTGCGATTTTCC
1828910 AAATT-CGTTGCGA
1 -AATTCCGTTGCGA
1828923 AAATTCGTTG
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
82 70 0.81
83 13 0.15
84 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.38
Consensus pattern (81 bp):
AATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAAT
CGTGTTGCGATTTTCC
Found at i:1829024 original size:6 final size:6
Alignment explanation
Indices: 1829013--1829049 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
1829003 GAAGACACGT
*
1829013 ATTACC ATTACC ATTACC ATTACC ATTATC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC A
1829050 CGACCCGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTACC
Found at i:1829563 original size:6 final size:6
Alignment explanation
Indices: 1829542--1829576 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1829532 TCTCGTCTCG
*
1829542 GGTCGT CGTCGT -GTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1829577 ATATTATCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.20, G:0.46, T:0.34
Consensus pattern (6 bp):
GGTCGT
Found at i:1833400 original size:23 final size:22
Alignment explanation
Indices: 1833360--1833431 Score: 126
Period size: 22 Copynumber: 3.2 Consensus size: 22
1833350 GGTAAAACTC
1833360 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1833382 TCATCTTTGAAAAAAAGAATCTA
1 TCATCTTTG-AAAAGAGAATCTA
1833405 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1833427 TCATC
1 TCATC
1833432 ATTACAAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 26 0.55
23 21 0.45
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1840882 original size:21 final size:21
Alignment explanation
Indices: 1840853--1840892 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1840843 CTTGCATCTG
*
1840853 AATCTGGCCTGTGTGCCTTGT
1 AATCGGGCCTGTGTGCCTTGT
1840874 AATCGGGCCTGTGTGCCTT
1 AATCGGGCCTGTGTGCCTT
1840893 ACTTTGTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.25, G:0.30, T:0.35
Consensus pattern (21 bp):
AATCGGGCCTGTGTGCCTTGT
Found at i:1843190 original size:29 final size:29
Alignment explanation
Indices: 1843148--1843205 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
1843138 TTGATGAAGG
*
1843148 ACATTGAATATGGTGATGATCTTACTCTT
1 ACATTGAATATGGTGACGATCTTACTCTT
*
1843177 ACATTGAATCTGGTGACGATCTTACTCTT
1 ACATTGAATATGGTGACGATCTTACTCTT
1843206 TCCTCTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (29 bp):
ACATTGAATATGGTGACGATCTTACTCTT
Found at i:1843490 original size:124 final size:124
Alignment explanation
Indices: 1843235--1843678 Score: 475
Period size: 123 Copynumber: 3.6 Consensus size: 124
1843225 TCGTGGGACA
* * ** * *
1843235 ATCTTTCTCATTCCTCTTAAGGACGCTAAGTCATAATTGGTAGGTGATCCACTCCTTTTAG-TGA
1 ATCTTACTCATTCCTCTAAAGGATACTAAGTCGTAATTGG--GGTGATCCACTCCTTTT-GCTAA
* * * ** * *
1843299 AGGATATTAAATCTGGT-AACGATCTCA-TTCTTTCCTCTGAAAGACG-TAGAGTCATAAAACG
63 AGGACACTGAATCTGGTGAAAAAACTCACTT-TTTCCTCTGAAAGACGCT-GAGTCATAGAACG
* * * *
1843360 ATCTTACTCCTTCCTCTTAAGGATGCTAATTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGG
1 ATCTTACTCATTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGG
* * * *
1843425 ACGCTGAATCTAGTGAAAAAACTCACTTTTTCCTCTGAAAGACGCTGAATCGTAGAACG
66 ACACTGAATCTGGTGAAAAAACTCACTTTTTCCTCTGAAAGACGCTGAGTCATAGAACG
* *
1843484 ATCTTACTCATTCCTCTAAAGGATACTAAGTCTTAATTGGGGTGATCCACTCTTTTTGCTAAAGG
1 ATCTTACTCATTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGG
* * ** * * **
1843549 ACACTGAATCTGGTGATAATA-TCACCCTTTCATCTGAAAGACACTGAGTCATAGAATA
66 ACACTGAATCTGGTGAAAAAACTCACTTTTTCCTCTGAAAGACGCTGAGTCATAGAACG
* * * * *
1843607 ATCTTAATCCTTCTTCTAAAGGATACTAAGTTGTAATTGGGGTGATCCACTCCTTTTACTAAAGG
1 ATCTTACTCATTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGG
*
1843672 ACGCTGA
66 ACACTGA
1843679 GTCGTGGAAC
Statistics
Matches: 272, Mismatches: 43, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
122 1 0.00
123 124 0.46
124 109 0.40
125 38 0.14
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (124 bp):
ATCTTACTCATTCCTCTAAAGGATACTAAGTCGTAATTGGGGTGATCCACTCCTTTTGCTAAAGG
ACACTGAATCTGGTGAAAAAACTCACTTTTTCCTCTGAAAGACGCTGAGTCATAGAACG
Found at i:1843635 original size:123 final size:123
Alignment explanation
Indices: 1843328--1843678 Score: 454
Period size: 124 Copynumber: 2.8 Consensus size: 123
1843318 CGATCTCATT
* * * * * *
1843328 CTTTCCTCTGAAAGACGTAGAGTCATAAAACGATCTTACTCCTTCCTCTTAAGGATGCTAATTCG
1 CTTTCCTCTGAAAGACCT-GAGTCATAGAACGATCTTACTCCTTCCTCTAAAGGATACTAAGTCT
*
1843393 TAATTGGGGTGATCCACTCCTTTTGCTAAAGGACGCTGAATCTAGTGAAAAAACTCACT
65 TAATTGGGGTGATCCACTCCTTTTGCTAAAGGACGCTGAATCTAGTGAAAAAACTCACC
* * * *
1843452 TTTTCCTCTGAAAGACGCTGAATCGTAGAACGATCTTACTCATTCCTCTAAAGGATACTAAGTCT
1 CTTTCCTCTGAAAGAC-CTGAGTCATAGAACGATCTTACTCCTTCCTCTAAAGGATACTAAGTCT
* * * * *
1843517 TAATTGGGGTGATCCACTCTTTTTGCTAAAGGACACTGAATCTGGTGATAATA-TCACC
65 TAATTGGGGTGATCCACTCCTTTTGCTAAAGGACGCTGAATCTAGTGAAAAAACTCACC
* ** * *
1843575 CTTTCATCTGAAAGACACTGAGTCATAGAATAATCTTAATCCTTCTTCTAAAGGATACTAAGT-T
1 CTTTCCTCTGAAAGAC-CTGAGTCATAGAACGATCTTACTCCTTCCTCTAAAGGATACTAAGTCT
*
1843639 GTAATTGGGGTGATCCACTCCTTTTACTAAAGGACGCTGA
65 -TAATTGGGGTGATCCACTCCTTTTGCTAAAGGACGCTGA
1843679 GTCGTGGAAC
Statistics
Matches: 196, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
122 1 0.01
123 93 0.47
124 101 0.52
125 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (123 bp):
CTTTCCTCTGAAAGACCTGAGTCATAGAACGATCTTACTCCTTCCTCTAAAGGATACTAAGTCTT
AATTGGGGTGATCCACTCCTTTTGCTAAAGGACGCTGAATCTAGTGAAAAAACTCACC
Found at i:1843716 original size:15 final size:15
Alignment explanation
Indices: 1843696--1843725 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1843686 AACGGTCTTA
1843696 CTCCTTCCTCTAAAT
1 CTCCTTCCTCTAAAT
1843711 CTCCTTCCTCTAAAT
1 CTCCTTCCTCTAAAT
1843726 GACACTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (15 bp):
CTCCTTCCTCTAAAT
Found at i:1844633 original size:25 final size:25
Alignment explanation
Indices: 1844600--1844667 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
1844590 ATATCAATGT
*
1844600 AGAATTTTTGAAAAATGTTTGATGAA
1 AGAA-TTTTGAAAAATGTTTGATAAA
*
1844626 AGAATTTTGAAAAATATTTGATAAA
1 AGAATTTTGAAAAATGTTTGATAAA
1844651 AGAATTTT-AAAAATGTT
1 AGAATTTTGAAAAATGTT
1844668 GCCCTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 8 0.21
25 27 0.69
26 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (25 bp):
AGAATTTTGAAAAATGTTTGATAAA
Found at i:1846284 original size:33 final size:32
Alignment explanation
Indices: 1846236--1846318 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 32
1846226 TGCGACTTTA
*
1846236 GTGCGTCAAAAAGAGGTAAGGGTATGAATTCGG
1 GTGCCTCAAAAAGAGGTAAGGGTATGAATT-GG
* * * * *
1846269 GTGCCTCAAAGAGAGGTAATGTTATGACTTTG
1 GTGCCTCAAAAAGAGGTAAGGGTATGAATTGG
* *
1846301 GTGCCTCAGATAGAGGTA
1 GTGCCTCAAAAAGAGGTA
1846319 GTGTCAAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 17 0.40
33 25 0.60
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (32 bp):
GTGCCTCAAAAAGAGGTAAGGGTATGAATTGG
Found at i:1849214 original size:84 final size:86
Alignment explanation
Indices: 1849112--1849282 Score: 301
Period size: 86 Copynumber: 2.0 Consensus size: 86
1849102 AATAAATGCG
*
1849112 CGAACAATCCTAAGGGCTAAAGTAAAA-TTAGAAC-GGGACCAGAATATTATAATTCAAGGAAAG
1 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
*
1849175 GAGGCCAAATCAAGATTTAAT
66 GAGGCCAAATCAAAATTTAAT
*
1849196 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGATCAAAATATTATAATTCAAGGAAAG
1 CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
1849261 GAGGCCAAATCAAAATTTAAT
66 GAGGCCAAATCAAAATTTAAT
1849282 C
1 C
1849283 AAAACTAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
84 27 0.33
85 7 0.09
86 48 0.59
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (86 bp):
CGAACAATCCTAAGGGCTAAAGTAAAATTTAGAACGGGGACCAAAATATTATAATTCAAGGAAAG
GAGGCCAAATCAAAATTTAAT
Found at i:1850170 original size:17 final size:17
Alignment explanation
Indices: 1850148--1850184 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1850138 AAAGTTAATT
*
1850148 TTTTTTGTTTGGTTCTG
1 TTTTTTGTTTGATTCTG
1850165 TTTTTTGTTTGATTCTG
1 TTTTTTGTTTGATTCTG
1850182 TTT
1 TTT
1850185 GGGTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.05, G:0.19, T:0.73
Consensus pattern (17 bp):
TTTTTTGTTTGATTCTG
Found at i:1868303 original size:41 final size:42
Alignment explanation
Indices: 1868236--1868419 Score: 171
Period size: 41 Copynumber: 4.5 Consensus size: 42
1868226 GATTATATAT
* * *
1868236 TTAACA-TTTTACGGCGTTTATATAAAAAAATGCCACTATTGA
1 TTAACACTATTACGGCGTTTGTAT-AAAAAACGCCACTATTGA
**
1868278 TT-ACACTATTGTGGCGTTTGT-TAAAAAACGCCACTATTGA
1 TTAACACTATTACGGCGTTTGTATAAAAAACGCCACTATTGA
* * * * *
1868318 TTAAAACTATTACGGTGTTTTTCT-AAAAACGCCATTATTGA
1 TTAACACTATTACGGCGTTTGTATAAAAAACGCCACTATTGA
* * * *
1868359 TTAACACTATTACGACGTTTGTCT-AAAAATGCCACTATTTA
1 TTAACACTATTACGGCGTTTGTATAAAAAACGCCACTATTGA
* * *
1868400 TTATCACTATTGCAGCGTTT
1 TTAACACTATTACGGCGTTT
1868420 TAAGAATAAA
Statistics
Matches: 117, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
40 19 0.16
41 84 0.72
42 14 0.12
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (42 bp):
TTAACACTATTACGGCGTTTGTATAAAAAACGCCACTATTGA
Found at i:1868471 original size:42 final size:41
Alignment explanation
Indices: 1868425--1868539 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 41
1868415 CGTTTTAAGA
*
1868425 ATAAATGACACTATATGTGTAATCTATTGCGGCATTTGTGG-T
1 ATAAATGCCACTATATGT-TAATCTATTGCGGCATTT-TGGCT
* * *
1868467 ATAAATGCCGCTA-AT-TTACCGATCTATTGTGGCGTTTTGGCT
1 ATAAATGCCACTATATGTTA---ATCTATTGCGGCATTTTGGCT
*
1868509 A-AAACGCCACTATATGTTAATCTATTGCGGC
1 ATAAATGCCACTATATGTTAATCTATTGCGGC
1868540 GTTTATATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
39 2 0.03
40 12 0.20
41 14 0.23
42 29 0.48
43 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (41 bp):
ATAAATGCCACTATATGTTAATCTATTGCGGCATTTTGGCT
Found at i:1868595 original size:79 final size:83
Alignment explanation
Indices: 1868433--1868582 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 83
1868423 GAATAAATGA
* * * *
1868433 CACTATATGTGTAATCTATTGCGGCATTTGTGGTATAAATGCCGCTAATTTACCGATCTATTGTG
1 CACTATATGTGTAATCTATTGCGGCAGTTGTGATATAAACGCCGCTAATTTACCGATCTATTATG
*
1868498 GCGTTTTGGCTAAAACGC
66 ACGTTTTGGCTAAAACGC
1868516 CACTATATGT-TAATCTATTGCGGC-GTT-T-ATATAAACGCCGCTAATTTACC-ACTCTATTAT
1 CACTATATGTGTAATCTATTGCGGCAGTTGTGATATAAACGCCGCTAATTTACCGA-TCTATTAT
1868576 GACGTTT
65 GACGTTT
1868583 GTTAAAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.02
79 33 0.54
80 1 0.02
81 2 0.03
82 14 0.23
83 10 0.16
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (83 bp):
CACTATATGTGTAATCTATTGCGGCAGTTGTGATATAAACGCCGCTAATTTACCGATCTATTATG
ACGTTTTGGCTAAAACGC
Found at i:1869227 original size:36 final size:37
Alignment explanation
Indices: 1869184--1869263 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 37
1869174 GAAATACATG
* * * *
1869184 TTTTTATATGCACTGTTAATGCACCACT-GAATTTTT
1 TTTTTATATGAACTGATAATGCACCACTAAAATGTTT
* *
1869220 TTTTTATATGAAGTGATAATGCACCATTAAAATGTTT
1 TTTTTATATGAACTGATAATGCACCACTAAAATGTTT
1869257 TTTTTAT
1 TTTTTAT
1869264 TTGAGTTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (37 bp):
TTTTTATATGAACTGATAATGCACCACTAAAATGTTT
Found at i:1872572 original size:52 final size:55
Alignment explanation
Indices: 1872503--1872632 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 55
1872493 ATCAAATAAT
* *
1872503 AAAAGCAGCAACGTTTAGCAAAA-TT-GAAG-AAAAAACTAACAATTATTTTGTA
1 AAAAGCAGCAACATTTAGCAAAATTTAAAAGAAAAAAACTAACAATTATTTTGTA
*
1872555 AAAAGCAGCATCATTTAGCAAAATTTAAAAGAAAAAAACTAACAATTATTTTGTA
1 AAAAGCAGCAACATTTAGCAAAATTTAAAAGAAAAAAACTAACAATTATTTTGTA
* * * *
1872610 AAAAACATCAGCATTTAACAAAA
1 AAAAGCAGCAACATTTAGCAAAA
1872633 AAATCAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 21 0.31
53 2 0.03
54 3 0.04
55 42 0.62
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (55 bp):
AAAAGCAGCAACATTTAGCAAAATTTAAAAGAAAAAAACTAACAATTATTTTGTA
Found at i:1879828 original size:22 final size:22
