Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_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: 3453450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 16
Found at i:1735940 original size:14 final size:14
Alignment explanation
Indices: 1735829--1735961 Score: 133
Period size: 14 Copynumber: 9.4 Consensus size: 14
1735819 TTTTTCTTTA
*
1735829 TTTTTATCTTTTCT
1 TTTTTCTCTTTTCT
*
1735843 CTTTTCTCTTTTCT
1 TTTTTCTCTTTTCT
*
1735857 CTTTTCTCTTTTCT
1 TTTTTCTCTTTTCT
* *
1735871 ATTTTCTATTTTCT
1 TTTTTCTCTTTTCT
* *
1735885 ATTTTCTATTTTCT
1 TTTTTCTCTTTTCT
*
1735899 CTTTTCTCTTTTCT
1 TTTTTCTCTTTTCT
*
1735913 CTTTTCTCTTTTTTCT
1 -TTTT-TCTCTTTTCT
*
1735929 TTTTTTTCTTTTCT
1 TTTTTCTCTTTTCT
* *
1735943 TTTTTAT-TTTTCA
1 TTTTTCTCTTTTCT
1735956 TTTTTC
1 TTTTTC
1735962 ATTCTTCAGG
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
13 10 0.10
14 78 0.75
15 7 0.07
16 9 0.09
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCTCTTTTCT
Found at i:1735947 original size:21 final size:21
Alignment explanation
Indices: 1735835--1735945 Score: 134
Period size: 21 Copynumber: 5.3 Consensus size: 21
1735825 TTTATTTTTA
*
1735835 TCTTTTCTCTTTTCTCTTTTC
1 TCTTTTCTCTTTTCTTTTTTC
*
1735856 TCTTTTCTCTTTTCTATTTTC
1 TCTTTTCTCTTTTCTTTTTTC
* * *
1735877 TATTTTCTATTTTCTATTTTC
1 TCTTTTCTCTTTTCTTTTTTC
*
1735898 TCTTTTCTCTTTTCTCTTTTC
1 TCTTTTCTCTTTTCTTTTTTC
* *
1735919 TCTTTTTTCTTTT-TTTTCTTT
1 TCTTTTCTCTTTTCTTTT-TTC
1735940 TCTTTT
1 TCTTTT
1735946 TTATTTTTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
20 3 0.04
21 77 0.96
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTTTTCTCTTTTCTTTTTTC
Found at i:1738325 original size:116 final size:116
Alignment explanation
Indices: 1738121--1738352 Score: 464
Period size: 116 Copynumber: 2.0 Consensus size: 116
1738111 TAATACACAC
1738121 CATATTGAATTCTTGAAGATTGATAAGTAAAGAATTAATGGTTTGCATGATATTGGTGGCATTAA
1 CATATTGAATTCTTGAAGATTGATAAGTAAAGAATTAATGGTTTGCATGATATTGGTGGCATTAA
1738186 GACCGGAGCATTAGACAAATATCCCTTTATTGCTTCAAAAGCTCTTTGGCA
66 GACCGGAGCATTAGACAAATATCCCTTTATTGCTTCAAAAGCTCTTTGGCA
1738237 CATATTGAATTCTTGAAGATTGATAAGTAAAGAATTAATGGTTTGCATGATATTGGTGGCATTAA
1 CATATTGAATTCTTGAAGATTGATAAGTAAAGAATTAATGGTTTGCATGATATTGGTGGCATTAA
1738302 GACCGGAGCATTAGACAAATATCCCTTTATTGCTTCAAAAGCTCTTTGGCA
66 GACCGGAGCATTAGACAAATATCCCTTTATTGCTTCAAAAGCTCTTTGGCA
1738353 ATCATCGTTC
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (116 bp):
CATATTGAATTCTTGAAGATTGATAAGTAAAGAATTAATGGTTTGCATGATATTGGTGGCATTAA
GACCGGAGCATTAGACAAATATCCCTTTATTGCTTCAAAAGCTCTTTGGCA
Found at i:1738476 original size:74 final size:74
Alignment explanation
Indices: 1738355--1738569 Score: 331
Period size: 74 Copynumber: 3.0 Consensus size: 74
1738345 CTTTGGCAAT
1738355 CATCGTTCCATATCCCTGGGTTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTT
1 CATCGTTCCATATCCCTGGGTTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTT
1738420 AATTGTGAA
66 AATTGTGAA
1738429 CATCGTTCCATATCCCTGGGTTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTT
1 CATCGTTCCATATCCCTGGGTTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTT
1738494 AATTGTGAA
66 AATTGTGAA
* *
1738503 -A----T--A-A-ACCGGGCGATTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGG
1 CATCGTTCCATATCCCTGG-G-TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGG
1738559 TTAATTGTGAA
64 TTAATTGTGAA
1738570 ATAAACCGGG
Statistics
Matches: 137, Mismatches: 2, Indels: 11
0.91 0.01 0.07
Matches are distributed among these distances:
65 4 0.03
66 2 0.01
67 55 0.40
69 1 0.01
73 1 0.01
74 74 0.54
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (74 bp):
CATCGTTCCATATCCCTGGGTTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTT
AATTGTGAA
Found at i:1738557 original size:67 final size:67
Alignment explanation
Indices: 1738449--1738583 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
1738439 TATCCCTGGG
1738449 TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTTAATTGTGAAATAAACCGGGC
1 TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTTAATTGTGAAATAAACCGGGC
1738514 GA
66 GA
1738516 TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTTAATTGTGAAATAAACCGGGC
1 TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTTAATTGTGAAATAAACCGGGC
1738581 GA
66 GA
1738583 T
1 T
1738584 ATAGTTTAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (67 bp):
TTATTTTTGTTAAGAAGGCGAAAAATGGGATCACACTTCTTGGTTAATTGTGAAATAAACCGGGC
GA
Found at i:1746290 original size:16 final size:15
Alignment explanation
Indices: 1746265--1746335 Score: 61
Period size: 16 Copynumber: 4.6 Consensus size: 15
1746255 CATAAACCTC
1746265 ACCCACATGAAATAT
1 ACCCACATGAAATAT
*
1746280 ACCCAACATGATATAT
1 ACCC-ACATGAAATAT
* * *
1746296 ACCCTCATGCAATCT
1 ACCCACATGAAATAT
* *
1746311 ACCCAACATGATATTT
1 ACCC-ACATGAAATAT
*
1746327 ACCCTCATG
1 ACCCACATG
1746336 CTTTTATTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
15 19 0.43
16 25 0.57
ACGTcount: A:0.37, C:0.31, G:0.07, T:0.25
Consensus pattern (15 bp):
ACCCACATGAAATAT
Found at i:1746317 original size:31 final size:31
Alignment explanation
Indices: 1746265--1746336 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
1746255 CATAAACCTC
* *
1746265 ACCCACATGAAATATACCCAACATGATATAT
1 ACCCTCATGCAATATACCCAACATGATATAT
* *
1746296 ACCCTCATGCAATCTACCCAACATGATATTT
1 ACCCTCATGCAATATACCCAACATGATATAT
1746327 ACCCTCATGC
1 ACCCTCATGC
1746337 TTTTATTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.32, G:0.07, T:0.25
Consensus pattern (31 bp):
ACCCTCATGCAATATACCCAACATGATATAT
Found at i:1748444 original size:14 final size:15
Alignment explanation
Indices: 1748425--1748462 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1748415 TCAGTTGTTC
1748425 TATTTTTTT-TTTTG
1 TATTTTTTTGTTTTG
*
1748439 TATTTTTTTGTTTTT
1 TATTTTTTTGTTTTG
*
1748454 TGTTTTTTT
1 TATTTTTTT
1748463 CCTTTTCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.87
Consensus pattern (15 bp):
TATTTTTTTGTTTTG
Found at i:1748447 original size:17 final size:16
Alignment explanation
Indices: 1748427--1748462 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1748417 AGTTGTTCTA
1748427 TTTTT-TTTTTTGTATT
1 TTTTTGTTTTTTGT-TT
1748443 TTTTTGTTTTTTGTTT
1 TTTTTGTTTTTTGTTT
1748459 TTTT
1 TTTT
1748463 CCTTTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (16 bp):
TTTTTGTTTTTTGTTT
Found at i:1750846 original size:2 final size:2
Alignment explanation
Indices: 1750835--1750873 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
1750825 TAGAGTCAAA
1750835 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1750874 CACGTACCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1759207 original size:112 final size:112
Alignment explanation
Indices: 1759042--1759261 Score: 440
Period size: 112 Copynumber: 2.0 Consensus size: 112
1759032 TAAATATTTA
1759042 TTTTTTGTTTTCAACATCCTAAGTCTGAATCCGAAGTTCATTTTGCCAAATTTGAACCCAAAATC
1 TTTTTTGTTTTCAACATCCTAAGTCTGAATCCGAAGTTCATTTTGCCAAATTTGAACCCAAAATC
1759107 TTTCTAATTGACTATTAAACCTAAATGTGCATATGTAATTTAATATT
66 TTTCTAATTGACTATTAAACCTAAATGTGCATATGTAATTTAATATT
1759154 TTTTTTGTTTTCAACATCCTAAGTCTGAATCCGAAGTTCATTTTGCCAAATTTGAACCCAAAATC
1 TTTTTTGTTTTCAACATCCTAAGTCTGAATCCGAAGTTCATTTTGCCAAATTTGAACCCAAAATC
1759219 TTTCTAATTGACTATTAAACCTAAATGTGCATATGTAATTTAA
66 TTTCTAATTGACTATTAAACCTAAATGTGCATATGTAATTTAA
1759262 GTAAATTATT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (112 bp):
TTTTTTGTTTTCAACATCCTAAGTCTGAATCCGAAGTTCATTTTGCCAAATTTGAACCCAAAATC
TTTCTAATTGACTATTAAACCTAAATGTGCATATGTAATTTAATATT
Found at i:1762745 original size:20 final size:20
Alignment explanation
Indices: 1762720--1762758 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1762710 GTTTCAGCCA
*
1762720 AGGGGTATTGATACCCATGC
1 AGGGGTATCGATACCCATGC
1762740 AGGGGTATCGATACCCATG
1 AGGGGTATCGATACCCATG
1762759 GTATAGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (20 bp):
AGGGGTATCGATACCCATGC
Found at i:1762767 original size:15 final size:15
Alignment explanation
Indices: 1762743--1762772 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1762733 CCCATGCAGG
*
1762743 GGTATCGATACCCAT
1 GGTATAGATACCCAT
1762758 GGTATAGATACCCAT
1 GGTATAGATACCCAT
1762773 AGGTGATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (15 bp):
GGTATAGATACCCAT
Found at i:1763948 original size:23 final size:22
Alignment explanation
Indices: 1763897--1764006 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 22
1763887 TTGAGCTTTT
*
1763897 ATAGGGGTATTGATA-CCAGTC
1 ATAGGGGTATTGATACCCATTC
* *
1763918 ATAGGGGTATCGATACCCATTT
1 ATAGGGGTATTGATACCCATTC
*
1763940 ATAAGGGGTATTGATACCTATTC
1 AT-AGGGGTATTGATACCCATTC
1763963 ATAAGGGGTATTGATACCCATTC
1 AT-AGGGGTATTGATACCCATTC
* * *
1763986 ACAGGGTTATCGATACCCATT
1 ATAGGGGTATTGATACCCATT
1764007 TACATTTTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
21 14 0.18
22 23 0.30
23 40 0.52
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (22 bp):
ATAGGGGTATTGATACCCATTC
Found at i:1764243 original size:21 final size:19
Alignment explanation
Indices: 1764214--1764270 Score: 89
Period size: 18 Copynumber: 2.9 Consensus size: 19
1764204 ATGTTTAATG
1764214 AAAAAGATACCAATTGTTT
1 AAAAAGATACCAATTGTTT
1764233 ACAAAAGGATACCAATTG-TT
1 A-AAAA-GATACCAATTGTTT
1764253 AAAAAGATACCAATTGTT
1 AAAAAGATACCAATTGTT
1764271 GGAAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 11 0.31
19 6 0.17
20 7 0.20
21 11 0.31
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTT
Found at i:1767401 original size:22 final size:22
Alignment explanation
Indices: 1767376--1767418 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1767366 GTTTGAGCTT
* *
1767376 TCATATGGGTATTGATACCCAA
1 TCATAGGGGTATCGATACCCAA
1767398 TCATAGGGGTATCGATACCCA
1 TCATAGGGGTATCGATACCCA
1767419 GGGTATGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (22 bp):
TCATAGGGGTATCGATACCCAA
Found at i:1767461 original size:23 final size:23
Alignment explanation
Indices: 1767435--1767521 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
1767425 GGATACCTAT
* * *
1767435 AGGGGTATCGGTACCAATTTATA
1 AGGGGTATCGATACCCATTCATA
* *
1767458 AGGGGCATTGATACCCATTCATA
1 AGGGGTATCGATACCCATTCATA
*
1767481 AGGGGTATTGATACCCATTCAT-
1 AGGGGTATCGATACCCATTCATA
* *
1767503 AGGTGTATCGGTACCCATT
1 AGGGGTATCGATACCCATT