Alignment explanation
Indices: 1879761--1879842 Score: 96
Period size: 23 Copynumber: 3.8 Consensus size: 22
1879751 CAGAACCCTC
*
1879761 AGGGGGTATCGATTCCCC-T-A
1 AGGGGGAATCGATTCCCCTTCA
* *
1879781 GGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTC-A
*
1879804 AGGGGGAATCGGTTCCCCTTCA
1 AGGGGGAATCGATTCCCCTTCA
*
1879826 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
1879843 TCTGCCCTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.28
21 1 0.02
22 16 0.30
23 21 0.40
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:1881132 original size:23 final size:23
Alignment explanation
Indices: 1881098--1881156 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
1881088 CTCATATAAA
*
1881098 TGCACCGAAGTGCCATGCAGAAT
1 TGCACCGAAGTGCCACGCAGAAT
* *
1881121 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGCAGAAT
1881144 TGCACCGAAGTGC
1 TGCACCGAAGTGC
1881157 TATATAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGCAGAAT
Found at i:1891199 original size:2 final size:2
Alignment explanation
Indices: 1891192--1891247 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1891182 ACCTAACAAA
1891192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1891234 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1891248 GTGTATACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1893897 original size:35 final size:35
Alignment explanation
Indices: 1893816--1894146 Score: 430
Period size: 35 Copynumber: 9.3 Consensus size: 35
1893806 GGGCAAGTCA
* * * *
1893816 ATCTTAAGCCTTAACCAAAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AATC
*
1893852 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
* *
1893887 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
*
1893922 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
* * *
1893957 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AATC
* * *
1893993 ATCTTAAGCCTTTACCGGAGAGTAGTGAAGCAATA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
* *
1894028 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
* *
1894063 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
* *
1894097 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGTAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG-CAAT-C
1894134 ATCTCTAAGCCTT
1 ATCT-TAAGCCTT
1894147 TAGAGCAGGA
Statistics
Matches: 260, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
34 30 0.12
35 159 0.61
36 58 0.22
37 5 0.02
38 8 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATC
Found at i:1894001 original size:106 final size:105
Alignment explanation
Indices: 1893816--1894146 Score: 445
Period size: 106 Copynumber: 3.1 Consensus size: 105
1893806 GGGCAAGTCA
* * * **
1893816 ATCTTAAGCCTTAACCA-AAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AATCATCTTAAGCCTTCACCAAAGAGTAGTGA
*
1893880 AGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATC
64 AGCAACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATC
*
1893922 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGGAGTGAAG
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGTAGTGAAG
* * * * *
1893987 CAAACCATCTTAAGCCTTTACCGGAGAGTAGTGAAGCAATA
66 C-AACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATC
*
1894028 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCA-CAGAAGAGTAGTGAA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCA-AAGAGTAGTGAA
1894092 GC-ACCATCTTAAGCCTTCACCA-AAGAGTAGTGAAGTAAATCC
65 GCAACCATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG-AAAT-C
1894134 ATCTCTAAGCCTT
1 ATCT-TAAGCCTT
1894147 TAGAGCAGGA
Statistics
Matches: 198, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
104 28 0.14
105 39 0.20
106 124 0.63
107 7 0.04
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (105 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACCAAAGAGTAGTGAAG
CAACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATC
Found at i:1894070 original size:141 final size:140
Alignment explanation
Indices: 1893816--1894148 Score: 567
Period size: 141 Copynumber: 2.4 Consensus size: 140
1893806 GGGCAAGTCA
* *
1893816 ATCTTAAGCCTTAACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTTACCGGAGAGTAGTGAA
*
1893881 GCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATCATCTTAAGCCTTCACAGAAGAGTA
66 GCAATAATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATCATCTTAAGCCTTCACAGAAGAGTA
*
1893946 GTGAAGCAATC
131 GTGAAGC-ACC
1893957 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTTACCGGAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTTACCGGAGAGTAGTGAA
* *
1894022 GCAATAATCTTAAGTCTTCACAGAAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTA
66 GCAATAATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATCATCTTAAGCCTTCACAGAAGAGTA
1894087 GTGAAGCACC
131 GTGAAGCACC
* *
1894097 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGTAAATCCATCTCTAAGCCTTTA
1 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAA-CCATCT-TAAGCCTTTA
1894149 GAGCAGGATG
Statistics
Matches: 182, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
140 34 0.19
141 138 0.76
142 10 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (140 bp):
ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTTACCGGAGAGTAGTGAA
GCAATAATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAATCATCTTAAGCCTTCACAGAAGAGTA
GTGAAGCACC
Found at i:1894541 original size:216 final size:216
Alignment explanation
Indices: 1894133--1895419 Score: 1973
Period size: 216 Copynumber: 6.0 Consensus size: 216
1894123 GAAGTAAATC
* * * *
1894133 CATCTCTAAGCCTTTAGAGCAGGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
* * *
1894198 TGTTTTCACATGAATTTGAAAATGAAAAAAATGATG-----AGAATATGAAATTTTTGAAAACTT
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
*
1894258 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* *
1894323 TGATGCCTAAATCCTTCGAGT
196 TGATGCTTAAATCCTTCGGGT
* * * * *
1894344 CATCTGTAAGCCTTAAGAGTAAGATGATAAGTCATTCGGACCATCCATAAAACCTTCGGGTAGGA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
*
1894409 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATATTTGAAAACTA
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* *
1894474 AGAATGCGATTTTAAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
1894539 TGATGCTTAAATCCTTTGGGT
196 TGATGCTTAAATCCTTCGGGT
* *
1894560 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
**
1894625 TGTTTTCACGTGAATTTGAAAATG--AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * * * * *
1894688 AGAATGCGATATTCAAAACTTCACATTTTATAAGTCCTTTGGGACATCAGTAAGTCATTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
1894753 TGATGCTTAAATCCTTCGGAT
196 TGATGCTTAAATCCTTCGGGT
* * * *
1894774 CATCTGTAAGCCTTTAGAGTAAGATGATAAGTCCTTCGGGCGATCTATAAAACCTTCGGGTAGGA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
1894839 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
*
1894904 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* *
1894969 AGATGGTTAAATCCTTCGGGT
196 TGATGCTTAAATCCTTCGGGT
* * * * *
1894990 CATCTATAAGCCTTTTGATCAAGATGATAAGTCTTTCAGGCCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
*
1895055 TGTTTTCACATGAATTTGAAAATG--AAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
* * * * *
1895118 AGAATGCAACTTTCAAATTTTCACAATTTATAAGTCCTTCAGACCATCAGTAAGTCTTTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
1895183 TGATGCTTAAATCCTTCGGGT
196 TGATGCTTAAATCCTTCGGGT
* * * * **
1895204 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCGTTCAGGCTATCCATAAAACCTTCGGGTATAA
1 CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
1895269 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTT-AGAAAGATGAAATTTTTGAAAACT
66 TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAG-AAGATGAAATTTTTGAAAACT
* *
1895333 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCATTAAGTCTTTTGAGC
130 AAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
* *
1895398 ATGATGATTAAATCATTCGGGT
195 ATGATGCTTAAATCCTTCGGGT
1895420 AATTTGTAAG
Statistics
Matches: 976, Mismatches: 90, Indels: 15
0.90 0.08 0.01
Matches are distributed among these distances:
211 92 0.09
214 394 0.40
215 2 0.00
216 488 0.50
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (216 bp):
CATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
TGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGCTTAAATCCTTCGGGT
Found at i:1895432 original size:430 final size:428
Alignment explanation
Indices: 1894133--1895419 Score: 2037
Period size: 430 Copynumber: 3.0 Consensus size: 428
1894123 GAAGTAAATC
* * * *
1894133 CATCTCTAAGCCTTTAGAGCAGGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* * * * *
1894198 TGTTTTCACATGAATTTGAAAATGAAAAA-AATG--ATGAGAATATGAAATTTTTGAAAACTTAG
66 TGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
* *
1894260 AATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATG
131 AATGCGA-TTTCAAAATTTCACAATTTATAAGTCCTTCGGACCATCAGTAAGTCTTTCGAGCATG
* * *
1894325 ATGCCTAAATCCTTCGAGTCATCTGTAAGCCTTAAGAGTAAGATGATAAGTCATTCGGACCATCC
195 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCATTCGG-CCATCC
1894390 ATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAG
259 ATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAG
* *
1894455 ATGAAATATTTGAAAACTAAGAATGCGATTTTAAAAATTTCACAATTTATAAGTCCTTCGGGCCA
324 ATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCA
* * * *
1894520 TCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTTGGGT
389 TCATTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
1894560 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
*
1894625 TGTTTTCACGTGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
66 TGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
* * * *
1894690 AATGCGATATTCAAAACTTCACATTTTATAAGTCCTTTGGGA-CATCAGTAAGTCATTCGAGCAT
131 AATGCGAT-TTCAAAATTTCACAATTTATAAGTCC-TTCGGACCATCAGTAAGTCTTTCGAGCAT
* * *
1894754 GATGCTTAAATCCTTCGGATCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCCTTCGGGCGATC
194 GATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCATTC-GGCCATC
*
1894819 TATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAA
258 CATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAA
1894884 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
323 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
* *
1894949 ATC-TGTAAGTCTTTCGAGCAAGATGGTTAAATCCTTCGGGT
388 ATCAT-TAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
* * *
1894990 CATCTATAAGCCTTTTGATCAAGATGATAAGTCTTTCAGGCCATCCATAAGACCTTCGGGTAGGA
1 CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
1895055 TGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
66 TGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
* * *
1895120 AATGCAACTTTCAAATTTTCACAATTTATAAGTCCTTCAGACCATCAGTAAGTCTTTCGAGCATG
131 AATGCGA-TTTCAAAATTTCACAATTTATAAGTCCTTCGGACCATCAGTAAGTCTTTCGAGCATG
* * * * *
1895185 ATGCTTAAATCCTTCGGGTCATCTATAAGCCTTTTGAGCAAGATGATAAGTCGTTCAGGCTATCC
195 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCATTC-GGCCATCC
**
1895250 ATAAAACCTTCGGGTATAATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTT-AGAAA
259 ATAAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAG-AA
1895314 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
323 GATGAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCC
* *
1895379 ATCATTAAGTCTTTTGAGCATGATGATTAAATCATTCGGGT
388 ATCATTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
1895420 AATTTGTAAG
Statistics
Matches: 794, Mismatches: 55, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
427 89 0.11
428 3 0.00
429 7 0.01
430 687 0.87
431 8 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (428 bp):
CATCTATAAGCCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
TGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
AATGCGATTTCAAAATTTCACAATTTATAAGTCCTTCGGACCATCAGTAAGTCTTTCGAGCATGA
TGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCATTCGGCCATCCAT
AAAACCTTCGGGTAGGATGTTTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGAT
GAAATTTTTGAAAACTAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATC
ATTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
Found at i:1896007 original size:2 final size:2
Alignment explanation
Indices: 1896000--1896036 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1895990 ATGTAATTAT
1896000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1896037 GCGGATAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1899697 original size:16 final size:16
Alignment explanation
Indices: 1899673--1899703 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1899663 TTAAGATACA
*
1899673 TAAATAAATAAAAATT
1 TAAAAAAATAAAAATT
1899689 TAAAAAAATAAAAAT
1 TAAAAAAATAAAAAT
1899704 AAAATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAATAAAAATT
Found at i:1899699 original size:20 final size:22
Alignment explanation
Indices: 1899674--1899714 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1899664 TAAGATACAT
*
1899674 AAATAAATA-AAAATT-TAAAA
1 AAATAAAAATAAAATTATAAAA
1899694 AAATAAAAATAAAATTATAAA
1 AAATAAAAATAAAATTATAAA
1899715 TCAATTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAAAATAAAATTATAAAA
Found at i:1900983 original size:15 final size:15
Alignment explanation
Indices: 1900963--1900996 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1900953 CCGTAGGACC
*
1900963 ACTACATCCTGAAGG
1 ACTACATCCCGAAGG
1900978 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
1900993 ACTA
1 ACTA
1900997 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:1901145 original size:23 final size:26
Alignment explanation
Indices: 1901108--1901185 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 26
1901098 TTATCTTGTG
1901108 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
1901132 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* * *
1901157 ATCA--CATATCATATCACATATCAT
1 ATCATGTATCTCATATCACATGTCAT
*
1901181 GTCAT
1 ATCAT
1901186 ATGAACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 11 0.24
24 27 0.59
25 8 0.17
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:1901158 original size:12 final size:12
Alignment explanation
Indices: 1901141--1901180 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
1901131 TATCATGTTC
*
1901141 TCATATCACATG
1 TCATATCACATA
1901153 TCATATCACATA
1 TCATATCACATA
1901165 TCATATCACATA
1 TCATATCACATA
1901177 TCAT
1 TCAT
1901181 GTCATATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (12 bp):
TCATATCACATA
Found at i:1905960 original size:16 final size:16
Alignment explanation
Indices: 1905936--1905966 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1905926 TTAAGATACA
*
1905936 TAAATAAATAAAAATT
1 TAAAAAAATAAAAATT
1905952 TAAAAAAATAAAAAT
1 TAAAAAAATAAAAAT
1905967 AAAATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAATAAAAATT
Found at i:1905962 original size:20 final size:22
Alignment explanation
Indices: 1905937--1905977 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1905927 TAAGATACAT
*
1905937 AAATAAATA-AAAATT-TAAAA
1 AAATAAAAATAAAATTATAAAA
1905957 AAATAAAAATAAAATTATAAA
1 AAATAAAAATAAAATTATAAA
1905978 TCAATTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAAAATAAAATTATAAAA
Found at i:1907248 original size:15 final size:15
Alignment explanation
Indices: 1907228--1907261 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1907218 CCGTAGGACC
*
1907228 ACTACATCCTGAAGG
1 ACTACATCCCGAAGG
1907243 ACTACATCCCGAAGG
1 ACTACATCCCGAAGG
1907258 ACTA
1 ACTA
1907262 TTATACCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:1907410 original size:23 final size:26
Alignment explanation
Indices: 1907373--1907450 Score: 85
Period size: 24 Copynumber: 3.2 Consensus size: 26
1907363 TTATCTTGTG
1907373 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
1907397 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* * *
1907422 ATCA--CATATCATATCACATATCAT
1 ATCATGTATCTCATATCACATGTCAT
*
1907446 GTCAT
1 ATCAT
1907451 ATGAACATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
23 11 0.24
24 27 0.59
25 8 0.17
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:1907423 original size:12 final size:12
Alignment explanation
Indices: 1907406--1907445 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
1907396 TATCATGTTC
*
1907406 TCATATCACATG
1 TCATATCACATA
1907418 TCATATCACATA
1 TCATATCACATA
1907430 TCATATCACATA
1 TCATATCACATA
1907442 TCAT
1 TCAT
1907446 GTCATATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (12 bp):
TCATATCACATA
Found at i:1912765 original size:36 final size:36
Alignment explanation
Indices: 1912692--1912773 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
1912682 ATCAATTCAA
* * * *
1912692 ATAAAAAAACATTTCAGTGGTGCATTATCACTTCAT
1 ATAAAAAAACATTTCAGTAGTGCATTAACAATGCAT
1912728 ATTAGAAAAAA-A-TTCAGTAGTGCATTAACAATGCAT
1 A-TA-AAAAAACATTTCAGTAGTGCATTAACAATGCAT
1912764 ATAAAAAAAC
1 ATAAAAAAAC
1912774 GTGTATTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
34 6 0.15
35 2 0.05
36 22 0.56
37 3 0.08
38 6 0.15
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAAAAAAACATTTCAGTAGTGCATTAACAATGCAT
Found at i:1917714 original size:50 final size:51
Alignment explanation
Indices: 1917605--1917714 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 51
1917595 CTAAGTAGCG
* * *
1917605 TATAGCGC-GGATCAGAGGGCGCGCTATACCCACGTGGCGCCAGATCACCG
1 TATAGCGCGGGATCAGAGGGCGCACTATACCCACGTGGCGCCAAATCACCA
* * * *
1917655 TATATCGCGGGA-CAGGGGGTGCACTATACCCACGTGGCGCCAAATCAGCA
1 TATAGCGCGGGATCAGAGGGCGCACTATACCCACGTGGCGCCAAATCACCA
1917705 TATAGCGCGG
1 TATAGCGCGG
1917715 TACAAGGGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 48 0.94
51 3 0.06
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (51 bp):
TATAGCGCGGGATCAGAGGGCGCACTATACCCACGTGGCGCCAAATCACCA
Found at i:1918598 original size:2 final size:2
Alignment explanation
Indices: 1918591--1918630 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1918581 TTCGAATCTA
1918591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1918631 TGAGCTTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1921296 original size:12 final size:13
Alignment explanation
Indices: 1921281--1921310 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1921271 AATATTGTTT
1921281 ATAATTTT-AAAA
1 ATAATTTTAAAAA
1921293 ATAATTTTAAAAA
1 ATAATTTTAAAAA
1921306 ATAAT
1 ATAAT
1921311 GATGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:1926595 original size:51 final size:51
Alignment explanation
Indices: 1926516--1926613 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
1926506 ACCCTTTGCA
* * *
1926516 GTAAGGCGCACCCCCTGCAGTGCGCTTTACGCTGATATGGCGCCACGTGGT
1 GTAAGGCGCACCCCCTGAAGCGCACTTTACGCTGATATGGCGCCACGTGGT
* * * *
1926567 GTAAGGCGCGCCCCCTGAAGCGCACTTTAGGCTGATCTGGCGTCACG
1 GTAAGGCGCACCCCCTGAAGCGCACTTTACGCTGATATGGCGCCACG
1926614 CGGGTATAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (51 bp):
GTAAGGCGCACCCCCTGAAGCGCACTTTACGCTGATATGGCGCCACGTGGT
Found at i:1926837 original size:41 final size:41
Alignment explanation
Indices: 1926791--1926872 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1926781 ACTTTCATCA
1926791 CACCAAATCCTCTCAACTTCTCTAAAAAACTCTTATATTCT
1 CACCAAATCCTCTCAACTTCTCTAAAAAACTCTTATATTCT
1926832 CACCAAATCCTCTCAACTTCTCTAAAAAACTCTTATATTCT
1 CACCAAATCCTCTCAACTTCTCTAAAAAACTCTTATATTCT
1926873 ATTTTAACTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (41 bp):
CACCAAATCCTCTCAACTTCTCTAAAAAACTCTTATATTCT
Found at i:1926944 original size:24 final size:23
Alignment explanation
Indices: 1926893--1926954 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
1926883 TTTAAGGTAT
*
1926893 ATTTTATTATATTTAATATTTTA
1 ATTTTATTATATTTAATATTTGA
*
1926916 TTTTTAATT-TATTTAAGTATTTGA
1 ATTTT-ATTATATTTAA-TATTTGA
*
1926940 ATTTTTTTAATATTT
1 ATTTTATT-ATATTT
1926955 TATTTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 13 0.42
24 13 0.42
25 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTTGA
Found at i:1926948 original size:18 final size:17
Alignment explanation
Indices: 1926921--1926954 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1926911 TTTTATTTTT
1926921 AATTTATTTAAGTATTTG
1 AATTTATTTAA-TATTTG
*
1926939 AATTTTTTTAATATTT
1 AATTTATTTAATATTT
1926955 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
AATTTATTTAATATTTG
Found at i:1927728 original size:30 final size:30
Alignment explanation
Indices: 1927692--1927766 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
1927682 GTAAACACCA
*
1927692 TTTTTCAACACCAACAC-CTACCACCCCATT
1 TTTTTCAACACCAACACTC-ACCACCACATT
* *
1927722 TTTTTCAACACCAACACTCACCATCATATT
1 TTTTTCAACACCAACACTCACCACCACATT
1927752 TTTTTCAACACCAAC
1 TTTTTCAACACCAAC
1927767 CCCATCATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 40 0.98
31 1 0.02
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.31
Consensus pattern (30 bp):
TTTTTCAACACCAACACTCACCACCACATT
Found at i:1928411 original size:16 final size:16
Alignment explanation
Indices: 1928390--1928429 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
1928380 CTGTTAGGGA
1928390 CCATTTTCGTGATTTT
1 CCATTTTCGTGATTTT
1928406 CCATTTTCGTGATTTT
1 CCATTTTCGTGATTTT
1928422 CCATTTTC
1 CCATTTTC
1928430 TGTTTGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.10, T:0.55
Consensus pattern (16 bp):
CCATTTTCGTGATTTT
Found at i:1932726 original size:15 final size:16
Alignment explanation
Indices: 1932708--1932782 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 16
1932698 AGAAACAACA
*
1932708 AAAAAGGAAAAAAG-G
1 AAAAAGAAAAAAAGAG
1932723 AAAAAGAAAAAAAGAG
1 AAAAAGAAAAAAAGAG
1932739 -AAAAGAAAGAGAAA-AG
1 AAAAAGAAA-A-AAAGAG
1932755 -AAAAGAAAAGAAAAGAAG
1 AAAAAG-AAA-AAAAG-AG
1932773 AAAAAAGAAA
1 -AAAAAGAAA
1932783 TTGAATCAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
15 21 0.41
16 12 0.24
17 8 0.16
18 2 0.04
19 3 0.06
20 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAGAG
Found at i:1932745 original size:5 final size:5
Alignment explanation
Indices: 1932724--1932782 Score: 77
Period size: 5 Copynumber: 11.6 Consensus size: 5
1932714 GAAAAAAGGA
1932724 AAAAG AAAA- AAAGAG AAAAG AAAGAG AAAAG AAAAG AAAAG AAAAG AAGAA-
1 AAAAG AAAAG AAA-AG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG AA-AAG
1932775 AAAAG AAA
1 AAAAG AAA
1932783 TTGAATCAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
4 5 0.10
5 34 0.69
6 10 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1934932 original size:90 final size:90
Alignment explanation
Indices: 1934792--1935076 Score: 484
Period size: 90 Copynumber: 3.2 Consensus size: 90
1934782 TCAAAAGATT
* *
1934792 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCATTCGGGCCATCCATAATACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAGACCTT
*
1934857 CAGTACAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
*
1934882 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAGACCTT
1934947 CAGTGCAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
1934972 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCACCCATAAGACCCT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAGACCTT
*
1935037 C-GGGCAGGATGTTTTCAAATGAG-
66 CAGTGCAGGATGTTTTCAAATGAGA
*
1935060 TTTTAAAAACTAAGCCT
1 TTTTAGAAACTAAGCCT
1935077 GATTTTTAGG
Statistics
Matches: 186, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
88 16 0.09
89 21 0.11
90 149 0.80
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:1935272 original size:98 final size:102
Alignment explanation
Indices: 1935134--1935376 Score: 255
Period size: 102 Copynumber: 2.4 Consensus size: 102
1935124 TTTTTACTCA
* * * * * **
1935134 AAAC-AAGTTTTGTCTCTTTTGAGACGGTTTCTCTCAAAACAAAA-GCCTGAGTCTATTTCTTTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAATGCCTGAATATATTTCCCTT
* *
1935197 GAAATAAAGTTCATCT-TCCTTGAGACA-TTT-T-TTG
66 GAAACAAAGTTCATCTCT-CTTGAGACAGTTTCTCTTC
* ** *** *
1935231 AAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATTTTTGAATATGTTTCCCTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAATGCCTGAATATATTTCCCTT
* *
1935296 GAAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTC
66 GAAACAAAGTTCATCTCTCTTGAGACAGTTTCTCTTC
* *
1935333 AAACAAAGTTTTGTCTCTCTAGAGACAGTTTCCCTCGAAACAAA
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAA
1935377 TCTCACTTGA
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
97 3 0.03
98 35 0.30
99 33 0.28
100 4 0.03
101 1 0.01
102 42 0.36
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (102 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCCCTCAAAACAAAATGCCTGAATATATTTCCCTT
GAAACAAAGTTCATCTCTCTTGAGACAGTTTCTCTTC
Found at i:1935358 original size:37 final size:36
Alignment explanation
Indices: 1935287--1935377 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 36
1935277 TTTTGAATAT
* *
1935287 GTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA
1 GTTTCCCTTCAAACAAATTTCGTCTCTCTAGAGACA
* *
1935323 GTTTCTCTTCAAACAAAGTTTTGTCTCTCTAGAGACA
1 GTTTCCCTTCAAACAAA-TTTCGTCTCTCTAGAGACA
1935360 GTTTCCC-TCGAAACAAAT
1 GTTTCCCTTC-AAACAAAT
1935378 CTCACTTGAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 18 0.38
37 30 0.62
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (36 bp):
GTTTCCCTTCAAACAAATTTCGTCTCTCTAGAGACA
Found at i:1936042 original size:45 final size:45
Alignment explanation
Indices: 1935943--1936720 Score: 270
Period size: 44 Copynumber: 17.6 Consensus size: 45
1935933 TTCGCTCAAA
* * * * * *
1935943 TCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTT-GA-T
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAG-TTCGATT
* * * *
1935987 TCTATCACAGAATGAGGTAGATCAACATCGACATATAGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* **** * * **
1936032 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTC-AAA
1 TCCATCACAGAAGGAGGTGGATCAACATCGACA-TTTAGTTCGATT
* * * * * * * *
1936077 TCCATCGCAGAAGGAGTTGGATTAGCGTCAACTTTTAGCTCGA-T
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * * * *
1936121 TCTATTACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* **** * **
1936166 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCA-CTC-AAA
1 TCCATCACAGAAGGAGGTGGATCAACATCGACA-TTT-AGTTCGATT
* * * * *
1936211 TCCATCGCAGAAGGAGTTGGATCAACATCAACTTTTTGTTCG-TT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * * * *
1936255 TCTATCACAGAAGGAGGTAGATTAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
**** * * **
1936300 TCCATCACAGAAGGAGGTGGATCGAA-ATTTTTATTTTCGCTC-AAA
1 TCCATCACAGAAGGAGGTGGATC-AACATCGACA-TTTAGTTCGATT
* * * * * * * *
1936345 TCTATCGCAGAAGGAGTTGGATCAGCATCAACTTTTTGCTCG-TT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * * * * * * *
1936389 TCTATCACAAAAGGAGGTAGATCAACACCAATATTTCGCTCGA-T
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * * * * **
1936433 TCCATCACAGAAGGAGATGGATCGACATTG---TTTCGCTC-AAA
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* ** * *** * * *
1936474 TCCATCGCAGAAAAAGTTGGATCAGTGTCAACTTTTAGCTCGA-T
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* ** * * *
1936518 TCTATCACAGAAGGATATAGATCAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * ** * **
1936563 TCCATCACAGAAGGAGGTGGATCGACAT----TTTTTTTTCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTC-GATT
* * * * * * *
1936605 TCCATCACAGAATGAGTTGGATCAGCATCAACCTTTTGCTC-ATT
1 TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
* * ** *
1936649 TCTATCACAGAAGGAGGTAGATCGGCACCGACATCTT-GTTCGA-T
1 TCCATCACAGAAGGAGGTGGATCAACATCGACAT-TTAGTTCGATT
*
1936693 TCCATCACAGAAGGAGGTGGATCGACAT
1 TCCATCACAGAAGGAGGTGGATCAACAT
1936721 TTGTTCGCTC
Statistics
Matches: 521, Mismatches: 185, Indels: 56
0.68 0.24 0.07
Matches are distributed among these distances:
40 1 0.00
41 33 0.06
42 25 0.05
43 2 0.00
44 259 0.50
45 178 0.34
46 23 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (45 bp):
TCCATCACAGAAGGAGGTGGATCAACATCGACATTTAGTTCGATT
Found at i:1936109 original size:134 final size:134
Alignment explanation
Indices: 1935707--1937026 Score: 1630
Period size: 134 Copynumber: 10.0 Consensus size: 134
1935697 GAAATTGTTT
* * * * * *
1935707 AACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAGCACCGATATCTCGTTTGA-TTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* * ** *
1935771 CACAGAATGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCATAGAAGGAGTTAGATCAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
1935836 CGTC
131 CGTC
* * * * * * *
1935840 AACTTTTTG-TGCGATTCTATCACAGAAGGAGGTAGATCAGCACCAACATCTCATTCG-GTTCTA
1 AACTTTTAGCT-CGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCA
*
1935903 TCACAGTAA-GATGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
65 TCACAG-AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
1935966 AGCGTC
129 AGCGTC
* * * *
1935972 AACTTTTAGCTTGATTCTATCACAGAATGAGGTAGATCAACATCGACATATAGTTCGATTTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
*
1936037 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
1936102 CGTC
131 CGTC
* *
1936106 AACTTTTAGCTCGATTCTATTACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* *
1936171 CACAGAAGGAGGTGGATCGACATTTTTATTTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAA
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
1936236 CATC
131 CGTC
* * * * *
1936240 AACTTTTTGTTCGTTTCTATCACAGAAGGAGGTAGATTAACATCGACATATCGTTCGATTTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* *
1936305 CACAGAAGGAGGTGGATCGAAATTTTTATTTTCGCTCAAATCTATCGCAGAAGGAGTTGGATCAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
1936370 CATC
131 CGTC
* * * * * * *
1936374 AACTTTTTGCTCGTTTCTATCACAAAAGGAGGTAGATCAACACCAATATTTCGCTCGA-TTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* * **
1936438 CACAGAAGGAGATGGATCGACA---TT-GTTTCGCTCAAATCCATCGCAGAAAAAGTTGGATCAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
1936499 TGTC
131 CGTC
** *
1936503 AACTTTTAGCTCGATTCTATCACAGAAGGATATAGATCAACATCGACATATCGTTCGATTTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* *
1936568 CACAGAAGGAGGTGGATCGACATTTTT-TTTT--CTCAAATCCATCACAGAATGAGTTGGATCAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
*
1936630 CATC
131 CGTC
** * *
1936634 AACCTTTT-GCTC-ATTTCTATCACAGAAGGAGGTAGATCGGCACCGACATCTTGTTCGA-TTCC
1 AA-CTTTTAGCTCGA-TTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCC
*
1936696 ATCACAGAAGGAGGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
64 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
1936757 AGCATC
129 AGCGTC
* * ** * * * *
1936763 AACTTTTTGCTC-ATTTCTATGACAGAAGGAGGTAGATCAGTACCAACATTTCATTTGATTT-CA
1 AACTTTTAGCTCGA-TTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCA
* * ** * *
1936826 TCATAGAAAGAGGTGGATTAACA---TT-TGTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCA
65 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* *
1936887 ACTTC
130 GCGTC
* * * *
1936892 AACTTTTAGCTCGATTCTATCACAGAAAGAGGTAGATCAACATCGATATATCATTCGATTTCCAT
1 AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
* * * * **
1936957 CACAAAAAGAGGTGGAGCAACATTTTTATTTTTACTCAAATCCATCGCAGAAGGAGTTGGATCAG
66 CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
1937022 CGTC
131 CGTC
1937026 A
1 A
1937027 TCTTCATGCT
Statistics
Matches: 1043, Mismatches: 121, Indels: 45
0.86 0.10 0.04
Matches are distributed among these distances:
127 5 0.00
128 5 0.00
129 270 0.26
130 82 0.08
131 73 0.07
132 90 0.09
133 140 0.13
134 378 0.36
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (134 bp):
AACTTTTAGCTCGATTCTATCACAGAAGGAGGTAGATCAACACCGACATATCGTTCGATTTCCAT
CACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAG
CGTC
Found at i:1936311 original size:89 final size:89
Alignment explanation
Indices: 1935707--1936935 Score: 445
Period size: 89 Copynumber: 14.0 Consensus size: 89
1935697 GAAATTGTTT
* * * * * * * * * *
1935707 AACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAGCACCGATATCTCGTTTGA-TTCCAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
* * *
1935771 CACAGAATGAGGTGGATCGACATTTT
66 CACAGAAGGAGGTGGATCAACA--TC
* * * * * * * * * * * * * *
1935797 TA-TTTTTGCTCAAATCCATCATAGAAGGAGTTAGATCAGCGTCAACTTTTTG-TGCGA-TTCTA
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCT-CGATTTCCA
* * *
1935859 TCACAGAAGGAGGTAGATCAGCACC
65 TCACAGAAGGAGGTGGATCAACATC
* * ** * * * **** **
1935884 AACATCTCATTCGGTTCTATCACAGTAA-GATGTGGATCGACATTTTTATTTCGCTC-AAATCCA
1 AACTTTTCGCTCGATTCTATCACAG-AAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCA
* * * *
1935947 TCGCAGAAGGAGTTGGATCAGCGTC
65 TCACAGAAGGAGGTGGATCAACATC
* * * * * * *
1935972 AACTTTTAGCTTGATTCTATCACAGAATGAGGTAGATCAACATCGACATATAGTTCGATTTCCAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
* *
1936037 CACAGAAGGAGGTGGATCGACATTTT
66 CACAGAAGGAGGTGGATCAACA--TC
* * * * * * * * * * * * *
1936063 TA-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATTAGCGTCAACTTTTAGCTCGA-TTCTAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
* *
1936126 TACAGAAGGAGGTAGATCAACATC
66 CACAGAAGGAGGTGGATCAACATC
* * * * * * **** * **
1936150 GACATATCGTTCGATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCACTC-AAATCC
1 AACTTTTCGCTCGA-TTCTATCACAGAAGGAGGTGGATCAACATCGACA-TTTCGCTCGATTTCC
* *
1936214 ATCGCAGAAGGAGTTGGATCAACATC
64 ATCACAGAAGGAGGTGGATCAACATC
* * * * * * *
1936240 AACTTTTTGTTCGTTTCTATCACAGAAGGAGGTAGATTAACATCGACATATCGTTCGATTTCCAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
*
1936305 CACAGAAGGAGGTGGATCGAA-ATTTT
66 CACAGAAGGAGGTGGATC-AACA--TC
* * * * * * * * * *
1936331 TA-TTTTCGCTCAAATCTATCGCAGAAGGAGTTGGATCAGCATCAACTTTTTGCTCG-TTTCTAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
* * *
1936394 CACAAAAGGAGGTAGATCAACACC
66 CACAGAAGGAGGTGGATCAACATC
* * * * **
1936418 AA-TATTTCGCTCGATTCCATCACAGAAGGAGATGGATCGACATTG---TTTCGCTC-AAATCCA
1 AACT-TTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCA
* ** * ***
1936478 TCGCAGAAAAAGTTGGATCAGTGTC
65 TCACAGAAGGAGGTGGATCAACATC
* ** * * *
1936503 AACTTTTAGCTCGATTCTATCACAGAAGGATATAGATCAACATCGACATATCGTTCGATTTCCAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
*
1936568 CACAGAAGGAGGTGGATCGACAT-
66 CACAGAAGGAGGTGGATCAACATC
** ** * * * * * * * * * *
1936591 -TTTTTTTTCTCAAATCCATCACAGAATGAGTTGGATCAGCATCAACCTTTTGCTC-ATTTCTAT
1 AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
* ** *
1936654 CACAGAAGGAGGTAGATCGGCACC
66 CACAGAAGGAGGTGGATCAACATC
* * * * * * **
1936678 GACATCTT-GTTCGATTCCATCACAGAAGGAGGTGGATCGACAT----TTGTTCGCTC-AAATCC
1 AAC-TTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACAT-TTCGCTCGATTTCC
* * *
1936737 ATCGCAGAAGGAGTTGGATCAGCATC
64 ATCACAGAAGGAGGTGGATCAACATC
* * * ** * * ** *
1936763 AACTTTTTGCTC-ATTTCTATGACAGAAGGAGGTAGATCAGTACCAACATTTCATTTGATTT-CA
1 AACTTTTCGCTCGA-TTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCA
* * *
1936826 TCATAGAAAGAGGTGGATTAACAT-
65 TCACAGAAGGAGGTGGATCAACATC
* * * * * * * * * * *
1936850 ---TTGTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAACTTCAACTTTTAGCTCGA-TTCTA
1 AACTT-TTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCA
* *
1936911 TCACAGAAAGAGGTAGATCAACATC
65 TCACAGAAGGAGGTGGATCAACATC
1936936 GATATATCAT
Statistics
Matches: 804, Mismatches: 295, Indels: 84
0.68 0.25 0.07
Matches are distributed among these distances:
84 9 0.01
85 175 0.22
86 29 0.04
87 46 0.06
88 189 0.24
89 232 0.29
90 120 0.15
91 4 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (89 bp):
AACTTTTCGCTCGATTCTATCACAGAAGGAGGTGGATCAACATCGACATTTCGCTCGATTTCCAT
CACAGAAGGAGGTGGATCAACATC
Found at i:1937386 original size:30 final size:30
Alignment explanation
Indices: 1937352--1937422 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
1937342 ACACCATTTC
*
1937352 TCAACACCAACACTTACCACCCA-ATTTTTT
1 TCAACACCAACACTCACCA-CCATATTTTTT
*
1937382 TCAACACCAACACTCACCATCATATTTTTT
1 TCAACACCAACACTCACCACCATATTTTTT
1937412 TCAACACCAAC
1 TCAACACCAAC
1937423 CCCATCATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (30 bp):
TCAACACCAACACTCACCACCATATTTTTT
Found at i:1942269 original size:21 final size:20
Alignment explanation
Indices: 1942243--1942309 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
1942233 GAAGAAACAA
1942243 AAAAAAAAAAGAAAAAAAAGG