1767522 TGTTTTTTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
22 16 0.29
23 39 0.71
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (23 bp):
AGGGGTATCGATACCCATTCATA
Found at i:1769242 original size:81 final size:81
Alignment explanation
Indices: 1769107--1769599 Score: 653
Period size: 81 Copynumber: 6.1 Consensus size: 81
1769097 AAGCATTTAG
* * * * * *
1769107 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACATATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
1769172 ACAACTAGGCATTTAA
66 ACAGCTAGGCAATTAA
* * * * * *
1769188 TCTTTAACTCAAAGGCATTTAGCCTTTCACCTAACTGGCATGATTGGCACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
1769253 ACAACTTGGCAATTAA
66 ACAGCTAGGCAATTAA
* * * * *
1769269 TCTTTTACTCAAAGGCTTTTAACATTTCATCTAACTAGCATAATTGAAACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
1769334 ACATCTAGGCAATTAA
66 ACAGCTAGGCAATTAA
* * *
1769350 TCTTTTACTCAAAGGAATTTAACCTTTAATCTAACTGGCATAATTGACACATTTCTTTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
1769415 ATAGCCAGGCAATTAA
66 ACAGCTAGGCAATTAA
* *
1769431 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGTATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
1769496 ACAGCTAGGCAATTAG
66 ACAGCTAGGCAATTAA
* * * * * *
1769512 TCGTTTACTCAAAGGCATTTAAACTTTCATCTAACTGGTATAATTCACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
*
1769577 ACAGCTAGGCAATTAT
66 ACAGCTAGGCAATTAA
1769593 TCTTTTA
1 TCTTTTA
1769600 TTTAAAACAG
Statistics
Matches: 364, Mismatches: 48, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 364 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCAATTAA
Found at i:1772920 original size:81 final size:81
Alignment explanation
Indices: 1772680--1773108 Score: 558
Period size: 81 Copynumber: 5.3 Consensus size: 81
1772670 AGCATTTACC
* * ** * * *
1772680 CTTTTACCCAAAGGTATTTAGTCTTTCATCTAAC-ATGCATGATTGACACCTTTCTGCCAAATGC
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTA-GCATAATTGACACATTTCTGTCAAATGC
* *
1772744 ATAGCTAGGCATTTAAT
65 ACAGCTAGGCAATTAAT
* * * *
1772761 CTTTAACTCAAAGGCATTTAGCCTTTCATCTAACT-GCATGATTGACACATTTATGTCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCA
1772825 CAGCTAGGCAATTAAT
66 CAGCTAGGCAATTAAT
* * *
1772841 CTTTTACTCAAAGACATTTAACCTTTCATTTAACTAGCATAATTGACACATTTCTATCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCA
1772906 CAGCTAGGCAATTAAT
66 CAGCTAGGCAATTAAT
* * * *
1772922 CTTTTACTCAAAGGCATTTAACATTTCCTCTAATTGGCATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCA
*
1772987 CCGCTAGGCAATTAAT
66 CAGCTAGGCAATTAAT
* * *
1773003 CTTTTATTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCA
1 CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCA
* ** * *
1773068 TAGCTA-AAAAGTAAG
66 CAGCTAGGCAATTAAT
*
1773083 CATTTACTCAAAGGCATTTAACCTTT
1 CTTTTACTCAAAGGCATTTAACCTTT
1773109 TTGTCACATG
Statistics
Matches: 309, Mismatches: 37, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
80 100 0.32
81 209 0.68
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (81 bp):
CTTTTACTCAAAGGCATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCA
CAGCTAGGCAATTAAT
Found at i:1773028 original size:162 final size:161
Alignment explanation
Indices: 1772648--1773104 Score: 576
Period size: 161 Copynumber: 2.8 Consensus size: 161
1772638 AATGACATAG
* * * * ** * * **
1772648 TTTATGTCAAAAGGCACTGCTAAGCATTTACCCTTTTACCCAAAGGTATTTAGTCTTTCATCTAA
1 TTTATGTC-AAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAA
* * * *
1772713 C-ATGCATGATTGACACCTTTCTGCCAAATGCATAGCTAGGCATTTAATCTTTAACTCAAAGGCA
65 CTA-GCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCAATTAATCTTTTACTCAAAGGCA
* * *
1772777 TTTAGCCTTTCATCTAACTGCATGATTGACACA
129 TTTAACATTTCATCTAACTGCATAATTGACACA
* *
1772810 TTTATGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGACATTTAACCTTTCATTTAAC
1 TTTATGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC
* * *
1772875 TAGCATAATTGACACATTTCTATCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATT
66 TAGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCAATTAATCTTTTACTCAAAGGCATT
* *
1772940 TAACATTTCCTCTAATTGGCATAATTGACACA
131 TAACATTTCATCTAACT-GCATAATTGACACA
* * *
1772972 TTTCTGTCAAATGCACCGCTAGGCAATTAATCTTTTATTCAAAGGCATTTAACCTTTCATCTAAC
1 TTTATGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC
* ** * * *
1773037 TGGCATAATTGACACCTTTCTGTCAAATGCATAGCTA-AAAAGTAAGCATTTACTCAAAGGCATT
66 TAGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCAATTAATCTTTTACTCAAAGGCATT
1773101 TAAC
131 TAAC
1773105 CTTTTTGTCA
Statistics
Matches: 255, Mismatches: 38, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
161 140 0.55
162 115 0.45
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (161 bp):
TTTATGTCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAAC
TAGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCAATTAATCTTTTACTCAAAGGCATT
TAACATTTCATCTAACTGCATAATTGACACA
Found at i:1777684 original size:27 final size:28
Alignment explanation
Indices: 1777631--1777684 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
1777621 CCAAGGCTTG
*
1777631 GGGTATTTTAGGTTATTTCACACTTCAA
1 GGGTATTTTAGGTCATTTCACACTTCAA
* *
1777659 GGGTATTTT-GGTCATTTTACAGTTCA
1 GGGTATTTTAGGTCATTTCACACTTCA
1777685 GTCCTTTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (28 bp):
GGGTATTTTAGGTCATTTCACACTTCAA
Found at i:1777731 original size:18 final size:18
Alignment explanation
Indices: 1777705--1777739 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1777695 TCCGTCCATT
1777705 CTTTCCATTTAATTCAAA
1 CTTTCCATTTAATTCAAA
* *
1777723 CTTTTCATTTATTTCAA
1 CTTTCCATTTAATTCAA
1777740 TCATTTCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (18 bp):
CTTTCCATTTAATTCAAA
Found at i:1786671 original size:77 final size:76
Alignment explanation
Indices: 1786537--1786761 Score: 222
Period size: 77 Copynumber: 2.9 Consensus size: 76
1786527 TTTTACATAC
* * *
1786537 TATATTATATATATTTTAAAAATATATATATATATATTCTAACAAAACTATATACTATATATATT
1 TATATTATATATATTATAAAAATATATATATATATATTATAACAAAAC-ATAAACTATATATATT
**
1786602 TTCTAAAAGTTA
65 TTCTAAAAACTA
* * *
1786614 TATATATATATATATATATATATATATATATATATATATATATATCAAAA-A-AAACTATATATA
1 TATAT-TATATATAT-TATAAAAATATATATATATATAT-TATAACAAAACATAAACTATATATA
1786677 TTTTCTAAAAACTA
63 TTTTCTAAAAACTA
* * * * *
1786691 TATATTTATATATTTTTCTAAAAACTATATATTATATATATTTTCTA-AAAACTATATACTATAT
1 TATA-TTATATA-TATTATAAAAA-TATATA-TATATATATTAT-AACAAAAC-ATAAACTATAT
1786755 ATATTTT
60 ATATTTT
1786762 ATTATATATT
Statistics
Matches: 121, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
77 43 0.36
78 25 0.21
79 29 0.24
80 9 0.07
81 15 0.12
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (76 bp):
TATATTATATATATTATAAAAATATATATATATATATTATAACAAAACATAAACTATATATATTT
TCTAAAAACTA
Found at i:1786677 original size:2 final size:2
Alignment explanation
Indices: 1786612--1786658 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1786602 TTCTAAAAGT
1786612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1786654 TA TA T
1 TA TA T
1786659 CAAAAAAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1786776 original size:54 final size:54
Alignment explanation
Indices: 1786537--1786761 Score: 206
Period size: 54 Copynumber: 4.3 Consensus size: 54
1786527 TTTTACATAC
*
1786537 TATAT-TATATATATTT-TAAAAA-TATATA-TATATATA--TTCTAACAAAACTA
1 TATATATATATATTTTTCTAAAAACTATATATTATATATATTTTCT-A-AAAACTA
** * * * *
1786587 TATACTATATATA-TTTTCTAAAAGTTATATATATATATATATATATATATATA-TA
1 TATA-TATATATATTTTTCTAAAAACTATATAT-TATATATAT-TTTCTAAAAACTA
* * *
1786642 TATATATATATATATATC-AAAAA--A-A-ACTATATATATTTTCTAAAAACTA
1 TATATATATATATTTTTCTAAAAACTATATATTATATATATTTTCTAAAAACTA
*
1786691 TATATTTATATATTTTTCTAAAAACTATATATTATATATATTTTCTAAAAACTA
1 TATATATATATATTTTTCTAAAAACTATATATTATATATATTTTCTAAAAACTA
1786745 TATACTATATATATTTT
1 TATA-TATATATATTTT
1786762 ATTATATATT
Statistics
Matches: 139, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
48 6 0.04
49 26 0.19
50 10 0.07
51 5 0.04
52 13 0.09
53 7 0.05
54 39 0.28
55 28 0.20
56 2 0.01
57 1 0.01
58 2 0.01
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (54 bp):
TATATATATATATTTTTCTAAAAACTATATATTATATATATTTTCTAAAAACTA
Found at i:1788418 original size:22 final size:24
Alignment explanation
Indices: 1788392--1788445 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
1788382 CTTGGACCTA
1788392 AATAAAAA-TA-GAAAATAA-TAAT
1 AATAAAAATTATGAAAA-AACTAAT
*
1788414 AATAATAAATTATTAAAAAACTAAT
1 AATAA-AAATTATGAAAAAACTAAT
1788439 AATAAAA
1 AATAAAA
1788446 TATACTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
23 3 0.11
24 6 0.22
25 13 0.48
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AATAAAAATTATGAAAAAACTAAT
Found at i:1788525 original size:37 final size:37
Alignment explanation
Indices: 1788454--1788721 Score: 319
Period size: 37 Copynumber: 7.4 Consensus size: 37
1788444 AATATACTAT
*
1788454 AAAATGTTTTCAAAACCATACTATATATTATATATTTTCGA
1 AAAATGTTTTCAAAACTATA-TAT-TA-TATATATTTTC-A
*
1788495 AAAATG-TTTCCAAACTATATATTATATATATTTTCA
1 AAAATGTTTTCAAAACTATATATTATATATATTTTCA
1788531 AAAATGTTTTTCAAAACTATATATTATATATATTTTCA
1 AAAATG-TTTTCAAAACTATATATTATATATATTTTCA
*
1788569 AAAATGTTTTCAAAACTATATATTATATATATTTTAA
1 AAAATGTTTTCAAAACTATATATTATATATATTTTCA
*
1788606 AAAATGTTTTCAAAACTATGTA-T-TATATATTTTCA
1 AAAATGTTTTCAAAACTATATATTATATATATTTTCA
1788641 AAAATG--------A-TATATATTATATATATTTTCAA
1 AAAATGTTTTCAAAACTATATATTATATATATTTTC-A
* *
1788670 AACAATGTTTTCAAAACTATAAATTGTATATATTTTC-
1 AA-AATGTTTTCAAAACTATATATTATATATATTTTCA
*
1788707 AAAATGTTTTTAAAA
1 AAAATGTTTTCAAAA
1788722 AAATATGTAT
Statistics
Matches: 202, Mismatches: 10, Indels: 35
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.02
27 2 0.01
28 11 0.05
29 3 0.01
30 4 0.02
35 17 0.08
36 20 0.10
37 64 0.32
38 38 0.19
39 21 0.10
40 11 0.05
41 6 0.03
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAATGTTTTCAAAACTATATATTATATATATTTTCA
Found at i:1788656 original size:63 final size:67
Alignment explanation
Indices: 1788585--1788710 Score: 206
Period size: 63 Copynumber: 1.9 Consensus size: 67
1788575 TTTTCAAAAC
**
1788585 TATATATTATATATATTTT-AAAA-AATGTTTTCAAAACTATGTA-T-TATATATTTTCAAAAAT
1 TATATATTATATATATTTTCAAAACAATGTTTTCAAAACTATAAATTGTATATATTTTCAAAAAT
1788646 GA
66 GA
1788648 TATATATTATATATATTTTCAAAACAATGTTTTCAAAACTATAAATTGTATATATTTTCAAAA
1 TATATATTATATATATTTTCAAAACAATGTTTTCAAAACTATAAATTGTATATATTTTCAAAA
1788711 TGTTTTTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
63 19 0.33
64 4 0.07
65 18 0.32
66 1 0.02
67 15 0.26
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (67 bp):
TATATATTATATATATTTTCAAAACAATGTTTTCAAAACTATAAATTGTATATATTTTCAAAAAT
GA
Found at i:1806489 original size:21 final size:21
Alignment explanation
Indices: 1806465--1806504 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1806455 AGAATAAAAC
1806465 AAATAAAAATTAAATTAAATT
1 AAATAAAAATTAAATTAAATT
* *
1806486 AAATAGAAGTTAAATTAAA
1 AAATAAAAATTAAATTAAA
1806505 AGGAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAAAAATTAAATTAAATT
Found at i:1807866 original size:38 final size:37
Alignment explanation
Indices: 1807811--1808115 Score: 379
Period size: 38 Copynumber: 8.3 Consensus size: 37
1807801 TTTCAAAACC
*
1807811 AAACTATATA-T-TATATATTTTCGAAAAATGTTTTCC
1 AAACTATATATTATATATATTTTC-AAAAATGTTTTCA
*
1807847 AAACTATATATCATATATATTTTCAAAAATGTTTTTCA
1 AAACTATATATTATATATATTTTCAAAAATG-TTTTCA
1807885 AAACTATATATTATATATATTTTCAAAAAATGTTTTCA
1 AAACTATATATTATATATATTTTC-AAAAATGTTTTCA
* *
1807923 AAACTATATCTTATATATATTTTCAAAATTGTTTTCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
* *
1807960 AACCTATATA-T-TATATATTTTCAAAAATATTTTTCA
1 AAACTATATATTATATATATTTTCAAAAAT-GTTTTCA
*****
1807996 AAACTATATATTATATATATTTT-AAAAAAAAAATCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
* * *
1808032 ATATTATATATTATATATATTTTCAAAAATATTTTCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
* *
1808069 AAACTATATATTATATGTATTTTC-AAAATATTTTCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
*
1808105 AAAATATATAT
1 AAACTATATAT
1808116 ATTAATTAGA
Statistics
Matches: 236, Mismatches: 25, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.07
36 72 0.31
37 63 0.27
38 78 0.33
39 7 0.03
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (37 bp):
AAACTATATATTATATATATTTTCAAAAATGTTTTCA
Found at i:1807995 original size:13 final size:14
Alignment explanation
Indices: 1807972--1808004 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1807962 CCTATATATT
1807972 ATATATTTTCAAAA
1 ATATATTTTCAAAA
1807986 ATAT-TTTTCAAAA
1 ATATATTTTCAAAA
*
1807999 CTATAT
1 ATATAT
1808005 ATTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:1808063 original size:12 final size:12
Alignment explanation
Indices: 1808048--1808111 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
1808038 TATATTATAT
1808048 ATATTTTCAAAA
1 ATATTTTCAAAA
1808060 ATATTTTCAAAA
1 ATATTTTCAAAA
* * *
1808072 CTATATATT-ATAT
1 --ATATTTTCAAAA
*
1808085 GTATTTTC-AAA
1 ATATTTTCAAAA
1808096 ATATTTTCAAAA
1 ATATTTTCAAAA
1808108 ATAT
1 ATAT
1808112 ATATATTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
11 13 0.32
12 19 0.47
13 2 0.05
14 6 0.15
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:1808102 original size:11 final size:11
Alignment explanation
Indices: 1808048--1808107 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
1808038 TATATTATAT
1808048 ATATTTTCAAAA
1 ATATTTTC-AAA
1808060 ATATTTTCAAA
1 ATATTTTCAAA
*
1808071 ACTATATATT-ATAT
1 A-TAT-T-TTCA-AA
*
1808085 GTATTTTCAAA
1 ATATTTTCAAA
1808096 ATATTTTCAAA
1 ATATTTTCAAA
1808107 A
1 A
1808108 ATATATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 18 0.46
12 13 0.33
13 5 0.13
14 3 0.08
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (11 bp):
ATATTTTCAAA
Found at i:1808858 original size:34 final size:35
Alignment explanation
Indices: 1808820--1808897 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
1808810 TTTAATTACA
1808820 ATAACTTGA-TAGAAAAT-CTTAGTT-TCTAA-TTTCG
1 ATAACTTGATTA-AAAATCCTTAGTTCT-TAAGTTT-G
1808854 ATAACTT-ATTTAAAAATCCTTAGTTCTTAAGTTTG
1 ATAACTTGA-TTAAAAATCCTTAGTTCTTAAGTTTG
1808889 ATAACTTGA
1 ATAACTTGA
1808898 AACAAAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
33 1 0.03
34 12 0.32
35 20 0.53
36 5 0.13
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (35 bp):
ATAACTTGATTAAAAATCCTTAGTTCTTAAGTTTG
Found at i:1809786 original size:3 final size:3
Alignment explanation
Indices: 1809778--1809805 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1809768 TCTTACTTCT
1809778 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1809806 ATGTCCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1811611 original size:30 final size:30
Alignment explanation
Indices: 1811577--1811642 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
1811567 ACACATTGGG
* * *
1811577 ACAGCTTGGTGGAGCATTTGGAAGACATAT
1 ACAGCTTAGTGGAGCATTTGGAAGAAATAA
*
1811607 ACAGCTTAGTGGAGCATTTGGGAGAAATAA
1 ACAGCTTAGTGGAGCATTTGGAAGAAATAA
1811637 ACAGCT
1 ACAGCT
1811643 CACAAAGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
ACAGCTTAGTGGAGCATTTGGAAGAAATAA
Found at i:1819799 original size:23 final size:21
Alignment explanation
Indices: 1819750--1819812 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
1819740 TTTTGGTGCA
* *
1819750 GAGGGAATCGATCCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1819771 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
*
1819792 GAAGGGGAACTGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1819813 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1819831 original size:21 final size:21
Alignment explanation
Indices: 1819794--1819833 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1819784 CCCCCTTTGA
*
1819794 AGGGGAACTGATTCCCCCCAC
1 AGGGGAACTGATACCCCCCAC
1819815 AGGGGAA-TCGATACCCCCC
1 AGGGGAACT-GATACCCCCC
1819834 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACTGATACCCCCCAC
Found at i:1825036 original size:21 final size:22
Alignment explanation
Indices: 1825006--1825050 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
1824996 AAAGATTAAC
* *
1825006 AGTCGTTTAATGGTC-GGTCAA
1 AGTCGGTTAAAGGTCAGGTCAA
*
1825027 AGTCGGTTAAAGTTCAGGTCAA
1 AGTCGGTTAAAGGTCAGGTCAA
1825049 AG
1 AG
1825051 GGGGTCAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (22 bp):
AGTCGGTTAAAGGTCAGGTCAA
Found at i:1834671 original size:2 final size:2
Alignment explanation
Indices: 1834664--1834706 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1834654 AGACCCCCTT
1834664 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1834706 T
1 T
1834707 TAAAAGGGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1835540 original size:26 final size:26
Alignment explanation
Indices: 1835504--1835562 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
1835494 ACTTCTACTC
1835504 TTTCTCTATAAAAGGAGAAAAAGATT
1 TTTCTCTATAAAAGGAGAAAAAGATT
*
1835530 TTTCTCTATAAAAGGAGAGAAAGATT
1 TTTCTCTATAAAAGGAGAAAAAGATT
1835556 TTTCTCT
1 TTTCTCT
1835563 GCCTTCTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (26 bp):
TTTCTCTATAAAAGGAGAAAAAGATT
Found at i:1838328 original size:13 final size:13
Alignment explanation
Indices: 1838310--1838344 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1838300 GCTGATTCTC
1838310 CTTTTTTTCCTTT
1 CTTTTTTTCCTTT
1838323 CTTTTTTTCCTTT
1 CTTTTTTTCCTTT
1838336 -TTTTCTTTC
1 CTTTT-TTTC
1838345 GAAAGATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTTTTCCTTT
Found at i:1839046 original size:3 final size:3
Alignment explanation
Indices: 1839038--1839081 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1839028 AATATTAAAT
* *
1839038 TAA TAA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1839082 GCGGGACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1839445 original size:134 final size:134
Alignment explanation
Indices: 1839273--1839823 Score: 638
Period size: 134 Copynumber: 4.1 Consensus size: 134
1839263 CCATTCTTCT
* * * * *
1839273 GGGAAGATTGAATCGAGATATACTTATTTCACTATTACTCTGGGAATATCAAATCTTGAAAGAAA
1 GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAAA
* *
1839338 GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGTTTCATTCCATTGTTC
66 GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTC
1839403 TTTA
131 TTTA
* * * * * * * * *
1839407 GAGAAGATTGAATCGACACAGACCTGCTCCACTGTTACTCAAGGAATATTAAATCTCGAAAGAGA
1 GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAAA
* * * *
1839472 GGGATTTGTTCCGCTTCTTCTTGAGGGAAAATCAGATATGGAAATGCTGATTCATTCCACTGTTC
66 GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTC
1839537 TTTA
131 TTTA
* * * * *
1839541 GGGAAGATTGAATCTAGGCAGACTTATTCCACTATTACTCAGGGAATATCAACTCTTGAAAGAGA
1 GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAAA
* * * * * ** *
1839606 TGGATCTGTTCCGTTTCTTCTTGAGGG-AAATCATATCAAAAAATAATGATTCATTCCACTATTC
66 GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTC
**
1839670 TTCG
131 TTTA
** * *
1839674 GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCATAGAATATTAAATATTGAAAGAAA
1 GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAAA
* * * * * * * *
1839739 GGGATTTGTTTCTCTTCTTCTTGATGGAAAATCATATCTGGAAATGTTGA-TCTTTCCACTATTC
66 GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTC
**
1839803 TCCA
131 TTTA
*
1839807 GGGAAGATTAAATCGAG
1 GGGAAGATTGAATCGAG
1839824 TTTGATTTGC
Statistics
Matches: 347, Mismatches: 69, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
133 139 0.40
134 208 0.60
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (134 bp):
GGGAAGATTGAATCGAGACAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAGAAA
GGGATCTGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTAGAAATGTTGATTCATTCCACTGTTC
TTTA
Found at i:1840832 original size:4 final size:4
Alignment explanation
Indices: 1840818--1840912 Score: 74
Period size: 4 Copynumber: 23.5 Consensus size: 4
1840808 TTATTCTCTT
* *
1840818 TTTC TTTTC TTTC -TTC TTTAC TTT- TTTC TTTT TTTC TTCC TTTC ATTTTC
1 TTTC -TTTC TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC --TTTC
*
1840868 TTTC TTTA TTT- TCTT- TTTC ATTT- TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC T-TTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TT
1840913 CAGGCGAAGT
Statistics
Matches: 76, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
3 12 0.16
4 49 0.64
5 11 0.14
6 4 0.05
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:1840885 original size:41 final size:41
Alignment explanation