1 AAAAAAAAAAGAAAAAAAA-G
* *
1942264 AAAAAAAAGAGAAAAGAAAG
1 AAAAAAAAAAGAAAAAAAAG
* *
1942284 AGAAAAGAAAAG-AAAAGAAG
1 A-AAAAAAAAAGAAAAAAAAG
1942304 AAAAAA
1 AAAAAA
1942310 GAAATTGAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.11
20 9 0.24
21 25 0.66
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAAAAG
Found at i:1942292 original size:5 final size:5
Alignment explanation
Indices: 1942241--1942313 Score: 73
Period size: 5 Copynumber: 14.6 Consensus size: 5
1942231 CAGAAGAAAC
*
1942241 AAAA- AAAA- AAAAG AAAA- AAAAGG AAAAA AAAGAG AAAAG AAAGAG
1 AAAAG AAAAG AAAAG AAAAG AAAA-G AAAAG AAA-AG AAAAG AAA-AG
1942286 AAAAG AAAAG AAAAG AAGAA- AAAAG AAA
1 AAAAG AAAAG AAAAG AA-AAG AAAAG AAA
1942314 TTGAATCAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
4 14 0.23
5 31 0.52
6 15 0.25
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1942300 original size:10 final size:10
Alignment explanation
Indices: 1942241--1942313 Score: 73
Period size: 11 Copynumber: 7.3 Consensus size: 10
1942231 CAGAAGAAAC
1942241 AAAA-AAAA-
1 AAAAGAAAAG
1942249 AAAAGAAAA-
1 AAAAGAAAAG
*
1942258 AAAAGGAAAAA
1 AAAA-GAAAAG
1942269 AAAGAGAAAAG
1 AAA-AGAAAAG
1942280 AAAGAGAAAAG
1 AAA-AGAAAAG
1942291 AAAAGAAAAG
1 AAAAGAAAAG
1942301 AAGAA-AAAAG
1 AA-AAGAAAAG
1942311 AAA
1 AAA
1942314 TTGAATCAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
8 4 0.07
9 9 0.15
10 21 0.36
11 24 0.41
12 1 0.02
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:1944495 original size:90 final size:90
Alignment explanation
Indices: 1944342--1944606 Score: 390
Period size: 90 Copynumber: 3.0 Consensus size: 90
1944332 TTTAGAAACT
* * * *
1944342 AGGGTTTCTTGATTTATAAATCCTTCGGGCCATCCATAATACCTTCAGTACAGGATGTTTTCAAA
1 AGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAA
* *
1944407 TGAGATTTTAGAAACTAATCCTTTG
66 TGAGATTTTAGAAACTAAGCCTTCG
*
1944432 AGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAA
1 AGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAA
1944497 TGAGATTTTAGAAACTAAGCCTTCG
66 TGAGATTTTAGAAACTAAGCCTTCG
* * * * * *
1944522 GGGGTTTCTTGATTTGTAAGTCATTTGGGCCACCCATAAGACCCTCAG-GCAGGATATTTTCAAA
1 AGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAA
*
1944586 TGAG-TTTTAAAAACTAAGCCT
66 TGAGATTTTAGAAACTAAGCCT
1944607 GATTTTCAAG
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
88 16 0.10
89 18 0.11
90 126 0.79
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (90 bp):
AGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAA
TGAGATTTTAGAAACTAAGCCTTCG
Found at i:1944786 original size:98 final size:102
Alignment explanation
Indices: 1944670--1944908 Score: 285
Period size: 102 Copynumber: 2.4 Consensus size: 102
1944660 TACTCAAAAC
* * **
1944670 AAGTTTTGTCTCTT-TTGAGACAGTTTCTCTCAAAACAAAAGC-ATGAGTCA-GTTTCTTTTGAA
1 AAGTTTTGTCT-TTCTTGAGACAGTTTCCCTCAAAACAAAAGCTATGAAT-ATGTTTCCCTTGAA
*
1944732 ACGAAGTTCATCT-TCCTTGAGACA-TTT-T-TTGAAATA
64 ACAAAGTTCATCTCT-CTTGAGACAGTTTCTCTTGAAATA
** * *
1944768 AAGTTTTGTCTTTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAAC
1 AAGTTTTGTCTTTCTTGAGACAGTTTCCCTCAAAACAAAAGCTATGAATATGTTTCCCTTGAAAC
* *
1944833 AAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAATA
66 AAAGTTCATCTCTCTTGAGACAGTTTCTCTTGAAATA
* *
1944870 AAGTTTTGTCTCTCTAGAGACAGTTTCCCTCAAAACAAA
1 AAGTTTTGTCTTTCTTGAGACAGTTTCCCTCAAAACAAA
1944909 TCTCACTTGA
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
97 2 0.02
98 36 0.30
99 33 0.28
100 4 0.03
101 1 0.01
102 43 0.36
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (102 bp):
AAGTTTTGTCTTTCTTGAGACAGTTTCCCTCAAAACAAAAGCTATGAATATGTTTCCCTTGAAAC
AAAGTTCATCTCTCTTGAGACAGTTTCTCTTGAAATA
Found at i:1944890 original size:37 final size:36
Alignment explanation
Indices: 1944819--1944909 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 36
1944809 CTTTGAATAT
*
1944819 GTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTCGTCTCTCTAGAGACA
* * *
1944855 GTTTCTCTTGAAATAAAGTTTTGTCTCTCTAGAGACA
1 GTTTCCCTTGAAACAAA-TTTCGTCTCTCTAGAGACA
**
1944892 GTTTCCCTCAAAACAAAT
1 GTTTCCCTTGAAACAAAT
1944910 CTCACTTGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 16 0.35
37 30 0.65
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTCGTCTCTCTAGAGACA
Found at i:1945729 original size:266 final size:265
Alignment explanation
Indices: 1945237--1946555 Score: 1609
Period size: 266 Copynumber: 5.0 Consensus size: 265
1945227 AAGAAATTGT
1945237 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * *
1945302 TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCTATCGCAGAAAGAATTGGATCA
66 TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCA
* * * * *
1945367 ACGTCAACTTTTT-GTGCGATTCTATCACAGAAGGAGGTAGATTAGCTCCAATATCTCATTCGAT
131 ACGACAACTTTTTACT-CGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCGAT
* * *
1945431 TCTATCACAGTAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATCTAACGCAGAAGGAGTTGG
195 TCCATCACAG-AAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGG
1945495 ATCAGCG
259 ATCAGCG
* * *
1945502 TCAACTTTTAGCTTGATTCTATCATAGAAAGAGGTAGATCAACACTGATATCTCGTTCAATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * * *
1945567 TCACAGAAGGAGGTGGATCAATATTTTTTATTTTCGCTCAAATCCATTGCAGAAGGAGTTGGATC
66 TCACAGAAGGAGGTGGATCGACA-TTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATC
* * * * * *
1945632 AGCGACAACGTTCTACGCGATTCTATCACAGAAGGAGGTACATCAGCACCAACATCTCGTTCGAT
130 AACGACAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCGAT
* * *
1945697 TCCATCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTAGA
195 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
1945762 TCAACG
260 TCAGCG
* * * * ** *
1945768 TCAACTTTTAGCTTGATTCTATCATAGAAGGAGATAGATCAACATCGGCATATCGTTCGATTACC
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATT-CC
* * * * *
1945833 ATCACAGAAGGAGATGAATCAACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATC
* * * *
1945898 AAC-ATCAACTTTTTACTCGTTTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTCGCTCGA
130 AACGA-CAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCGA
* *
1945962 TTCCATCACAGAAGGAGGTGGATCGACA--TTT-TTTCGCTCAAATCCATCGCAAAAGAAGTTGG
194 TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGG
1946024 ATCAGCG
259 ATCAGCG
* * * * * *
1946031 TCAACTTTTAGCTCGATTCTATCACAGAATGAGATAGATCAACATCGACATATCGTTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGA-TTCC
* *
1946096 ATCACAGAAGGAGGTGGATCGACA---TT-TTTTCGCTCAAATCCATCACAGAATGAGTTGGATC
65 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATC
* * * * * * *
1946157 AAC-ATCAACCTTTTGCTC-ATTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTTGTTTG
130 AACGA-CAACTTTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCG
* *
1946220 ATTCCATCACAGAAGGAGGTGGATCAACA--TTT-GTTCGCTCAAATCCATCGCAGAAGGAGTTG
193 ATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTG
**
1946282 GATCAGTA
258 GATCAGCG
* * * * * * **
1946290 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAATATTTCGTTCGATTTTA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * * * *
1946355 TCATAGAAAGG-GGTGGATCGACA---TT-TGTTCGCTCAAATCCATCGTAAAAAAAGTTGGATC
66 TCACAG-AAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATC
* * * * * *
1946415 AACGTCAAC-TTTTAGCTCAATTCTATCACAGAAGGAGGTAGATCAACATCGATATATCGTTCGA
130 AACGACAACTTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCGA
* *
1946479 TTTCTATCACAGAAGGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTT
194 -TTCCATCACAGAAGGAGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTT
1946544 GGATCAGCG
257 GGATCAGCG
1946553 TCA
1 TCA
1946556 TCTTAATGCT
Statistics
Matches: 927, Mismatches: 111, Indels: 34
0.86 0.10 0.03
Matches are distributed among these distances:
257 4 0.00
258 100 0.11
259 231 0.25
260 2 0.00
261 3 0.00
263 151 0.16
264 5 0.01
265 85 0.09
266 323 0.35
267 23 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (265 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
TCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCA
ACGACAACTTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCACCAATATCTCGTTCGATT
CCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
CAGCG
Found at i:1945932 original size:44 final size:44
Alignment explanation
Indices: 1945482--1946508 Score: 362
Period size: 44 Copynumber: 23.5 Consensus size: 44
1945472 AAATCTAACG
* * * * * *
1945482 CAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * * * * * *
1945526 TAGAAAGAGGTAGATCAACA-CTGA-TATCTCGTTCAATTCCATCA
1 CAGAAGGAGGTGGATCAACATC-AACT-TTTTGCTCGATTCCATCA
* **** * * **
1945570 CAGAAGGAGGTGGATCAATATTTTTTATTTTCGCTCAAATCCATTG
1 CAGAAGGAGGTGGATCAACATCAACT-TTTT-GCTCGATTCCATCA
* * * * * * *
1945616 CAGAAGGAGTTGGATCAGCGA-CAACGTTCTACGCGATTCTATCA
1 CAGAAGGAGGTGGATCAAC-ATCAACTTTTTGCTCGATTCCATCA
** * * * * * *
1945660 CAGAAGGAGGTACATCAGCACCAACATCTCGTTCGATTCCATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * ** * * *
1945704 TAGAATGAGGTGGATCGACAT--TTTTATTTCGCTCAAATCCATCG
1 CAGAAGGAGGTGGATCAACATCAACTT-TTT-GCTCGATTCCATCA
* * * * * *
1945748 CAGAAGGAGTTAGATCAACGTCAACTTTTAGCTTGATTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * ** * * * *
1945792 TAGAAGGAGATAGATCAACATCGGCATATCGTTCGATTACCATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATT-CCATCA
* * ** * * *
1945837 CAGAAGGAGATGAATCAACATTTTTA-TTTTTGCTCAAATCCATCG
1 CAGAAGGAGGTGGATCAACA--TCAACTTTTTGCTCGATTCCATCA
* * * *
1945882 CAGAAGGAGTTGGATCAACATCAACTTTTTACTCGTTTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* ** * *
1945926 CAGAAGGAGGTAGATCAGTACCAA-TATTTCGCTCGATTCCATCA
1 CAGAAGGAGGTGGATCAACATCAACT-TTTTGCTCGATTCCATCA
* * * *
1945970 CAGAAGGAGGTGGATCGACAT----TTTTTCGCTCAAATCCATCG
1 CAGAAGGAGGTGGATCAACATCAACTTTTT-GCTCGATTCCATCA
* * * * * * *
1946011 CAAAAGAAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * * * * * *
1946055 CAGAATGAGATAGATCAACATCGACATATCGTTCGATTTCCATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGA-TTCCATCA
* * *
1946100 CAGAAGGAGGTGGATCGACAT----TTTTTCGCTCAAATCCATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTT-GCTCGATTCCATCA
* * * *
1946141 CAGAATGAGTTGGATCAACATCAACCTTTTGCTC-ATTTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGA-TTCCATCA
* * * * * * *
1946185 CAGAAGGAGGTAGATCAGCATCGACATCTTGTTTGATTCCATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * *
1946229 CAGAAGGAGGTGGATCAACAT----TTGTTCGCTCAAATCCATCG
1 CAGAAGGAGGTGGATCAACATCAACTT-TTTGCTCGATTCCATCA
* ** * *
1946270 CAGAAGGAGTTGGATCAGTATCAACTTTTTGCTCGTTTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * * **
1946314 CAGAAGGAGGTAGATCAACACCAA-TATTTCGTTCGATTTTATCA
1 CAGAAGGAGGTGGATCAACATCAACT-TTTTGCTCGATTCCATCA
* * * * * *
1946358 TAGAAAGG-GGTGGATCGACAT----TTGTTCGCTCAAATCCATCG
1 CAG-AAGGAGGTGGATCAACATCAACTT-TTTGCTCGATTCCATCA
* * ** * * * * *
1946399 TAAAAAAAGTTGGATCAACGTCAACTTTTAGCTCAATTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
* * * * * *
1946443 CAGAAGGAGGTAGATCAACATCGA-TATATCGTTCGATTTCTATCA
1 CAGAAGGAGGTGGATCAACATCAACT-TTTTGCTCGA-TTCCATCA
1946488 CAGAAGGAGGTGGATCAACAT
1 CAGAAGGAGGTGGATCAACAT
1946509 TTTTATTTTC
Statistics
Matches: 693, Mismatches: 246, Indels: 87
0.68 0.24 0.08
Matches are distributed among these distances:
40 7 0.01
41 106 0.15
42 5 0.01
43 10 0.01
44 405 0.58
45 123 0.18
46 35 0.05
47 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CAGAAGGAGGTGGATCAACATCAACTTTTTGCTCGATTCCATCA
Found at i:1946024 original size:129 final size:129
Alignment explanation
Indices: 1945237--1946555 Score: 1446
Period size: 129 Copynumber: 10.0 Consensus size: 129
1945227 AAGAAATTGT
* *
1945237 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
1 TCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * * *
1945302 TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCTATCGCAGAAAGAATTGGATCA
65 TCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
1945367 ACG
127 ACG
** * * * * * *
1945370 TCAACTTTTTGTGCGATTCTATCACAGAAGGAGGTAGATTAGCTCCAATATCTCATTCGATTCTA