Indices: 1840818--1840912 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
1840808 TTATTCTCTT
* *
1840818 TTTCTTTTCTTTC-TTCTTTACTTTTTTCTTTTTTTCTTCC
1 TTTCTTTTCTTTCTTTATTTACTTTTTTCATTTTTTCTTCC
* *
1840858 TTTCATTTTCTTTCTTTATTTTC-TTTTTCATTTTTTCTTTC
1 TTTC-TTTTCTTTCTTTATTTACTTTTTTCATTTTTTCTTCC
1840899 TTTC-TTTCTTTCTT
1 TTTCTTTTCTTTCTT
1840913 CAGGCGAAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 10 0.20
40 4 0.08
41 29 0.59
42 6 0.12
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (41 bp):
TTTCTTTTCTTTCTTTATTTACTTTTTTCATTTTTTCTTCC
Found at i:1840914 original size:27 final size:27
Alignment explanation
Indices: 1840818--1840914 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
1840808 TTATTCTCTT
1840818 TTTCTTTTCTTTCTTC-TTTACTTT-TTTC
1 TTTC-TTTCTTTCTTCATTT--TTTCTTTC
* *
1840846 TTTTTTTCTTCCTTTCA--TTTTCTTTC
1 TTTCTTTCTTTC-TTCATTTTTTCTTTC
*
1840872 TTTATTTTCTTT-TTCATTTTTTCTTTC
1 TTT-CTTTCTTTCTTCATTTTTTCTTTC
1840899 TTTCTTTCTTTCTTCA
1 TTTCTTTCTTTCTTCA
1840915 GGCGAAGTAC
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
25 7 0.12
26 14 0.24
27 31 0.53
28 6 0.10
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (27 bp):
TTTCTTTCTTTCTTCATTTTTTCTTTC
Found at i:1851947 original size:2 final size:2
Alignment explanation
Indices: 1851940--1851973 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1851930 AAGATCCCTT
1851940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1851974 AATTAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1853199 original size:15 final size:17
Alignment explanation
Indices: 1853179--1853210 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1853169 GTGCTCTCTC
1853179 TTCTTTG-T-TGTTGAT
1 TTCTTTGATGTGTTGAT
1853194 TTCTTTGATGTGTTGAT
1 TTCTTTGATGTGTTGAT
1853211 GTGTTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.09, C:0.06, G:0.22, T:0.62
Consensus pattern (17 bp):
TTCTTTGATGTGTTGAT
Found at i:1856019 original size:17 final size:15
Alignment explanation
Indices: 1855979--1856007 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1855969 CCATTAAGTC
1855979 CGAGTACCCGTAAAT
1 CGAGTACCCGTAAAT
1855994 CGAGTACCCGTAAA
1 CGAGTACCCGTAAA
1856008 ACTTGAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (15 bp):
CGAGTACCCGTAAAT
Found at i:1856432 original size:12 final size:12
Alignment explanation
Indices: 1856417--1856441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1856407 GAAAACCCGA
1856417 GAGAAAAAGAGG
1 GAGAAAAAGAGG
1856429 GAGAAAAAGAGG
1 GAGAAAAAGAGG
1856441 G
1 G
1856442 TTGGACACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (12 bp):
GAGAAAAAGAGG
Found at i:1864165 original size:20 final size:20
Alignment explanation
Indices: 1864140--1864178 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1864130 TTTTCAAGGG
1864140 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
1864160 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
1864179 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:1864324 original size:19 final size:19
Alignment explanation
Indices: 1864297--1864348 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
1864287 ATGCATTTTA
*
1864297 TGCATCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
1864316 TGCACCGATGCACTCTTAG
1 TGCACCGATGCACTCTTAG
1864335 TGCACCGATGCACT
1 TGCACCGATGCACT
1864349 GAGAGTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCACCGATGCACTCTTAG
Found at i:1865922 original size:92 final size:92
Alignment explanation
Indices: 1865765--1865948 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
1865755 TATGGAATGG
*
1865765 AATAAATTATTCGTTTAGTACTTAAATTATTAATTGTCTGTTTTAGTCCTTGAACTTTTATTTTT
1 AATAAATTATGCGTTTAGTACTTAAATTATTAATTGTCTGTTTTAGTCCTTGAACTTTTATTTTT
1865830 TAAAAATTATATCTAACATTTAATTTT
66 TAAAAATTATATCTAACATTTAATTTT
1865857 AATAAATTATGCGTTTAGTACTTAAATTATTAATTGTCTGTTTTAGTCCTTGAACTTTTATTTTT
1 AATAAATTATGCGTTTAGTACTTAAATTATTAATTGTCTGTTTTAGTCCTTGAACTTTTATTTTT
*
1865922 TAAAAATTATATCTAACATTTAGTTTT
66 TAAAAATTATATCTAACATTTAATTTT
1865949 TTTTCATTTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.52
Consensus pattern (92 bp):
AATAAATTATGCGTTTAGTACTTAAATTATTAATTGTCTGTTTTAGTCCTTGAACTTTTATTTTT
TAAAAATTATATCTAACATTTAATTTT
Found at i:1866096 original size:26 final size:26
Alignment explanation
Indices: 1866067--1866169 Score: 88
Period size: 26 Copynumber: 4.0 Consensus size: 26
1866057 TCAATTTCTT
*
1866067 CAACATTTAAATTTTGATACTAAACA
1 CAACACTTAAATTTTGATACTAAACA
* * *
1866093 CAACACTTAAGTTTT--T-C-AATTTCTT
1 CAACACTTAAATTTTGATACTAA--AC-A
*
1866118 CAACATTTAAATTTTGATACTAAACA
1 CAACACTTAAATTTTGATACTAAACA
* *
1866144 CAACACTTAAGTTTTGGTACTAAACA
1 CAACACTTAAATTTTGATACTAAACA
1866170 TGAACCCCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
22 2 0.03
23 1 0.02
24 2 0.03
25 13 0.22
26 36 0.61
27 2 0.03
28 1 0.02
29 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (26 bp):
CAACACTTAAATTTTGATACTAAACA
Found at i:1866115 original size:51 final size:51
Alignment explanation
Indices: 1866055--1866158 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
1866045 TCATGTAAAC
1866055 TTTCAATTTCTTCAACATTTAAATTTTGATACTAAACACAACACTTAAGTT
1 TTTCAATTTCTTCAACATTTAAATTTTGATACTAAACACAACACTTAAGTT
1866106 TTTCAATTTCTTCAACATTTAAATTTTGATACTAAACACAACACTTAAGTT
1 TTTCAATTTCTTCAACATTTAAATTTTGATACTAAACACAACACTTAAGTT
1866157 TT
1 TT
1866159 GGTACTAAAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.42
Consensus pattern (51 bp):
TTTCAATTTCTTCAACATTTAAATTTTGATACTAAACACAACACTTAAGTT
Found at i:1866264 original size:21 final size:21
Alignment explanation
Indices: 1866239--1866279 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1866229 ATGCGAGAGA
* *
1866239 TACGAATGTTCAATGTCCAAG
1 TACGAATATTCAATATCCAAG
1866260 TACGAATATTCAATATCCAA
1 TACGAATATTCAATATCCAA
1866280 TGGTTGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (21 bp):
TACGAATATTCAATATCCAAG
Found at i:1866400 original size:20 final size:20
Alignment explanation
Indices: 1866377--1866417 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1866367 TTTTCGAATC
* *
1866377 AAAATTTAAATTAATAATTT
1 AAAAATTAAATGAATAATTT
1866397 AAAAATTAAATGAATAATTT
1 AAAAATTAAATGAATAATTT
1866417 A
1 A
1866418 CCCTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATTAAATGAATAATTT
Found at i:1869844 original size:29 final size:29
Alignment explanation
Indices: 1869802--1869883 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1869792 AAACTAAATT
1869802 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
1869831 GATGTCATTGCTTACATTATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
1869860 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1869884 GTTAGGTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1874382 original size:29 final size:29
Alignment explanation
Indices: 1874340--1874421 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1874330 AAACTAAATT
1874340 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
1874369 GATGTTATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
1874398 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1874422 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1880686 original size:18 final size:19
Alignment explanation
Indices: 1880663--1880698 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1880653 AATATATTTA
1880663 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAATG
1880681 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
1880699 AACTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAACATATAAAATAAATG
Found at i:1882078 original size:3 final size:3
Alignment explanation
Indices: 1882070--1882148 Score: 140
Period size: 3 Copynumber: 26.3 Consensus size: 3
1882060 TTAATATATT
* *
1882070 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1882118 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1882149 GATATGGGTA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1882711 original size:113 final size:113
Alignment explanation
Indices: 1882466--1883471 Score: 1915
Period size: 113 Copynumber: 8.9 Consensus size: 113
1882456 AGAGTCATTC
* * *
1882466 AAAAGGTTGAATAAATTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
1882531 TATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1882578 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
1882643 TATGAACTTTCTCTGGAAAAGCTGATCGATCAAGTGATGAATTCAGAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1882691 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1882756 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1882804 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1882869 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTTAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1882917 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1882982 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1883030 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1883095 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1883143 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1883208 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1883256 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1883321 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
1883369 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1883434 TATGAACTTTCTCTGGAAAAGATGATCCATCAAATGAT
66 TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGAT
1883472 AGATTTGAAT
Statistics
Matches: 879, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
112 69 0.08
113 810 0.92
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGATGATCCATCAAGTGATGAATTCAGGT
Found at i:1885423 original size:8 final size:8
Alignment explanation
Indices: 1885404--1885475 Score: 78
Period size: 8 Copynumber: 9.1 Consensus size: 8
1885394 CTTGACTCCC
1885404 TTTC-TTT
1 TTTCTTTT
*
1885411 TTTCTTCT
1 TTTCTTTT
1885419 TTTCTTTT
1 TTTCTTTT
1885427 TTTCTTTT
1 TTTCTTTT
1885435 TTTCTTTT
1 TTTCTTTT
* *
1885443 CTCCTTTT
1 TTTCTTTT
1885451 TTT-TTCTT
1 TTTCTT-TT
1885459 TTT-TTTT
1 TTTCTTTT
1885466 CTTTCTTTT
1 -TTTCTTTT
1885475 T
1 T
1885476 CTTCAAGCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
7 8 0.15
8 43 0.78
9 4 0.07
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTCTTTT
Found at i:1885431 original size:13 final size:12
Alignment explanation
Indices: 1885403--1885475 Score: 74
Period size: 13 Copynumber: 5.5 Consensus size: 12
1885393 CCTTGACTCC
1885403 CTTTCTTTTTTCTT
1 CTTT-TTTTTT-TT
1885417 CTTTTCTTTTTTT
1 CTTTT-TTTTTTT
1885430 CTTTTTTTCTTTT
1 CTTTTTTT-TTTT
*
1885443 CTCCTTTTTTTTT
1 CT-TTTTTTTTTT
1885456 CTTTTTTTTTCTTT
1 C-TTTTTTTT-TTT
1885470 CTTTTT
1 CTTTTT
1885476 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.06
13 30 0.58
14 19 0.37
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTTT
Found at i:1896904 original size:18 final size:19
Alignment explanation
Indices: 1896881--1896916 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1896871 AATATATTTA
1896881 AAAACA-ATAAAATAAATG
1 AAAACATATAAAATAAATG
1896899 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
1896917 AACTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAACATATAAAATAAATG
Found at i:1898298 original size:3 final size:3
Alignment explanation
Indices: 1898290--1898374 Score: 152
Period size: 3 Copynumber: 28.3 Consensus size: 3
1898280 TTAATATATT
* *
1898290 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1898338 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1898375 GATATGGGTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1906601 original size:21 final size:21
Alignment explanation
Indices: 1906577--1906631 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1906567 TATATCTTTT
*
1906577 GGGCACTCAGAATTAAATAAA
1 GGGCACTAAGAATTAAATAAA
1906598 GGGCACTAAGAATTAAATAAA
1 GGGCACTAAGAATTAAATAAA
*
1906619 GGGAACTAAGAAT
1 GGGCACTAAGAAT
1906632 ATAACAATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (21 bp):
GGGCACTAAGAATTAAATAAA
Found at i:1907202 original size:59 final size:58
Alignment explanation
Indices: 1907110--1907247 Score: 177
Period size: 59 Copynumber: 2.4 Consensus size: 58
1907100 AGATTGTTGA
* * ** *
1907110 TAAATAGTTTTAAAAGGGTGACAAATACGTAATTAATTTCGGTTATTGTGGTATTTTTG
1 TAAATAGTTTTAAAAGGGTGCCAAATACGTAATTAATTTAGGTT-CGGTGGTATTTTCG
* * *
1907169 TAAATAGTTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTCGGTGTTATTTTCG
1 TAAATAGTTTTAAAAGGGTGCCAAATACGTAATTAATTTAGGTTCGGTGGTATTTTCG
* *
1907227 TAAATATTTTTAAAAGTGTGC
1 TAAATAGTTTTAAAAGGGTGC
1907248 TATTTTCGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
58 29 0.42
59 40 0.58
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (58 bp):
TAAATAGTTTTAAAAGGGTGCCAAATACGTAATTAATTTAGGTTCGGTGGTATTTTCG
Found at i:1907251 original size:29 final size:29
Alignment explanation
Indices: 1907222--1907403 Score: 260
Period size: 29 Copynumber: 6.3 Consensus size: 29
1907212 TCGGTGTTAT
*
1907222 TTTCGTAAATATTTTTAAAAGTGTGCTAT
1 TTTCGTAAATATTTTTAAAAGTGTGCTAG
*
1907251 TTTCGTAAATATTTTTAAAAAG-GTGTTAG
1 TTTCGTAAATATTTTT-AAAAGTGTGCTAG
*
1907280 TTTCGTAAATATTTTTAAAAGTGTGTTAG
1 TTTCGTAAATATTTTTAAAAGTGTGCTAG
* *
1907309 TGTCATAAATATTTTTAAAAGTGTGCTAG
1 TTTCGTAAATATTTTTAAAAGTGTGCTAG
1907338 TTTCGTAAATATTTTTAAAAGTGTGCTAG
1 TTTCGTAAATATTTTTAAAAGTGTGCTAG
* *
1907367 TTTTGTAAATATTTTTAAAA-TGATGTTAG
1 TTTCGTAAATATTTTTAAAAGTG-TGCTAG
*
1907396 TTTTGTAA
1 TTTCGTAA
1907404 TTAATTTCGG
Statistics
Matches: 141, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
28 7 0.05
29 129 0.91
30 5 0.04
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.47
Consensus pattern (29 bp):
TTTCGTAAATATTTTTAAAAGTGTGCTAG
Found at i:1913930 original size:22 final size:22
Alignment explanation
Indices: 1913899--1913941 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1913889 TATATGCATT
*
1913899 TTTCGGGTTTCAATTTGGAGGC
1 TTTCGAGTTTCAATTTGGAGGC
*
1913921 TTTCGAGTTTGAATTTGGAGG
1 TTTCGAGTTTCAATTTGGAGG
1913942 ATGTCGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.33, T:0.42
Consensus pattern (22 bp):
TTTCGAGTTTCAATTTGGAGGC
Found at i:1913948 original size:22 final size:22
Alignment explanation
Indices: 1913905--1913948 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1913895 CATTTTTCGG
* *
1913905 GTTTCAATTTGGAGGCTTTCGA
1 GTTTCAATTTGGAGGATGTCGA
*
1913927 GTTTGAATTTGGAGGATGTCGA
1 GTTTCAATTTGGAGGATGTCGA
1913949 AAAACATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.32, T:0.39
Consensus pattern (22 bp):
GTTTCAATTTGGAGGATGTCGA
Found at i:1914133 original size:29 final size:29
Alignment explanation
Indices: 1914091--1914166 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
1914081 AAAAAATGTC
* *
1914091 AAAATTATTTACAAAACTAACACC-CTTTT
1 AAAAATATTTACAAAAATAAC-CCACTTTT
1914120 AAAAATATTTACAAAAATAACCCACTTTT
1 AAAAATATTTACAAAAATAACCCACTTTT
1914149 AAAAATATTTA-AAAAATA
1 AAAAATATTTACAAAAATA
1914167 GCGCCGAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 9 0.20
29 35 0.80
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAAATATTTACAAAAATAACCCACTTTT
Found at i:1914238 original size:58 final size:58
Alignment explanation
Indices: 1914144--1914345 Score: 316
Period size: 58 Copynumber: 3.5 Consensus size: 58
1914134 AAATAACCCA
* *
1914144 CTTTTAAAAATATTTA-AAAAATAGCGCCGAACAGAAATTAATTACGTATTATGCACT
1 CTTTTAAAAATATTTACAAAAATAGCACCGAACAGAAATTAATTACGTATTAGGCACT
* * *
1914201 CTTTTAAAAATATTTACAGAAATAGCACCGAATAGAAATCAATTACGTATTAGGCACT
1 CTTTTAAAAATATTTACAAAAATAGCACCGAACAGAAATTAATTACGTATTAGGCACT
* * *
1914259 CTTTTTAAAATATTTACAAAAATAGCACCGAACATAAATTAATTACATATTAGGCACT
1 CTTTTAAAAATATTTACAAAAATAGCACCGAACAGAAATTAATTACGTATTAGGCACT
*
1914317 CTTTTAAAAATATTTACAAAAATATCACC
1 CTTTTAAAAATATTTACAAAAATAGCACC
1914346 CGATTTTTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 16 0.12
58 115 0.88
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (58 bp):
CTTTTAAAAATATTTACAAAAATAGCACCGAACAGAAATTAATTACGTATTAGGCACT
Found at i:1918990 original size:139 final size:139
Alignment explanation
Indices: 1918740--1919018 Score: 558
Period size: 139 Copynumber: 2.0 Consensus size: 139
1918730 TACTCACAAA
1918740 GGGGCCCATGATAAAACGACAAGGAACCACGTCGACTGACAACTGAAGGTGAAGATACTATAGGC
1 GGGGCCCATGATAAAACGACAAGGAACCACGTCGACTGACAACTGAAGGTGAAGATACTATAGGC
1918805 CTAGAACTTGTATTGCTTCTCAAAGGACCTGAAGTACGAGTCTTCTTTCCAGGACGTACAGAGAA
66 CTAGAACTTGTATTGCTTCTCAAAGGACCTGAAGTACGAGTCTTCTTTCCAGGACGTACAGAGAA
1918870 CTTGTTCGG
131 CTTGTTCGG
1918879 GGGGCCCATGATAAAACGACAAGGAACCACGTCGACTGACAACTGAAGGTGAAGATACTATAGGC
1 GGGGCCCATGATAAAACGACAAGGAACCACGTCGACTGACAACTGAAGGTGAAGATACTATAGGC
1918944 CTAGAACTTGTATTGCTTCTCAAAGGACCTGAAGTACGAGTCTTCTTTCCAGGACGTACAGAGAA
66 CTAGAACTTGTATTGCTTCTCAAAGGACCTGAAGTACGAGTCTTCTTTCCAGGACGTACAGAGAA
1919009 CTTGTTCGG
131 CTTGTTCGG
1919018 G
1 G
1919019 CCAGAAAATT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (139 bp):
GGGGCCCATGATAAAACGACAAGGAACCACGTCGACTGACAACTGAAGGTGAAGATACTATAGGC
CTAGAACTTGTATTGCTTCTCAAAGGACCTGAAGTACGAGTCTTCTTTCCAGGACGTACAGAGAA
CTTGTTCGG
Found at i:1926136 original size:21 final size:21
Alignment explanation
Indices: 1926112--1926155 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1926102 ATTTATTATA
*
1926112 ATGGATTTAAAGTTGGTTGTT
1 ATGGAATTAAAGTTGGTTGTT
**
1926133 ATGGAATTAAAGTTTTTTGTT
1 ATGGAATTAAAGTTGGTTGTT
1926154 AT
1 AT
1926156 AGATGTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
ATGGAATTAAAGTTGGTTGTT
Found at i:1927886 original size:3 final size:3
Alignment explanation
Indices: 1927878--1927917 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1927868 CTGCACAATC
1927878 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1927918 GCGGGACGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1928291 original size:134 final size:134
Alignment explanation
Indices: 1928088--1928795 Score: 816
Period size: 134 Copynumber: 5.3 Consensus size: 134
1928078 TTGAGAAACA
** * * *
1928088 TTGATTCATTTAACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCTACTTAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
* * * * ** * *
1928153 GGAAGATCAAATCTTGAAAGAGAAGGATTTTTTATGCTTCTTCTAAAAGGAAAATCAGATCTGGA
66 GGAAGATCAAATCTTGAAAAAGAGGGATCTGTTCCGCTGCTTCTTAAAGGAAAATCAGATCTGGA
1928218 AATG
131 AATG
* * *
1928222 TTGATTCATTTCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTCCTTAA
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
* * * * * *
1928287 GGAAGATCAAATCTAGAAAAATAGGGATATGTTCCGTTGCTTCTTGAAGGAAAATCAGATCTGAA
66 GGAAGATCAAATCTTGAAAAAGAGGGATCTGTTCCGCTGCTTCTTAAAGGAAAATCAGATCTGGA
1928352 AATG
131 AATG
* * ** * * *
1928356 TTGATTCATTCCCCTATTCTTCAGGGAAGATTGAATCGAGTAACACTTGTTACACTGTTCCTAAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
* * * * * *
1928421 GGAAGATAAAATCTT-AAAAAGAGGGATTTGTTTCGCTACTTCTT-AAGGAAAAATTAGATCTAG
66 GGAAGATCAAATCTTGAAAAAGAGGGATCTGTTCCGCTGCTTCTTAAAGG-AAAATCAGATCTGG
1928484 AAATG
130 AAATG
* * * * *
1928489 TTGATTCATTCCACTGTTCTTTAGGGAAAATTGAATAGAGGGAGACTTGTTCCACTATTCCTTAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
* * * * * *
1928554 GGAAGATCAAAT-GTGAAAAATAAGGATCTATTCCGCTGCTTCTTGATA-TAAAATCAGATCTGG
66 GGAAGATCAAATCTTGAAAAAGAGGGATCTGTTCCGCTGCTTCTT-AAAGGAAAATCAGATCTGG
1928617 AAATG
130 AAATG
* *
1928622 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTGTTCCTCAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
* * * * * **
1928687 GGAAG-TTAAATATGTAAAAAAGAGGGATCTGTTCCGCTGCTTCTTGAGGGAAAATTTGATC-GA
66 GGAAGATCAAATCT-TGAAAAAGAGGGATCTGTTCCGCTGCTTCTTAAAGGAAAATCAGATCTG-
1928750 GAAATG
129 GAAATG
* * *
1928756 TTGACTCATTCCACTGTTCTTCAAGAAAGATTGAATCGAG
1 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1928796 TTCGATTTGC
Statistics
Matches: 482, Mismatches: 84, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
132 10 0.02
133 209 0.43
134 262 0.54
135 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (134 bp):
TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAG
GGAAGATCAAATCTTGAAAAAGAGGGATCTGTTCCGCTGCTTCTTAAAGGAAAATCAGATCTGGA
AATG
Found at i:1928564 original size:267 final size:264
Alignment explanation
Indices: 1928088--1928791 Score: 874
Period size: 267 Copynumber: 2.6 Consensus size: 264
1928078 TTGAGAAACA
** * * * *
1928088 TTGATTCATTTAACTATTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGCTACTTAG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGA-GAAGACTTGTTCCACTGTTCCTAAG
* * * * * * * *
1928153 GGAAGATCAAATCTTGAAAGAGAAGGATTT-TTTATGCTTCTTCTAAAAGGAAAATCAGATCTGG
65 GGAAGATAAAATCTT-AAAAAGAGGGATTTGTTT-CGCTACTTCT-TAAGGAAAATTAGATCTAG