1 TCAACTTTTACT-CGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* *
1945435 TCACAGTAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATCTAACGCAGAAGGAGTTGGATCA
65 TCACAG-AAGGAGGTGGATCGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
1945499 GCG
127 ACG
* * * * *
1945502 TCAACTTTTAGCTTGATTCTATCATAGAAAGAGGTAGATCAACACTGATATCTCGTTCAATTCCA
1 TCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * *
1945567 TCACAGAAGGAGGTGGATCAATATTTTTTATTTTCGCTCAAATCCATTGCAGAAGGAGTTGGATC
65 TCACAGAAGGAGGTGGATCGACA---TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
1945632 AGCG
126 AACG
* * * * * * *
1945636 ACAACGTTCTACGCGATTCTATCACAGAAGGAGGTACATCAGCACCAACATCTCGTTCGATTCCA
1 TCAAC-TTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * *
1945701 TCATAGAATGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTAGATCAA
65 TCACAGAAGGAGGTGGATCGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAA
1945766 CG
128 CG
* * * * ** *
1945768 TCAACTTTTAGCTTGATTCTATCATAGAAGGAGATAGATCAACATCGGCATATCGTTCGATTACC
1 TCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATT-CC
* * * *
1945833 ATCACAGAAGGAGATGAATCAACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATC
64 ATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
1945898 AACA
126 AACG
* ** * * *
1945902 TCAACTTTTTACTCGTTTCTATCACAGAAGGAGGTAGATCAGTACCAATATTTCGCTCGATTCCA
1 TCAAC-TTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * *
1945967 TCACAGAAGGAGGTGGATCGACA-TTTTTTCGCTCAAATCCATCGCAAAAGAAGTTGGATCAGCG
65 TCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAACG
* * * * *
1946031 TCAACTTTTAGCTCGATTCTATCACAGAATGAGATAGATCAACATCGACATATCGTTCGATTTCC
1 TCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGA-TTCC
* *
1946096 ATCACAGAAGGAGGTGGATCGACA-TTTTTTCGCTCAAATCCATCACAGAATGAGTTGGATCAAC
64 ATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAAC
*
1946160 A
129 G
* * * * * *
1946161 TCAACCTTTTGCTC-ATTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTTGTTTGATTCC
1 TCAA-CTTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCC
* * **
1946225 ATCACAGAAGGAGGTGGATCAACA-TTTGTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGT
64 ATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAAC
*
1946289 A
129 G
* * * * **
1946290 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAACACCAATATTTCGTTCGATTTTA
1 TCAAC-TTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCA
* * * * **
1946355 TCATAGAAAGG-GGTGGATCGACA-TTTGTTCGCTCAAATCCATCGTAAAAAAAGTTGGATCAAC
65 TCACAG-AAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAAC
1946418 G
129 G
* * * *
1946419 TCAACTTTTAGCTCAATTCTATCACAGAAGGAGGTAGATCAACATCGATATATCGTTCGATTTCT
1 TCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGA-TTCC
*
1946484 ATCACAGAAGGAGGTGGATCAACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
64 ATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
1946549 AGCG
126 AACG
1946553 TCA
1 TCA
1946556 TCTTAATGCT
Statistics
Matches: 1003, Mismatches: 154, Indels: 57
0.83 0.13 0.05
Matches are distributed among these distances:
128 10 0.01
129 297 0.30
130 134 0.13
131 13 0.01
132 191 0.19
133 120 0.12
134 227 0.23
135 11 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (129 bp):
TCAACTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAACACCGATATCTCGTTCGATTCCAT
CACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAACG
Found at i:1946260 original size:85 final size:85
Alignment explanation
Indices: 1945656--1946333 Score: 264
Period size: 85 Copynumber: 7.8 Consensus size: 85
1945646 ACGCGATTCT
* * * * * * * *
1945656 ATCACAGAAGGAGGTACATCAGCACCAACATCTCGTTCGATTCCATCATAGAATGAGGTGGATCG
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTTGCTCGATTCCATCACAGAAGGAGGTAGATCA
*
1945721 ACATTTTTATTTCGCTCAAATCC
66 ACA--TTT-GTTCGCTCAAATCC
* * * * * * * * *
1945744 ATCGCAGAAGGAGTTAGATCAACGTCAAC-TTTTAGCTTGATTCTATCATAGAAGGAGATAGATC
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTT-GCTCGATTCCATCACAGAAGGAGGTAGATC
** * * *
1945808 AACATCGGCATATCGTTCGATTACC
65 AACATTTG--T-TCGCTCAAAT-CC
* * **** * * * * * *
1945833 ATCACAGAAGGAGAT-GAATCAACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGAT
1 ATCACAGAAGGAGGTAG-ATCAGCATCAACA-TCTTGCTCGATTCCATCACAGAAGGAGGTAGAT
** *** *
1945897 CAACATCAACTT-TTTACTCGTTTCT
64 CAACAT----TTGTTCGCTCAAATCC
* * * *
1945922 ATCACAGAAGGAGGTAGATCAGTACCAATAT-TTCGCTCGATTCCATCACAGAAGGAGGTGGATC
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTT-GCTCGATTCCATCACAGAAGGAGGTAGATC
* *
1945986 GACATTTTTTCGCTCAAATCC
65 AACATTTGTTCGCTCAAATCC
* * * * * * * * * *
1946007 ATCGCAAAAGAAGTTGGATCAGCGTCAAC-TTTTAGCTCGATTCTATCACAGAATGAGATAGATC
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTT-GCTCGATTCCATCACAGAAGGAGGTAGATC
* * **
1946071 AACA-TCGACATATCGTTCGATTTCC
65 AACATTTG---T-TCGCTC-AAATCC
* ** * * * * * *
1946096 ATCACAGAAGGAGGTGGATC-G-A-C-ATTTTTTCGCTCAAATCCATCACAGAATGAGTTGGATC
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTT-GCTCGATTCCATCACAGAAGGAGGTAGATC
** *
1946157 AACATCAACCTT-TT-GCTCATTTCT
65 AACAT-----TTGTTCGCTCAAATCC
* * * *
1946181 ATCACAGAAGGAGGTAGATCAGCATCGACATCTTGTTTGATTCCATCACAGAAGGAGGTGGATCA
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTTGCTCGATTCCATCACAGAAGGAGGTAGATCA
1946246 ACATTTGTTCGCTCAAATCC
66 ACATTTGTTCGCTCAAATCC
* * * * * * * *
1946266 ATCGCAGAAGGAGTTGGATCAGTATCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCA
1 ATCACAGAAGGAGGTAGATCAGCATCAACATCTTGCTCGATTCCATCACAGAAGGAGGTAGATCA
1946331 ACA
66 ACA
1946334 CCAATATTTC
Statistics
Matches: 435, Mismatches: 121, Indels: 71
0.69 0.19 0.11
Matches are distributed among these distances:
83 2 0.00
84 6 0.01
85 146 0.34
86 39 0.09
87 8 0.02
88 126 0.29
89 68 0.16
90 34 0.08
91 5 0.01
92 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (85 bp):
ATCACAGAAGGAGGTAGATCAGCATCAACATCTTGCTCGATTCCATCACAGAAGGAGGTAGATCA
ACATTTGTTCGCTCAAATCC
Found at i:1946915 original size:30 final size:30
Alignment explanation
Indices: 1946881--1946951 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
1946871 ACACCATTTC
*
1946881 TCAACACCAACAC-CTACCACCCCATTGTTT
1 TCAACACCAACACTC-ACCACCACATTGTTT
* * *
1946911 TCAACACCAACACTCACCATCATATTTTTT
1 TCAACACCAACACTCACCACCACATTGTTT
1946941 TCAACACCAAC
1 TCAACACCAAC
1946952 CCCATCATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.39, G:0.01, T:0.25
Consensus pattern (30 bp):
TCAACACCAACACTCACCACCACATTGTTT
Found at i:1950899 original size:51 final size:51
Alignment explanation
Indices: 1950807--1950905 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
1950797 CGCTATATGC
* *
1950807 TGATTTGGCGCCACGTGGGTATAGCGTGCCCCCTGCCCCGCGATATACGGG
1 TGATCTGGCGCCACGTGGGTATAGCGTGCCCCCTGACCCGCGATATACGGG
* *
1950858 TGATCTGGCGCCACGTGGGTATAGCGCT-CCCCCTGATCCGCGCTATAC
1 TGATCTGGCGCCACGTGGGTATAGCG-TGCCCCCTGACCCGCGATATAC
1950906 CTGGATATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.14, C:0.33, G:0.30, T:0.22
Consensus pattern (51 bp):
TGATCTGGCGCCACGTGGGTATAGCGTGCCCCCTGACCCGCGATATACGGG
Found at i:1951070 original size:12 final size:10
Alignment explanation
Indices: 1951029--1951069 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1951019 TTTATCACAC
1951029 CAAATTCTCT
1 CAAATTCTCT
1951039 CAAATTCTCT
1 CAAATTCTCT
1951049 -AAATTTCTCT
1 CAAA-TTCTCT
*
1951059 CAAATACTCT
1 CAAATTCTCT
1951069 C
1 C
1951070 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1952238 original size:50 final size:50
Alignment explanation
Indices: 1952150--1952253 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 50
1952140 ATTGTTCGAA
* * * * * * *
1952150 CGCTATACCCACGTGGCGTCAGATCACCGTATATCGCGGGGCAGGAGGCG
1 CGCTATACCCACATGGCGCCAAATCACCATATAGCGCGGGGCAAGAGACG
* * *
1952200 CGCTATACCCACATGGTGCCAAATCAGCATATAGCGCGGTGCAAGAGACG
1 CGCTATACCCACATGGCGCCAAATCACCATATAGCGCGGGGCAAGAGACG
1952250 CGCT
1 CGCT
1952254 TTTCTGCTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (50 bp):
CGCTATACCCACATGGCGCCAAATCACCATATAGCGCGGGGCAAGAGACG
Found at i:1953574 original size:29 final size:30
Alignment explanation
Indices: 1953519--1953575 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1953509 CTACCGTTTC
*
1953519 ATTTTTTTCAACACCAACACCTATCATCAT
1 ATTTTTTTCAACACCAACACCCATCATCAT
*
1953549 ATTTTTTTCAACACCAAC-CCCGTCATC
1 ATTTTTTTCAACACCAACACCCATCATC
1953576 CCTTGTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.30, C:0.33, G:0.02, T:0.35
Consensus pattern (30 bp):
ATTTTTTTCAACACCAACACCCATCATCAT
Found at i:1954534 original size:12 final size:13
Alignment explanation
Indices: 1954519--1954548 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1954509 AATATTGTTT
1954519 ATAATTTT-AAAA
1 ATAATTTTAAAAA
1954531 ATAATTTTAAAAA
1 ATAATTTTAAAAA
1954544 ATAAT
1 ATAAT
1954549 GATGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:1954884 original size:30 final size:31
Alignment explanation
Indices: 1954850--1954931 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 31
1954840 TCTCATTTTT
*
1954850 TTTAGAGTTATTTTTCCTTTAACT-ATATGG
1 TTTAGAGTTATTTTTCCTTTAACTCATATCG
* * * *
1954880 TTTAGGGTT-TCTTTTACCTCT--CTCATTTCT
1 TTTAGAGTTAT-TTTT-CCTTTAACTCATATCG
1954910 TTTAGAGTTATTTTTCCTTTAA
1 TTTAGAGTTATTTTTCCTTTAA
1954932 TCAGATGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
29 7 0.18
30 27 0.69
31 5 0.13
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (31 bp):
TTTAGAGTTATTTTTCCTTTAACTCATATCG
Found at i:1960268 original size:18 final size:19
Alignment explanation
Indices: 1960247--1960287 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
1960237 ACGATAACAT
1960247 TTTAACGTT-TTAAT-ATAA
1 TTTAA-GTTATTAATAATAA
*
1960265 TTTAAGTTATTAGTAATAA
1 TTTAAGTTATTAATAATAA
1960284 TTTA
1 TTTA
1960288 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 9 0.45
19 8 0.40
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (19 bp):
TTTAAGTTATTAATAATAA
Found at i:1960932 original size:30 final size:30
Alignment explanation
Indices: 1960896--1960970 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
1960886 GTAAACACCA
* *
1960896 TTTTTCAACACCAACATCTACCGTTC-CATT
1 TTTTTCAACACCAACACCTACC-ATCACATT
* *
1960926 TTTTTCAATACCAACACCTACCATCATATT
1 TTTTTCAACACCAACACCTACCATCACATT
1960956 TTTTTCAACACCAAC
1 TTTTTCAACACCAAC
1960971 CCCGTCATCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.31, C:0.32, G:0.01, T:0.36
Consensus pattern (30 bp):
TTTTTCAACACCAACACCTACCATCACATT
Found at i:1961268 original size:2 final size:2
Alignment explanation
Indices: 1961261--1961306 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1961251 TTTGAATCTA
1961261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1961303 AT AT
1 AT AT
1961307 GAGCTTTGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1965943 original size:17 final size:17
Alignment explanation
Indices: 1965921--1966010 Score: 82
Period size: 17 Copynumber: 5.4 Consensus size: 17
1965911 CATCCATCAG
1965921 AAGAAACAAAA-AAAAAA
1 AAGAAA-AAAAGAAAAAA
1965938 AAGAAAAAAAGGAAAAAA
1 AAGAAAAAAA-GAAAAAA
*
1965956 AAG-AAAAAAGAAAGAGA
1 AAGAAAAAAAGAAA-AAA
* *
1965973 AAG-AGAAAAG-AAAAG
1 AAGAAAAAAAGAAAAAA
1965988 AAG-AAAAAAGAAGAAAA
1 AAGAAAAAAAGAA-AAAA
1966005 AAGAAA
1 AAGAAA
1966011 TTGAATCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.16
16 11 0.18
17 29 0.48
18 11 0.18
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAAAAAA
Found at i:1965946 original size:10 final size:10
Alignment explanation
Indices: 1965928--1966010 Score: 71
Period size: 10 Copynumber: 8.3 Consensus size: 10
1965918 CAGAAGAAAC
*
1965928 AAAAAAAAAA
1 AAAAAAAAAG
1965938 AAGAAAAAAAG
1 AA-AAAAAAAG
*
1965949 GAAAAAAAAG
1 AAAAAAAAAG
1965959 AAAAAAGAAAG
1 AAAAAA-AAAG
* *
1965970 --AGAAAGAG
1 AAAAAAAAAG
*
1965978 AAAAGAAAAG
1 AAAAAAAAAG
*
1965988 AAGAAAAAAG
1 AAAAAAAAAG
*
1965998 AAGAAAAAAG
1 AAAAAAAAAG
1966008 AAA
1 AAA
1966011 TTGAATCAAG
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 40 0.69
11 12 0.21
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1965986 original size:29 final size:27