* * * * *
1928217 AAATGTTGATTCATTTCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCTACTGTTC
127 AAATGTTGATTCATTCCACTGTTCTTCAGGGAAAATTGAATAGAGGCAGACTTGTTCCACTATTC
* * *
1928282 CTTAAGGAAGATCAAATCTAGAAAAATAGGGATATGTTCCGTTGCTTCTTGA-AGGAAAATCAGA
192 CTTAAGGAAGATCAAATCT-GAAAAATAAGGATATATTCCGCTGCTTCTTGATA-GAAAATCAGA
1928346 TCTGAAAATG
255 TCTGAAAATG
* * *
1928356 TTGATTCATTCCCCTATTCTTCAGGGAAGATTGAATCGAGTAACACTTGTTACACTGTTCCTAAG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAG-AAGACTTGTTCCACTGTTCCTAAG
1928421 GGAAGATAAAATCTTAAAAAGAGGGATTTGTTTCGCTACTTCTTAAGGAAAAATTAGATCTAGAA
65 GGAAGATAAAATCTTAAAAAGAGGGATTTGTTTCGCTACTTCTTAAGG-AAAATTAGATCTAGAA
* *
1928486 ATGTTGATTCATTCCACTGTTCTTTAGGGAAAATTGAATAGAGGGAGACTTGTTCCACTATTCCT
129 ATGTTGATTCATTCCACTGTTCTTCAGGGAAAATTGAATAGAGGCAGACTTGTTCCACTATTCCT
* * * *
1928551 TAGGGAAGATCAAATGTGAAAAATAAGGATCTATTCCGCTGCTTCTTGATATAAAATCAGATCTG
194 TAAGGAAGATCAAATCTGAAAAATAAGGATATATTCCGCTGCTTCTTGATAGAAAATCAGATCTG
*
1928616 GAAATG
259 AAAATG
* *
1928622 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGACAGACTTGTTCCACTGTTCCTCAG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGA-AGACTTGTTCCACTGTTCCTAAG
* * * * * * * * *
1928687 GGAAGTTAAATATGTAAAAAAGAGGGATCTGTTCCGCTGCTTCTTGAGGGAAAATTTGATCGAGA
65 GGAAGATAAA-ATCTTAAAAAGAGGGATTTGTTTCGCTACTTCTT-AAGGAAAATTAGATCTAGA
* *
1928752 AATGTTGACTCATTCCACTGTTCTTCA-AGAAAGATTGAAT
128 AATGTTGATTCATTCCACTGTTCTTCAGGGAAA-ATTGAAT
1928792 CGAGTTCGAT
Statistics
Matches: 379, Mismatches: 49, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
265 1 0.00
266 121 0.32
267 183 0.48
268 74 0.20
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (264 bp):
TTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAGAAGACTTGTTCCACTGTTCCTAAGG
GAAGATAAAATCTTAAAAAGAGGGATTTGTTTCGCTACTTCTTAAGGAAAATTAGATCTAGAAAT
GTTGATTCATTCCACTGTTCTTCAGGGAAAATTGAATAGAGGCAGACTTGTTCCACTATTCCTTA
AGGAAGATCAAATCTGAAAAATAAGGATATATTCCGCTGCTTCTTGATAGAAAATCAGATCTGAA
AATG
Found at i:1932477 original size:176 final size:177
Alignment explanation
Indices: 1932183--1932536 Score: 692
Period size: 176 Copynumber: 2.0 Consensus size: 177
1932173 AACTCTTTTA
1932183 ATATTTTTAAAGTTATAGCTCTGTGACAAGTGTTAAAATTGATAGGTTGGCATTTGGTTGGCTTT
1 ATATTTTTAAAGTTATAGCTCTGTGACAAGTGTTAAAATTGATAGGTTGGCATTTGGTTGGCTTT
1932248 CCTATTTTCTATGGTTTCAGTCATCGAATATGCCCTTTCTTTCTTGGTCCATATGAACATTAGAA
66 CCTATTTTCTATGGTTTCAGTCATCGAATATGCCCTTTCTTTCTTGGTCCATATGAACATTAGAA
1932313 C-GCCCCTCTTTCCTGGCTTGATATTTTAACTGGATGCAGACAAAAT
131 CAGCCCCTCTTTCCTGGCTTGATATTTTAACTGGATGCAGACAAAAT
1932359 ATATTTTTAAAGTTATAGCTCTGTGACAAGTGTTAAAATTGATAGGTTGGCATTTGGTTGGCTTT
1 ATATTTTTAAAGTTATAGCTCTGTGACAAGTGTTAAAATTGATAGGTTGGCATTTGGTTGGCTTT
1932424 CCTATTTTCTATGGTTTCAGTCATCGAATATGCCCTTTCTTTCTTGGTCCATATGAACATTAGAA
66 CCTATTTTCTATGGTTTCAGTCATCGAATATGCCCTTTCTTTCTTGGTCCATATGAACATTAGAA
1932489 CATGCCCCTCTTTCCTGGCTTGATATTTTAACTGGATGCAGACAAAAT
131 CA-GCCCCTCTTTCCTGGCTTGATATTTTAACTGGATGCAGACAAAAT
1932537 GACATAACTA
Statistics
Matches: 176, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
176 131 0.74
178 45 0.26
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (177 bp):
ATATTTTTAAAGTTATAGCTCTGTGACAAGTGTTAAAATTGATAGGTTGGCATTTGGTTGGCTTT
CCTATTTTCTATGGTTTCAGTCATCGAATATGCCCTTTCTTTCTTGGTCCATATGAACATTAGAA
CAGCCCCTCTTTCCTGGCTTGATATTTTAACTGGATGCAGACAAAAT
Found at i:1932808 original size:6 final size:6
Alignment explanation
Indices: 1932799--1933775 Score: 1541
Period size: 6 Copynumber: 167.5 Consensus size: 6
1932789 AGTTTTATTG
1932799 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1932847 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1932895 TATAC- -ATACA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1932939 TATACA TATACA TATACA TATACA TATAC- -ATACA TATACATA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A TATACA
1932987 TATACA TATACATA TATACA TATACA TATACA T-TAC- -ATACA TATACA
1 TATACA TATAC--A TATACA TATACA TATACA TATACA TATACA TATACA
1933034 TATACA TATAC- -ATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933080 TATACA TAT-CA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933125 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933173 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933221 TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933267 TATACA TACATACA TATACATA TATACA TATACA TATACA TATACA TATACA
1 TATACA T--ATACA TATAC--A TATACA TATACA TATACA TATACA TATACA
1933319 TATACA TATACA TATACA TATAC- TATAC- -ATACA TATAC- TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933363 TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
*
1933409 TATACA TATACC TATAC- TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933454 TATACA TATACA TCATACA TATACA TATAC- --TACA TATACA TATACA
1 TATACA TATACA T-ATACA TATACA TATACA TATACA TATACA TATACA
1933500 TATACA TATACA TATACA TATAC- TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933547 TATAC- -ATACA TATACA TATAC- -ATACA TATAC- -ATACA TATACATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATAC--A
1933591 TATACA TATACA TATACA TATACA TATACA TATACA T-TACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933638 TATA-A TATACA TATACA -ATAC- -ATAC- TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1933681 TATACA TATACA TATACA TATACATA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATAC--A TATACA TATACA TATACA TATACA
1933731 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TAT
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TAT
1933776 TATAATCGCC
Statistics
Matches: 919, Mismatches: 1, Indels: 102
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.00
4 55 0.06
5 46 0.05
6 773 0.84
7 6 0.01
8 36 0.04
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:1940722 original size:3 final size:3
Alignment explanation
Indices: 1940714--1940746 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1940704 TGCATAAATG
1940714 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1940747 GCGGGACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1943398 original size:139 final size:137
Alignment explanation
Indices: 1943140--1943448 Score: 293
Period size: 139 Copynumber: 2.2 Consensus size: 137
1943130 AACTTTTAGT
* * **
1943140 TTAGAAGAATTTTCGATTTGGTCCTCGCTTATGCTTGAGGTTATGAATTAATTATCCGATTCAAT
1 TTAGAAGAATTTT-AATTTGGTCCTCGCTTATGCTCGAGCCTATGAATTAATTATCCGATTCAAT
* * * * *
1943205 AATTGACTAAAATTAATTAGGATTAATATTAGAGCCTCCATCTTAGGCCAAATTTTACATTTAGT
65 AATTGACTAAAATTAAATAGGATTAATATTACAGCCTCCATCTTAGGCCAAATTTCAAACTTAGT
1943270 CTCTAAAA
130 CTCTAAAA
* * *
1943278 TTAGAAGAATTCTTAATTTGGTCCTCGCTTTTGCTCGAGCCTCT-AATTTAATTATTCGAATTGC
1 TTAGAAGAATT-TTAATTTGGTCCTCGCTTATGCTCGAGCCTATGAA-TTAATTATCCG-ATT-C
* * * ***
1943342 -ATAATTGATTAAAATTAAATAGGGAATT-GT-TTACAGCCTCCATTTTAGGTTTAATTTCAAAC
62 AATAATTGACTAAAATTAAATA-GG-ATTAATATTACAGCCTCCATCTTAGGCCAAATTTCAAAC
* * *
1943404 TTAGTCTTTTAAT
125 TTAGTCTCTAAAA
* * * *
1943417 TTAGGAGAATTTTTTATTTGGTCATAGCTTAT
1 TTAGAAGAA-TTTTAATTTGGTCCTCGCTTAT
1943449 TATCTATGTT
Statistics
Matches: 138, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
137 2 0.01
138 45 0.33
139 82 0.59
140 6 0.04
141 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (137 bp):
TTAGAAGAATTTTAATTTGGTCCTCGCTTATGCTCGAGCCTATGAATTAATTATCCGATTCAATA
ATTGACTAAAATTAAATAGGATTAATATTACAGCCTCCATCTTAGGCCAAATTTCAAACTTAGTC
TCTAAAA
Found at i:1943631 original size:2 final size:2
Alignment explanation
Indices: 1943624--1943678 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
1943614 TTGTTTGGTT
1943624 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1943665 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1943679 ATTTATGTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1943811 original size:2 final size:2
Alignment explanation
Indices: 1943799--1943898 Score: 97
Period size: 2 Copynumber: 52.5 Consensus size: 2
1943789 ATGCATGTTT
1943799 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1943840 T- TA TG T- TGA GTA T- TT TA TA AA TA -A TA T- TA AA TA TA TA TA
1 TA TA TA TA T-A -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1943879 TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA T
1943899 TTATTAAATG
Statistics
Matches: 83, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
1 7 0.08
2 74 0.89
3 1 0.01
4 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1944760 original size:59 final size:59
Alignment explanation
Indices: 1944692--1945193 Score: 785
Period size: 59 Copynumber: 8.5 Consensus size: 59
1944682 TTTCCCATAC
* * * *
1944692 GGAAATTCATACACTTAGTATGAATTTCTTATTATTTTAGCACAC-AAGGTG-CTTAATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAA-GTGCCCT-ATAT
* * *
1944751 GGAAATTCATACACTTAGTATGAATTCCTTAGCATTTTAGCACACGAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
** * *
1944810 AAAAATTCATACAATTAGTATG-ATTCCTTATCATTTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
* * *
1944868 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTGTAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
* * *
1944927 GGAAATTCATACCCTTAGTATGAATTCCTTATCATGTTAGTACACGAAGTGCCCTGTAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
*
1944986 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCTTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
1945045 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
* *
1945104 TGAAATTCATACACTTTGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
1 GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
1945163 GGAAATTCATACACTTAGTATGAATTCCTTA
1 GGAAATTCATACACTTAGTATGAATTCCTTA
1945194 GGATTTGGTA
Statistics
Matches: 412, Mismatches: 28, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
58 53 0.13
59 355 0.86
60 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGAAGTGCCCTATAT
Found at i:1949839 original size:25 final size:25
Alignment explanation
Indices: 1949810--1949867 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
1949800 ATTAACACCT
1949810 TTTGCATTTGCATTTTGCACCTACG
1 TTTGCATTTGCATTTTGCACCTACG
1949835 TTTGCATTTGCATTTTGCACCTACG
1 TTTGCATTTGCATTTTGCACCTACG
1949860 TTTGCATT
1 TTTGCATT
1949868 CACACTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (25 bp):
TTTGCATTTGCATTTTGCACCTACG
Found at i:1954348 original size:18 final size:17
Alignment explanation
Indices: 1954320--1954365 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1954310 TTTATTTATT
*
1954320 ATAATATATAAAATTTAA
1 ATAA-ATATAAAATATAA
*
1954338 GTTAAATATAAAATATAA
1 -ATAAATATAAAATATAA
1954356 ATAAATATAA
1 ATAAATATAA
1954366 CAAAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
ATAAATATAAAATATAA
Found at i:1955080 original size:29 final size:29
Alignment explanation
Indices: 1955045--1955126 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1955035 AAACTAAATT
*
1955045 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1955074 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1955103 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1955127 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1956438 original size:15 final size:15
Alignment explanation
Indices: 1956415--1956444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1956405 ACGAGGCTGG
1956415 AATTACAACAATAAC
1 AATTACAACAATAAC
*
1956430 AATTCCAACAATAAC
1 AATTACAACAATAAC
1956445 TATGAGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:1960084 original size:29 final size:29
Alignment explanation
Indices: 1960049--1960130 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
1960039 AAACTAAATT
*
1960049 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
1960078 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
1960107 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1960131 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:1980462 original size:27 final size:26
Alignment explanation
Indices: 1980395--1980462 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 26
1980385 AATAATTATG
1980395 AAAATAATAATTTAAACATATAAAATT
1 AAAATAA-AATTTAAACATATAAAATT
1980422 AAAATATAAA--TAAACAATGAGTAAAA-T
1 AAAATA-AAATTTAAAC-AT-A-TAAAATT
1980449 -AAATAAAATTTAAA
1 AAAATAAAATTTAAA
1980463 TTAAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
25 8 0.23
26 7 0.20
27 14 0.40
28 6 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAAATAAAATTTAAACATATAAAATT
Found at i:1982160 original size:113 final size:113
Alignment explanation
Indices: 1981977--1982306 Score: 597
Period size: 113 Copynumber: 2.9 Consensus size: 113
1981967 AGAATCATGC
*
1981977 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
1982042 TATGAACTCTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
65 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
* *
1982091 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1982156 ATGAACTTTCTCTGGAAAAGTTGATCAATCAAGTGATGAATTCGAGCA
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
1982204 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1982269 ATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATG
66 ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATG
1982307 GAAATTTCTT
Statistics
Matches: 207, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
113 202 0.98
114 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCGAGCA
Found at i:1982385 original size:73 final size:73
Alignment explanation
Indices: 1982308--1982678 Score: 629
Period size: 73 Copynumber: 5.1 Consensus size: 73
1982298 CGAGTGATGG
* * * * *
1982308 AAATTTCTTTTTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTCA
1982373 AGTGAGAT
66 AGTGAGAT
* * *
1982381 AAATTGCTATTTCGAGTGAAACTATCTCGAGCGAGACAAAGTTTGTTTTAAGGAAAACAATCTCA
1 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTCA
1982446 AGTGAGAT
66 AGTGAGAT
*
1982454 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTCA
1982519 AGTGAGAT
66 AGTGAGAT
1982527 AAATTGC-ATTTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTC
1 AAATTGCTA-TTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTC
1982591 AAGTGAGAT
65 AAGTGAGAT
1982600 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAAGTTTT-TTTTAAGGAAAACAATCTC
1 AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAA-TTTTGTTTTAAGGAAAACAATCTC
1982664 AAGTGAGAT
65 AAGTGAGAT
1982673 AAATTG
1 AAATTG
1982679 TTGTTTCGAG
Statistics
Matches: 284, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
72 1 0.00
73 278 0.98
74 5 0.02
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (73 bp):
AAATTGCTATTTCAAGTGAAACTGTCTCGAGCGAGACAAATTTTGTTTTAAGGAAAACAATCTCA
AGTGAGAT
Found at i:1982895 original size:166 final size:163
Alignment explanation
Indices: 1982692--1983012 Score: 518
Period size: 166 Copynumber: 1.9 Consensus size: 163
1982682 TTTCGAGGGA
*
1982692 AAATGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTTCAGA
1 AAATGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTTTCCAACAATTTCATTTT-AGA
** * * *
1982757 AAAGATTGAATGAGAAACTTTGGAAATCATTTTTTCATTATG-TTTCAAGATAACCTGTTGATTG
65 AAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATGTTTTCAA-ATAACATGTTGATTG
1982821 GGTAACATGCCCCAATCTCAAGATAAGGTTGTTGG
129 GGTAACATGCCCCAATCTCAAGATAAGGTTGTTGG
1982856 AAATAGTTTACTAAGTAAAAAAACTAAGAAAATCGTTTTCTTACTTTCCAACAATTTCATTTTAG
1 AAAT-GTTTACTAAGT-AAAAAACTAAGAAAATCGTTTTCTTACTTTCCAACAATTTCATTTTAG
* *
1982921 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATGTTTTTGAAATAACATGTTGATT
64 AAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATG-TTTTCAAATAACATGTTGATT
1982986 GGGTAACATGCCCCAATCTCAAGATAA
128 GGGTAACATGCCCCAATCTCAAGATAA
1983013 TGCTCATTCT
Statistics
Matches: 145, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
164 4 0.03
165 51 0.35
166 85 0.59
167 5 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (163 bp):
AAATGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTTTCCAACAATTTCATTTTAGAA
AAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATGTTTTCAAATAACATGTTGATTGGG
TAACATGCCCCAATCTCAAGATAAGGTTGTTGG
Found at i:1983601 original size:22 final size:22
Alignment explanation
Indices: 1983521--1983598 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
1983511 GATAAAGCTT
* *
1983521 TCATCTTTGAAAAGAAAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
1983543 TCATCTTTTAAAAAGAGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
*
1983566 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1983588 TCATCTTTGAA
1 TCATCTTTGAA
1983599 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 31 0.62
23 19 0.38
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1985186 original size:36 final size:34
Alignment explanation
Indices: 1985146--1985219 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 34
1985136 CATTACTTCT
1985146 TATTG-AGATGAGCCTCCAAGAATGCCCAAATATTC
1 TATTGTAG-TGAGCCTCCAA-AATGCCCAAATATTC
* * *
1985181 ATATTGTTGTGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
1985216 TATT
1 TATT
1985220 TCTGGTGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.12
35 14 0.41
36 15 0.44
37 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (34 bp):
TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
Found at i:1991165 original size:16 final size:15
Alignment explanation
Indices: 1991144--1991178 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
1991134 ATACGAACAT
1991144 AAAAATGCAAATATGA
1 AAAAATGCAAATAT-A
1991160 AAAAATGCAAATATA
1 AAAAATGCAAATATA
1991175 AAAA
1 AAAA
1991179 TGTGAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.17
Consensus pattern (15 bp):
AAAAATGCAAATATA
Found at i:1991253 original size:14 final size:14
Alignment explanation
Indices: 1991236--1991275 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1991226 ATAAAAGTAT
1991236 AAATGCAAAATGAA
1 AAATGCAAAATGAA
*
1991250 AAATGCAAAGATGCA
1 AAATGCAAA-ATGAA
1991265 AAATG-AAAATG
1 AAATGCAAAATG
1991276 CATGTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 12 0.50
15 9 0.38
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.15
Consensus pattern (14 bp):
AAATGCAAAATGAA
Found at i:1993997 original size:20 final size:20
Alignment explanation
Indices: 1993974--1994012 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1993964 CGAACGTAAA
*
1993974 AATGCAAATATAAAAATGTG
1 AATGCAAACATAAAAATGTG
* *
1993994 AATGTAACCATAAAAATGT
1 AATGCAAACATAAAAATGT
1994013 AAATTATGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGCAAACATAAAAATGTG
Found at i:1994064 original size:14 final size:14
Alignment explanation
Indices: 1994047--1994086 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1994037 ATAAAAGTAT
1994047 AAATGCAAAATGAA
1 AAATGCAAAATGAA
*
1994061 AAATGCAAAGATGCA
1 AAATGCAAA-ATGAA
1994076 AAATG-AAAATG
1 AAATGCAAAATG
1994087 CATGTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 12 0.50
15 9 0.38
ACGTcount: A:0.60, C:0.07, G:0.17, T:0.15
Consensus pattern (14 bp):
AAATGCAAAATGAA
Found at i:1997009 original size:26 final size:28
Alignment explanation
Indices: 1996952--1997009 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
1996942 TCTTCGATAT
1996952 TAATAAATATTAACAATATAATAATTTA
1 TAATAAATATTAACAATATAATAATTTA
* **
1996980 -AATAAA-ATTAA-ATTATAATTTTTTA
1 TAATAAATATTAACAATATAATAATTTA
1997005 TAATA
1 TAATA
1997010 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 11 0.42
26 9 0.35
27 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATAAATATTAACAATATAATAATTTA
Found at i:1997214 original size:27 final size:26
Alignment explanation
Indices: 1997147--1997214 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 26
1997137 AATAATTATG
1997147 AAAATAATAATTTAAACATATAAAATT
1 AAAATAA-AATTTAAACATATAAAATT
1997174 AAAATATAAA--TAAACAATGAGTAAAA-T
1 AAAATA-AAATTTAAAC-AT-A-TAAAATT
1997201 -AAATAAAATTTAAA
1 AAAATAAAATTTAAA
1997215 TTAAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
25 8 0.23
26 7 0.20
27 14 0.40
28 6 0.17
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAAATAAAATTTAAACATATAAAATT
Found at i:1999966 original size:61 final size:60
Alignment explanation
Indices: 1999858--1999979 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 60
1999848 CTGTGTATTG
* *
1999858 GTTGAGCCATATCAAGTGAATGCTTTAGCACACCTAATGACATGGAAGACTGCAGTCGCC
1 GTTGAGCCAGATCAACTGAATGCTTTAGCACACCTAATGACATGGAAGACTGCAGTCGCC
*
1999918 GTTGAGCCAGATCAACTGAATGCTTTTAGCATACCTAATGACATGGAAGACTGCAGTCGCC
1 GTTGAGCCAGATCAACTGAATGC-TTTAGCACACCTAATGACATGGAAGACTGCAGTCGCC
1999979 G
1 G
1999980 ATATCCAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