Alignment explanation
Indices: 1965928--1966003 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 27
1965918 CAGAAGAAAC
1965928 AAAAAA-AAAAAAGAAA-A-AAAGGAA
1 AAAAAAGAAAAAAGAAAGAGAAAGGAA
1965952 AAAAAAGAAAAAAGAAAGAGAAAGAGAA
1 AAAAAAGAAAAAAGAAAGAGAAAG-GAA
*
1965980 AAGAAAAGAAGAAA-AAAGAAGAAA
1 AA-AAAAGAAAAAAGAAAG-AGAAA
1966004 AAAGAAATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
24 6 0.13
25 10 0.22
26 1 0.02
27 4 0.09
28 9 0.20
29 15 0.33
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (27 bp):
AAAAAAGAAAAAAGAAAGAGAAAGGAA
Found at i:1968139 original size:90 final size:90
Alignment explanation
Indices: 1968037--1968321 Score: 414
Period size: 90 Copynumber: 3.2 Consensus size: 90
1968027 TCAAAAGATT
* * * * *
1968037 TTTTAGAAACTAAGCCTTCAGGGGTTTCTTGATTTATAAATCATTCGGGACATCCATAATACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGACATCCATAAGACCAT
* * *
1968102 CAGTACAGGATATTTCCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
*
1968127 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTC-GGACCATCCATAAGACCA
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGA-CATCCATAAGACCA
1968191 TCAGTGCAGGATGTTTTCAAATGAGA
65 TCAGTGCAGGATGTTTTCAAATGAGA
* * *
1968217 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGCCACCCATAAGACCCT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGACATCCATAAGACCAT
*
1968282 C-GGGCAGGATGTTTTCAAATGAG-
66 CAGTGCAGGATGTTTTCAAATGAGA
*
1968305 TTTTAAAAACTAAGCCT
1 TTTTAGAAACTAAGCCT
1968322 GATTTTTAGG
Statistics
Matches: 178, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
88 16 0.09
89 24 0.13
90 136 0.76
91 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCATTCGGGACATCCATAAGACCAT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:1968536 original size:36 final size:36
Alignment explanation
Indices: 1968441--1968594 Score: 163
Period size: 37 Copynumber: 4.3 Consensus size: 36
1968431 TCTGTTTCTT
* * *
1968441 TTGAAACAAAGTTCATCT-TCCTTGAGACA-TTT--T
1 TTGAAACAAATTTCGTCTCT-CTTGAGACAGTTTCCC
* *
1968474 TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAA-TTTCGTCTCTCTTGAGACAGTTTCCC
*
1968511 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCC
* * *
1968547 TTGAAATAAAGTTTTGTCTCTCTAGAGACAGTTTCCC
1 TTGAAACAAA-TTTCGTCTCTCTTGAGACAGTTTCCC
*
1968584 TCGAAACAAAT
1 TTGAAACAAAT
1968595 CTCACTTGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
33 9 0.09
34 14 0.14
35 4 0.04
36 34 0.34
37 40 0.40
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCC
Found at i:1968575 original size:37 final size:37
Alignment explanation
Indices: 1968474--1968589 Score: 180
Period size: 37 Copynumber: 3.2 Consensus size: 37
1968464 GAGACATTTT
1968474 TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
1 TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
* * *
1968511 TTGAAACAAA-TTTCGTCTCTCTTGAGACAGTTTCTC
1 TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
*
1968547 TTGAAATAAAGTTTTGTCTCTCTAGAGACAGTTTCCC
1 TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
*
1968584 TCGAAA
1 TTGAAA
1968590 CAAATCTCAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
36 33 0.47
37 37 0.53
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (37 bp):
TTGAAATAAAGTTTTGTCTCTCTTGAGACAGTTTCCC
Found at i:1968575 original size:73 final size:70
Alignment explanation
Indices: 1968441--1968594 Score: 229
Period size: 73 Copynumber: 2.2 Consensus size: 70
1968431 TCTGTTTCTT
* *
1968441 TTGAAACAAAGTTCATCTTCCTTGAGACATTTTTTGAAATAAAGTTTTGTCTCTCTTGAGACAGT
1 TTGAAACAAATTTCATCTTCCTTGAGACATTTTTTGAAATAAAGTTTTGTCTCTCTAGAGACAGT
1968506 TTCCC
66 TTCCC
*
1968511 TTGAAACAAATTTCGTC-TCTCTTGAGACAGTTTCTCTTGAAATAAAGTTTTGTCTCTCTAGAGA
1 TTGAAACAAATTTCATCTTC-CTTGAGACA-TTT-T-TTGAAATAAAGTTTTGTCTCTCTAGAGA
1968575 CAGTTTCCC
62 CAGTTTCCC
*
1968584 TCGAAACAAAT
1 TTGAAACAAAT
1968595 CTCACTTGAG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
69 2 0.03
70 24 0.32
71 3 0.04
72 1 0.01
73 46 0.61
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (70 bp):
TTGAAACAAATTTCATCTTCCTTGAGACATTTTTTGAAATAAAGTTTTGTCTCTCTAGAGACAGT
TTCCC
Found at i:1969207 original size:44 final size:44
Alignment explanation
Indices: 1969159--1970143 Score: 417
Period size: 44 Copynumber: 22.5 Consensus size: 44
1969149 TTCGCTCAAA
* * * *
1969159 TCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * ** * *
1969203 TCCATCACAGAAGGAGGTAGATCAACATTTTTTA-TTTTCA-CTCAAA
1 TCCATCACAGAAGGAGGTGGATCAGCA---TCAACTTTT-AGCTCGAT
* * * *
1969249 TCCAT-AGCATAAGGAGTTGGATCAGCGAT-AACTTTTTGCGCGAT
1 TCCATCA-CAGAAGGAGGTGGATCAGC-ATCAACTTTTAGCTCGAT
* * * * * * *
1969293 TCTATCACAGAAGGAGCTAGATCAGCACCAACATCTCA-TTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAAC-TTTTAGCTCGAT
*** * * *
1969337 TCCATCACAGAAGGAGGTGGATC-GACAT-TTTTATTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAG-CATCAACT-TTTAGCTCGAT
* * * * *
1969381 TCCATCGCAGAAGGAGTTAGATCTGCGTCAACTTTTAGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
** * * * * * * *
1969425 TATATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGA-T
* * * ** * * *
1969470 TCCATCATAGAAGGAGATGGATCAACATTTTA-TTTTTGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAGCA-TCAACTTTTAGCTCGAT
* * * *
1969514 TCCATCGCAGAAGGAGTTGGACCAGCATCAACTTTTTA-CTCGTT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAAC-TTTTAGCTCGAT
* * * * * *
1969558 TCTATCACAGAATGAGGTAGATCAGCACCAACATTTCGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
** * * *
1969602 TCCATCACAGAAGGAGGTGGATC-G-A-CATTTTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * * *
1969643 TCAATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * * ** * * * * *
1969687 TCCATCACAGAAGGAGATAGATCAACATTGACATATCGTTTGATT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGA-T
* * ** * * *
1969732 TCCATCACAGAAAGACGTGGATC-G-A-CATTTTTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * *
1969773 TCCATCACAGAATGAGTTGGATCAGCGTCAACCTTTT-GCTC-ATT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAA-CTTTTAGCTCGA-T
* * * * * *
1969817 TCTATCACAGAAGGAGGTAGATCAGCATCGACATCTT-GTTTGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAAC-TTTTAGCTCGAT
* * * * *
1969861 TTCATCACAGAAGGAGGTGGATC-G-A-C-ATTTGTTCGCTCAAA
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTT-TTAGCTCGAT
* * ** *
1969902 TCCATCGCAAAAGGAATTGGATCAGCATCAACTTTTTGCTC-ATT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGA-T
* * * * * *
1969946 TCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * * * *
1969990 TTCATCACAGAAAGG-GGTGGATC-G-AT--ATTTGTTTGCTCAAA
1 TCCATCACAG-AAGGAGGTGGATCAGCATCAACTT-TTAGCTCGAT
* * * * * *
1970031 TCCATCGCAAAAGGAGTTGGATCAACGTCAACTTTTAGTTCGAT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
* * * * * * *
1970075 TCTATCACAGAAGGAGGTAGATCAACATCGA-TATATCGTTCGATT
1 TCCATCACAGAAGGAGGTGGATCAGCATCAACT-TTTAGCTCGA-T
1970120 TCCATCACAGAAGGAGGTGGATCA
1 TCCATCACAGAAGGAGGTGGATCA
1970144 ACATTTTTAT
Statistics
Matches: 674, Mismatches: 218, Indels: 97
0.68 0.22 0.10
Matches are distributed among these distances:
39 1 0.00
40 9 0.01
41 93 0.14
42 13 0.02
43 19 0.03
44 408 0.61
45 98 0.15
46 29 0.04
47 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCATCACAGAAGGAGGTGGATCAGCATCAACTTTTAGCTCGAT
Found at i:1969210 original size:132 final size:133
Alignment explanation
Indices: 1968921--1969226 Score: 411
Period size: 133 Copynumber: 2.3 Consensus size: 133
1968911 AAGAAATTAT
* ** * * *
1968921 TCAACGTTTAGCTTGATTCTATCTTAGAAAGAGGTAGATCAGCACCGATATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAGCACCAACATCTCATTCGATTCCA
* *
1968986 TCACAGAATGAGGTGGATCGATATTTTTATTTTCGGTCAAATCCATCGCAGAAAGAGTTGGATCA
66 TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCA
1969051 GCG
131 GCG
* * * * *
1969054 TCAACTTTTTG-TGCGATTCTATCACAGAATGAGGTAGATCATCACCAACATCTCATTCGATTCT
1 TCAACTTTTAGCT-TGATTCTATCACAGAAAGAGGTAGATCAGCACCAACATCTCATTCGATTCC
* * *
1969118 ATTATAGTAA-GAGGTGGATCGACATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
65 ATCACAG-AATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGAT
1969181 CAGCG
129 CAGCG
* *
1969186 TCAACTTTTAGCTTGATTCCATCACAGAAGGAGGTAGATCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCA
1969227 ACATTTTTTA
Statistics
Matches: 150, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
132 72 0.48
133 76 0.51
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (133 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAGCACCAACATCTCATTCGATTCCA
TCACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAAGAGTTGGATCA
GCG
Found at i:1969270 original size:90 final size:88
Alignment explanation
Indices: 1969128--1969316 Score: 254
Period size: 90 Copynumber: 2.1 Consensus size: 88
1969118 ATTATAGTAA
* * * *
1969128 GAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCG-TCAACT
1 GAGGTAGATCAACATTTTTATTTCACTCAAATCCATAGCAGAAGGAGTTGGATCAGCGAT-AACT
**
1969192 TTTAGCTTGATTCCATCACAGAAG
65 TTTAGCGCGATTCCATCACAGAAG
*
1969216 GAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCATAAGGAGTTGGATCAGCGATAAC
1 GAGGTAGATCAACA-TTTTTA-TTTCACTCAAATCCATAGCAGAAGGAGTTGGATCAGCGATAAC
* *
1969281 TTTTTGCGCGATTCTATCACAGAAG
64 TTTTAGCGCGATTCCATCACAGAAG
*
1969306 GAGCTAGATCA
1 GAGGTAGATCA
1969317 GCACCAACAT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
88 12 0.14
89 6 0.07
90 69 0.78
91 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (88 bp):
GAGGTAGATCAACATTTTTATTTCACTCAAATCCATAGCAGAAGGAGTTGGATCAGCGATAACTT
TTAGCGCGATTCCATCACAGAAG
Found at i:1969395 original size:222 final size:222
Alignment explanation
Indices: 1968977--1969452 Score: 724
Period size: 222 Copynumber: 2.1 Consensus size: 222
1968967 GATATCTCGT
* * * * ** *
1968977 TCGATTCCATCACAGAATGAGGTGGATCGATA-TTTTTATTTTCGGTCAAATCCATCGCAGAAAG
1 TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCAGAAAG
* * * *
1969041 AGTTGGATCAGCGTCAACTTTTTGTGCGATTCTATCACAGAATGAGGTAGATCATCACCAACATC
66 AGTTGGATCAGCGTCAACTTTTTGCGCGATTCTATCACAGAAGGAGCTAGATCAGCACCAACATC
* * *
1969106 TCATTCGATTCTATTATAGTAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAA
131 TCATTCGATTCCATCACAGTAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAA
*
1969171 GGAGTTGGATCAGCGTCAACTTTTAGC
196 GGAGTTAGATCAGCGTCAACTTTTAGC
* * *
1969198 TTGATTCCATCACAGAAGGAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCATAAGG
1 TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCAGAAAG
1969263 AGTTGGATCAGCGAT-AACTTTTTGCGCGATTCTATCACAGAAGGAGCTAGATCAGCACCAACAT
66 AGTTGGATCAGCG-TCAACTTTTTGCGCGATTCTATCACAGAAGGAGCTAGATCAGCACCAACAT
1969327 CTCATTCGATTCCATCACAG-AAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAG
130 CTCATTCGATTCCATCACAGTAA-GAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAG
*
1969391 AAGGAGTTAGATCTGCGTCAACTTTTAGC
194 AAGGAGTTAGATCAGCGTCAACTTTTAGC
**
1969420 TCGATTATATCACAGAAGGAGGTAGATCAACAT
1 TCGATTCCATCACAGAAGGAGGTAGATCAACAT
1969453 CGACATATCG
Statistics
Matches: 230, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
221 29 0.13
222 200 0.87
223 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (222 bp):
TCGATTCCATCACAGAAGGAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCAGAAAG
AGTTGGATCAGCGTCAACTTTTTGCGCGATTCTATCACAGAAGGAGCTAGATCAGCACCAACATC
TCATTCGATTCCATCACAGTAAGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAA
GGAGTTAGATCAGCGTCAACTTTTAGC
Found at i:1969678 original size:129 final size:129
Alignment explanation
Indices: 1969200--1970194 Score: 1160
Period size: 129 Copynumber: 7.6 Consensus size: 129
1969190 CTTTTAGCTT
* * * * *
1969200 GATTCCATCACAGAAGGAGGTAGATCAACATTTTTTATTTTCACTCAAATCCATAGCATAAGGAG
1 GATTCCATCACAGAAGGAGGTGGATCGACA---TTT-TTTTCGCTCAAATCCATCGCAGAAGGAG
* * * * * *
1969265 TTGGATCAGCGAT-AACTTTTTGCGCGATTCTATCACAGAAGGAGCTAGATCAGCACCAACATCT
62 TTGGATCAGCG-TCAAC-TTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATAT
*
1969329 CATTC
125 CGTTC
1969334 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTT
1 GATTCCATCACAGAAGGAGGTGGATCGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTT
* * * *
1969399 AGATCTGCGTCAACTTTTAGCTCGATTATATCACAGAAGGAGGTAGATCAACATCGACATATCGT
64 GGATCAGCGTCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGT
1969464 TC
128 TC
* * * *
1969466 GATTTCCATCATAGAAGGAGATGGATCAACATTTTATTTTTGCTCAAATCCATCGCAGAAGGAGT
1 GA-TTCCATCACAGAAGGAGGTGGATCGACA-TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGT
* * * * * * *
1969531 TGGACCAGCATCAACTTTTTACTCGTTTCTATCACAGAATGAGGTAGATCAGCACCAACATTTCG
63 TGGATCAGCGTCAAC-TTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCG
*
1969596 CTC
127 TTC
*
1969599 GATTCCATCACAGAAGGAGGTGGATCGACA-TTTTTTCGCTCAAATCAATCGCAGAAGGAGTTGG
1 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * * * *
1969663 ATCAGCGTCAACTTTTAGCTCGATTCCATCACAGAAGGAGATAGATCAACATTGACATATCGTTT
66 ATCAGCGTCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTC
* * * *
1969728 GATTTCCATCACAGAAAGACGTGGATCGACA-TTTTTTCGCTCAAATCCATCACAGAATGAGTTG
1 GA-TTCCATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * *
1969792 GATCAGCGTCAACCTTTTGCTC-ATTTCTATCACAGAAGGAGGTAGATCAGCATCGACATCTTGT
65 GATCAGCGTCAA-CTTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGT
*
1969856 TT
128 TC
* * * *
1969858 GATTTCATCACAGAAGGAGGTGGATCGACA-TTTGTTCGCTCAAATCCATCGCAAAAGGAATTGG
1 GATTCCATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
* * * * *
1969922 ATCAGCATCAACTTTTTGCTC-ATTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCGTT
66 ATCAGCGTCAAC-TTTTACTCGA-TTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTT
1969986 C
129 C
* * * *
1969987 GATTTCATCACAGAAAGG-GGTGGATCGATATTTGTTT-GCTCAAATCCATCGCAAAAGGAGTTG
1 GATTCCATCACAG-AAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTG
* * * *
1970050 GATCAACGTCAACTTTTAGTTCGATTCTATCACAGAAGGAGGTAGATCAACATCGATATATCGTT
65 GATCAGCGTCAACTTTTA-CTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTT
1970115 C
129 C
* *
1970116 GATTTCCATCACAGAAGGAGGTGGATCAACATTTTTATTTTCACTCAAATCCATCGCAGAAGGAG
1 GA-TTCCATCACAGAAGGAGGTGGATCGACA--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAG
1970181 TTGGATCAGCGTCA
62 TTGGATCAGCGTCA
1970195 TCTTCATGCT
Statistics
Matches: 744, Mismatches: 96, Indels: 42
0.84 0.11 0.05
Matches are distributed among these distances:
128 10 0.01
129 295 0.40
130 140 0.19
131 11 0.01
132 109 0.15
133 111 0.15
134 68 0.09
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (129 bp):
GATTCCATCACAGAAGGAGGTGGATCGACATTTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
ATCAGCGTCAACTTTTACTCGATTCTATCACAGAAGGAGGTAGATCAGCATCGACATATCGTTC
Found at i:1969969 original size:388 final size:392
Alignment explanation
Indices: 1969166--1970194 Score: 1340
Period size: 388 Copynumber: 2.6 Consensus size: 392
1969156 AAATCCATCG
* * ** * * * * *
1969166 CAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTTGATTCCATCACAGAAGGAGGTAGATCAACAT
1 CAGAAGGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGGAGGTGGATCGACA-
* * * * *
1969231 TTTTTATTTTCACTCAAATCCATAGCATAAGGAGTTGGATCAGCGAT-AACTTTTTGCGCGATTC
65 ---TT-TTTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCG-TCAACTTTTAGCTCGATTC
* * * * * *
1969295 TATCACAGAAGGAGCTAGATCAGCACCAACATCTCATTCGA-TTCCATCACAGAAGGAGGTGGAT
125 TATCACAGAAGGAGATAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTGGAT
* *
1969359 CGACATTTTTATTTCGCTCAAATCCATCGCAGAAGGAGTTAGATCTGCGTCAACTTTTAGCTCGA
190 CGACA-TTTT-TTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGA
*
1969424 TTATATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCATAGAAGGAGATG
253 TTATATCACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGATG
* * * *
1969489 GATCAACATTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGACCAGCATCAACTTTTTACT
318 GATCAACA-TTTATGTTCGCTCAAATCCATCGCAAAAGGAATTGGACCAGCATCAACTTTTTACT
*
1969554 CGTTTCTATCA
382 CATTTCTATCA
*
1969565 CAGAATGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGGAGGTGGATCGACAT
1 CAGAAGGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGGAGGTGGATCGACAT
* * *
1969630 TTTTTCGCTCAAATCAATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCCATCAC
66 TTTTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCAC
* * * *
1969695 AGAAGGAGATAGATCAACATTGACATATCGTTTGATTTCCATCACAGAAAGACGTGGATCGACA-
131 AGAAGGAGATAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTGGATCGACAT
* * *
1969759 TTTTTTCGCTCAAATCCATCACAGAATGAGTTGGATCAGCGTCAACCTTTT-GCTC-ATTTCTAT
196 TTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA-CTTTTAGCTCGA-TTATAT
* * * * * *
1969822 CACAGAAGGAGGTAGATCAGCATCGACATCTTGTTTGATTT-CATCACAGAAGGAGGTGGATCGA
259 CACAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGATGGATCAA
* *
1969886 CA-TT-TGTTCGCTCAAATCCATCGCAAAAGGAATTGGATCAGCATCAACTTTTTGCTCATTTCT
324 CATTTATGTTCGCTCAAATCCATCGCAAAAGGAATTGGACCAGCATCAACTTTTTACTCATTTCT
1969949 ATCA
389 ATCA
* * *
1969953 CAGAAGGAGGTAGATCAGCACCAACATTTCGTTCGATTTCATCACAGAAAGG-GGTGGATCGATA
1 CAGAAGGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAG-AAGGAGGTGGATCGACA
* *
1970017 TTTGTTT-GCTCAAATCCATCGCAAAAGGAGTTGGATCAACGTCAACTTTTAGTTCGATTCTATC
65 TTT-TTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATC
* * *
1970081 ACAGAAGGAGGTAGATCAACATCGATATATCGTTCGATTTCCATCACAGAAGGAGGTGGATCAAC
129 ACAGAAGGAGATAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTGGATCGAC
*
1970146 ATTTTTATTTTCACTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCA
194 A--TTT-TTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCA
1970195 TCTTCATGCT
Statistics
Matches: 555, Mismatches: 65, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
388 225 0.41
389 9 0.02
391 25 0.05
392 123 0.22
393 9 0.02
394 82 0.15
395 28 0.05
399 54 0.10
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (392 bp):
CAGAAGGAGGTAGATCAGCACCAACATTTCGCTCGATTCCATCACAGAAGGAGGTGGATCGACAT
TTTTTCGCTCAAATCCATCGCAAAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTCTATCAC
AGAAGGAGATAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGGTGGATCGACAT
TTTTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCGATTATATCA
CAGAAGGAGGTAGATCAACATCGACATATCGTTCGATTTCCATCACAGAAGGAGATGGATCAACA
TTTATGTTCGCTCAAATCCATCGCAAAAGGAATTGGACCAGCATCAACTTTTTACTCATTTCTAT
CA
Found at i:1970588 original size:29 final size:30
Alignment explanation
Indices: 1970520--1970589 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
1970510 ACACCATTTC
*
1970520 TCAACACCAACACCTACCACCCCATTGTTT
1 TCAACACCAACACCTACCACCACATTGTTT
* *
1970550 TCAACACCAACA-CTCACCATCATATT-TTT
1 TCAACACCAACACCT-ACCACCACATTGTTT
1970579 TCAACACCAAC
1 TCAACACCAAC
1970590 CCCATCATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.34, C:0.40, G:0.01, T:0.24
Consensus pattern (30 bp):
TCAACACCAACACCTACCACCACATTGTTT
Found at i:1974538 original size:51 final size:51
Alignment explanation
Indices: 1974430--1974527 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
1974420 CGCTATATGC
* ** * *
1974430 TGATTTGGCGCCACGTGGGTATAGCGTGCCCCCTGCCCCGCGATATACGGG
1 TGATCTGGCGCCACGTGGGTATAGCACGCCCCCTGACCCGCGATATACGGA
* *
1974481 TGATCTGGCGCCACGTGGGTATAGCACG-CCCCTGATCCGCGCTATAC
1 TGATCTGGCGCCACGTGGGTATAGCACGCCCCCTGACCCGCGATATAC
1974528 CTGGATATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 16 0.39
51 25 0.61
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (51 bp):
TGATCTGGCGCCACGTGGGTATAGCACGCCCCCTGACCCGCGATATACGGA
Found at i:1974690 original size:12 final size:10
Alignment explanation
Indices: 1974649--1974689 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1974639 TTTATCACAC
1974649 CAAATTCTCT
1 CAAATTCTCT
1974659 CAAATTCTCT
1 CAAATTCTCT
1974669 -AAATTTCTCT
1 CAAA-TTCTCT
*
1974679 CAAATACTCT
1 CAAATTCTCT
1974689 C
1 C
1974690 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1978018 original size:29 final size:30
Alignment explanation
Indices: 1977963--1978019 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1977953 CTACCGCTTC
* *
1977963 ATTTTTTTTAACACCAACACCTATCATCAT
1 ATTTTTTTCAACACCAACACCCATCATCAT
*
1977993 ATTTTTTTCAACACCAAC-CCCGTCATC
1 ATTTTTTTCAACACCAACACCCATCATC
1978020 CCTTGTTCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.30, C:0.32, G:0.02, T:0.37
Consensus pattern (30 bp):
ATTTTTTTCAACACCAACACCCATCATCAT
Found at i:1981101 original size:12 final size:13
Alignment explanation
Indices: 1981086--1981115 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1981076 AATATTGTTT
1981086 ATAATTTT-AAAA
1 ATAATTTTAAAAA
1981098 ATAATTTTAAAAA
1 ATAATTTTAAAAA
1981111 ATAAT
1 ATAAT
1981116 GATGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATTTTAAAAA
Found at i:1981451 original size:30 final size:31
Alignment explanation
Indices: 1981417--1981498 Score: 73
Period size: 30 Copynumber: 2.7 Consensus size: 31
1981407 TCCCATTTCT
*
1981417 TTTAGAGTTATTTTTCCTTTAAC-CATATGG
1 TTTAGAGTTATTTTTCCTTTAACTCATATCG
* * * *
1981447 TTTAGGGTT-TCTTTTACCTCT--CTCATTTCT
1 TTTAGAGTTAT-TTTT-CCTTTAACTCATATCG
1981477 TTTAGAGTTATTTTTCCTTTAA
1 TTTAGAGTTATTTTTCCTTTAA
1981499 TCAGATGGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
29 6 0.15
30 28 0.72
31 5 0.13
ACGTcount: A:0.18, C:0.16, G:0.11, T:0.55
Consensus pattern (31 bp):
TTTAGAGTTATTTTTCCTTTAACTCATATCG
Found at i:1985455 original size:49 final size:49
Alignment explanation
Indices: 1985402--1985511 Score: 125
Period size: 51 Copynumber: 2.2 Consensus size: 49
1985392 GCTACTTGTA
* *
1985402 CCGCGCCT-TATATAATTGTAT-AAGTTAAAGCTAAGGCGCGGCCCCTGCC
1 CCGCG-CTATATATAATTGTATGAA-ATAAAGCTAAGGCGCGGACCCTGCC
* *
1985451 CCGCGCTATATATAATTGTGTCGGAAATAAAGGTAAGGCGCGGACCCTGCC
1 CCGCGCTATATATAATTGTAT--GAAATAAAGCTAAGGCGCGGACCCTGCC
*
1985502 CCGCGTTATA
1 CCGCGCTATA
1985512 CCCACGTTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
48 2 0.04
49 17 0.33
51 31 0.60
52 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (49 bp):
CCGCGCTATATATAATTGTATGAAATAAAGCTAAGGCGCGGACCCTGCC
Found at i:1987972 original size:78 final size:78
Alignment explanation
Indices: 1987830--1987973 Score: 209
Period size: 78 Copynumber: 1.8 Consensus size: 78
1987820 TTATCATTAT
* * * * *
1987830 TAACAATTTATATTGACTTTTAAAGAGTAATCATATTAATTATCATAGTTTATTTTATTGTCAAA
1 TAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTATTTAAATGTCAAA
1987895 AAATTATAATAAC
66 AAATTATAATAAC
* *
1987908 TAACAATTTGTTTTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTATTATAAAT-TCAA
1 TAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTATT-TAAATGTCAA
1987972 AA
65 AA
1987974 TCTCACAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 55 0.95
79 3 0.05
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (78 bp):
TAACAATTTATATTAACTTTTAAAAAGAAATCATATTAATTATCATAGTTTATTTAAATGTCAAA
AAATTATAATAAC
Found at i:1995143 original size:17 final size:16
Alignment explanation
Indices: 1995101--1995153 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
1995091 TGCTACTTCT
1995101 TTTAAGCATG-AGTTCA
1 TTTAAGCATGTA-TTCA
*
1995117 -TTAAGAATGTATTCCA
1 TTTAAGCATGTATT-CA
1995133 TTTAAGCATGTATTTCA
1 TTTAAGCATGTA-TTCA
1995150 TTTA
1 TTTA
1995154 GGGAAGTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 10 0.32
16 3 0.10
17 16 0.52
18 2 0.06
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (16 bp):
TTTAAGCATGTATTCA
Found at i:1995236 original size:18 final size:18
Alignment explanation
Indices: 1995213--1995254 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1995203 ATGCATTTAG
1995213 TTCATTGAATAAAGTTAA
1 TTCATTGAATAAAGTTAA
* *
1995231 TTCATTGAATAATGTTAT
1 TTCATTGAATAAAGTTAA
1995249 TTCATT
1 TTCATT
1995255 AATCAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.48
Consensus pattern (18 bp):
TTCATTGAATAAAGTTAA
Found at i:2003865 original size:2 final size:2
Alignment explanation
Indices: 2003858--2003944 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
2003848 TCAATCTACA
2003858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2003900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2003942 AT A
1 AT A
2003945 CGAAATACAA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.