60 21 0.36
61 37 0.64
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (60 bp):
GTTGAGCCAGATCAACTGAATGCTTTAGCACACCTAATGACATGGAAGACTGCAGTCGCC
Found at i:2008528 original size:54 final size:54
Alignment explanation
Indices: 2008458--2008692 Score: 319
Period size: 54 Copynumber: 4.4 Consensus size: 54
2008448 CTATCAGCAT
* *
2008458 TAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGACAC
1 TAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGACCGTATCGACAC
* * *
2008512 TAATTATGCAACCCACGAAATTAATAATAAGTTTATGAACGACTGTATCGACAC
1 TAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGACCGTATCGACAC
* * * *
2008566 TAAGTGTGTAACCCACGGAATTAATAATAAATTTATGAAAGACCGTATCGACAC
1 TAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGACCGTATCGACAC
** * * *
2008620 TAAGTGTTTAACTCACGAAATTCATAATAAGTTTATGAACGACCGTATCAACAC
1 TAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGACCGTATCGACAC
* *
2008674 TAATTGTGC-ACCCATGAAA
1 TAAGTGTGCAACCCACGAAA
2008693 CATATACTGA
Statistics
Matches: 157, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 8 0.05
54 149 0.95
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (54 bp):
TAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGACCGTATCGACAC
Found at i:2014074 original size:13 final size:13
Alignment explanation
Indices: 2014065--2014107 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2014055 CTATGACGCG
2014065 CATTTATGACA-A
1 CATTTATGACACA
2014077 GCATTTATGACACA
1 -CATTTATGACACA
* *
2014091 CGTTTATGACGCA
1 CATTTATGACACA
2014104 CATT
1 CATT
2014108 GAGCATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 25 0.96
14 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (13 bp):
CATTTATGACACA
Found at i:2022058 original size:3 final size:3
Alignment explanation
Indices: 2022050--2022088 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
2022040 TAAGTTATTT
2022050 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2022089 CCTGTTGCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2023175 original size:54 final size:54
Alignment explanation
Indices: 2023111--2023236 Score: 180
Period size: 54 Copynumber: 2.3 Consensus size: 54
2023101 GTACTATCAG
* * * *
2023111 CACTAAGTGTGCAACTCATAGAATTCATAATAAGTTTATGAACGACCATTTCGA
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTCTATGAACGACCATATCGA
* *
2023165 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTCTATGAACGACCGTATCGG
1 CACTAAGTGTGCAACCCACAGAATTCATAATAAGTCTATGAACGACCATATCGA
* *
2023219 CACTAATTGTGCACCCCA
1 CACTAAGTGTGCAACCCA
2023237 TGAAACATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACAGAATTCATAATAAGTCTATGAACGACCATATCGA
Found at i:2027846 original size:3 final size:3
Alignment explanation
Indices: 2027838--2027910 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
2027828 ATATGTTTCA
2027838 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2027886 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
2027911 TTACTTGAAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2033553 original size:2 final size:2
Alignment explanation
Indices: 2033548--2033591 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2033538 AAAAACATTA
2033548 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
2033590 AT
1 AT
2033592 TAGCTTGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2033909 original size:2 final size:2
Alignment explanation
Indices: 2033904--2033929 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2033894 ATTAAAATTA
2033904 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
2033930 TAGCTTGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2035485 original size:17 final size:17
Alignment explanation
Indices: 2035463--2035495 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2035453 TTTATTGTTC
2035463 AGCAATAATAGTTTTAA
1 AGCAATAATAGTTTTAA
*
2035480 AGCAATAATATTTTTA
1 AGCAATAATAGTTTTA
2035496 CTAATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
AGCAATAATAGTTTTAA
Found at i:2035758 original size:18 final size:18
Alignment explanation
Indices: 2035732--2035776 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
2035722 TCAAAGTTGG
*
2035732 ATGATATACAAAATGGCA
1 ATGAGATACAAAATGGCA
2035750 ATGAGATACAAAATGGCA
1 ATGAGATACAAAATGGCA
2035768 ATGAGATAC
1 ATGAGATAC
2035777 CCTATTCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (18 bp):
ATGAGATACAAAATGGCA
Found at i:2038455 original size:156 final size:156
Alignment explanation
Indices: 2038171--2038482 Score: 608
Period size: 156 Copynumber: 2.0 Consensus size: 156
2038161 TCAGAAACCA
2038171 ATTGCTCCTAAATTCCCTTCCCCCAACCTCAACTTCCGACAACGATCTCGACACCGTCCGAATTC
1 ATTGCTCCTAAATTCCCTTCCCCCAACCTCAACTTCCGACAACGATCTCGACACCGTCCGAATTC
2038236 CGATCGCGTTTTGAAACCAACTATCGTGTTCGTTATCGAGTGAGGAACAATTCCCTTAAATTAAT
66 CGATCGCGTTTTGAAACCAACTATCGTGTTCGTTATCGAGTGAGGAACAATTCCCTTAAATTAAT
2038301 TGAAGCGAAACGCTGCCAAACGTCGT
131 TGAAGCGAAACGCTGCCAAACGTCGT
2038327 ATTGCTCCTAAATTCCCTTCCCCCAACCTCAACTTCCGACAACGATCTCGACACCGTCCGAATTC
1 ATTGCTCCTAAATTCCCTTCCCCCAACCTCAACTTCCGACAACGATCTCGACACCGTCCGAATTC
2038392 CGATCGTCGTTTTGAAACC-ACTATCGTGTTCGTTATCGAGTGAGGAACAATTCCCTTAAATTAA
66 CGATCG-CGTTTTGAAACCAACTATCGTGTTCGTTATCGAGTGAGGAACAATTCCCTTAAATTAA
2038456 TTGAAGCGAAACGCTGCCAAACGTCGT
130 TTGAAGCGAAACGCTGCCAAACGTCGT
2038483 GAATTTCCAG
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
156 143 0.92
157 12 0.08
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (156 bp):
ATTGCTCCTAAATTCCCTTCCCCCAACCTCAACTTCCGACAACGATCTCGACACCGTCCGAATTC
CGATCGCGTTTTGAAACCAACTATCGTGTTCGTTATCGAGTGAGGAACAATTCCCTTAAATTAAT
TGAAGCGAAACGCTGCCAAACGTCGT
Found at i:2038936 original size:29 final size:29
Alignment explanation
Indices: 2038901--2039080 Score: 177
Period size: 29 Copynumber: 6.2 Consensus size: 29
2038891 ATCGGGTGAC
* *
2038901 ATTTTGGAAATTAATTCGAAATGGGTGCT
1 ATTTTGGAAATTAATTCAAAAAGGGTGCT
*
2038930 ATTTTGGAAATTAATTCAAAATGGGTGCT
1 ATTTTGGAAATTAATTCAAAAAGGGTGCT
*
2038959 ATTTTGGGAATTTAATTCAAAAA-GGTGCT
1 ATTTT-GGAAATTAATTCAAAAAGGGTGCT
* * *
2038988 ATATTGGGAATTTAATTCAAAAAAGGTG-T
1 AT-TTTGGAAATTAATTCAAAAAGGGTGCT
* * *
2039017 AATTTTGAGAATTTAATTCGAAGA-GGTGCT
1 -ATTTTG-GAAATTAATTCAAAAAGGGTGCT
* * * *
2039047 ATTTTAGTAATTATTTTAAAAAGGGTGCT
1 ATTTTGGAAATTAATTCAAAAAGGGTGCT
2039076 ATTTT
1 ATTTT
2039081 TGTAAAATGG
Statistics
Matches: 130, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.08
29 82 0.63
30 38 0.29
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (29 bp):
ATTTTGGAAATTAATTCAAAAAGGGTGCT
Found at i:2039082 original size:59 final size:56
Alignment explanation
Indices: 2038901--2039080 Score: 191
Period size: 59 Copynumber: 3.1 Consensus size: 56
2038891 ATCGGGTGAC
* *
2038901 ATTTTGGAAATTAATTCGAAATGGGTGCTATTTTGGAAATTAATTCAAAATGGGTGCT
1 ATTTTGGAATTTAATTCGAAA--GGTGCTATTTTGGAAATTAATTCAAAAAGGGTGCT
* * * *
2038959 ATTTTGGGAATTTAATTCAAAAAGGTGCTATATTGGGAATTTAATTCAAAAAAGGTG-T
1 ATTTT-GGAATTTAATTC-GAAAGGTGCTAT-TTTGGAAATTAATTCAAAAAGGGTGCT
* * * *
2039017 AATTTTGAGAATTTAATTCGAAGAGGTGCTATTTTAGTAATTATTTTAAAAAGGGTGCT
1 -ATTTTG-GAATTTAATTCGAA-AGGTGCTATTTTGGAAATTAATTCAAAAAGGGTGCT
2039076 ATTTT
1 ATTTT
2039081 TGTAAAATGG
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
58 40 0.40
59 58 0.57
60 3 0.03
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (56 bp):
ATTTTGGAATTTAATTCGAAAGGTGCTATTTTGGAAATTAATTCAAAAAGGGTGCT
Found at i:2039846 original size:15 final size:15
Alignment explanation
Indices: 2039826--2039858 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2039816 TGATACGTGA
2039826 TTCCTGAATAT-TGAT
1 TTCCTGAA-ATCTGAT
2039841 TTCCTGAAATCTGAT
1 TTCCTGAAATCTGAT
2039856 TTC
1 TTC
2039859 TGTATTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (15 bp):
TTCCTGAAATCTGAT
Found at i:2044407 original size:500 final size:500
Alignment explanation
Indices: 2043466--2044481 Score: 1712
Period size: 500 Copynumber: 2.0 Consensus size: 500
2043456 GATGCTTCTC
* *
2043466 ACTCTGGATTAGGATGTGTTTTGATGCAAGATGGGAAGGTTGTCGTTTATGCTTCACGCCATTTA
1 ACTCTGGATTAGGATGTGTTTTGATGCAAGATGGGAAGGTTGTCGCTTATGCTTCACGCCAATTA
*
2043531 AAGCCGTATGAGCGTAACTATCCTATTCACGATATGGAGTTAACTGCCGTGATTTTTGCTTTAAA
66 AAGCCGCATGAGCGTAACTATCCTATTCACGATATGGAGTTAACTGCCGTGATTTTTGCTTTAAA
* *
2043596 GATCTGGAGTCACTACCTATATGGAGAAAAATGTTATATTTATACTGATCATAAGAGTCTAAAGT
131 GATCTGGAGACACTACCTATACGGAGAAAAATGTTATATTTATACTGATCATAAGAGTCTAAAGT
*
2043661 ATCTGCTTACTCAGAAAGAATTGAATTTGAGACAGCGTCGCTGGTTGGAGCTTCTAAAGGACTAT
196 ATCTGCTTACTCAGAAAGAATTGAATTTGAGACAGCGTCGCTAGTTGGAGCTTCTAAAGGACTAT
** * *
2043726 GATTTAGAGATAGAATATCATCCAGGGAAGGCTAATGTAGTGGCGGACGCTTTGAGCCGTAAGGC
261 GATTTAGAGATAGAATATCATCCAGGGAACACTAATGTAGTGGCAGACGCCTTGAGCCGTAAGGC
*
2043791 TATATCAGATCTCAGAGCCTTATTCGCCAACTTGAGTTTATTTGACGATAACAGTTTGTTAGCAG
326 GATATCAGATCTCAGAGCCTTATTCGCCAACTTGAGTTTATTTGACGATAACAGTTTGTTAGCAG
2043856 AGTTGCAGGTTAAACCTACTTTGGCCGAGGAGATTAAGACCAAACAACTTCTGGATAGCTCATTG
391 AGTTGCAGGTTAAACCTACTTTGGCCGAGGAGATTAAGACCAAACAACTTCTGGATAGCTCATTG
* * * * *
2043921 CTACCCATTATTGAACAAGTTAAGCAGGGATTGAGTTCGGAGTTT
456 CTACCCATTATTGAACAAGTTAAACAAGGATCGAGTTCAGAGTAT
* * *
2043966 ACTCTGGATTAGGCTGTGTTTTGATGCAAGATGGGAAGGTTGTCGCTTATGCTTCGCGTCAATTA
1 ACTCTGGATTAGGATGTGTTTTGATGCAAGATGGGAAGGTTGTCGCTTATGCTTCACGCCAATTA
* *
2044031 AAGCCGCATGAGCGTAACTATCCTATTCACGATTTGGAGTTAGCTGCCGT-AGTTTTTGCTTTAA
66 AAGCCGCATGAGCGTAACTATCCTATTCACGATATGGAGTTAACTGCCGTGA-TTTTTGCTTTAA
*
2044095 AGATCTGGAGACACTACCTATACGGAGAAAAGTGTTATATTTATACTGATCATAAGAGTCTGAAA
130 AGATCTGGAGACACTACCTATACGGAGAAAAATGTTATATTTATACTGATCATAAGAGTCT-AAA
*
2044160 -TATCTTCTTACTCAGAAAGAATTGAATTTGAGACAGCGTCGCTAGTTGGAGCTTCTAAAGGACT
194 GTATCTGCTTACTCAGAAAGAATTGAATTTGAGACAGCGTCGCTAGTTGGAGCTTCTAAAGGACT
*
2044224 ATGATTTGGAGATAGAATATCATCCAGGGAACACTAATGTAGTGGCAGACGCCTTGAGCCGTAAG
259 ATGATTTAGAGATAGAATATCATCCAGGGAACACTAATGTAGTGGCAGACGCCTTGAGCCGTAAG
* *
2044289 GCGATATCAGATCTCAGAGCCTTATTCGCCAACTTGAGTTTATTTGATGATAATAGTTTGTTAGC
324 GCGATATCAGATCTCAGAGCCTTATTCGCCAACTTGAGTTTATTTGACGATAACAGTTTGTTAGC
*
2044354 AGAGTTGCAGGTTAAGCCTACTTTGGCCGAGGAGATTAAGACCAAACAACTTCTGGATAGCTCAT
389 AGAGTTGCAGGTTAAACCTACTTTGGCCGAGGAGATTAAGACCAAACAACTTCTGGATAGCTCAT
** *
2044419 TGCTTTCCATTATTGAGCAAGTTAAACAAGGATCGAGTTCAGAGTAT
454 TGCTACCCATTATTGAACAAGTTAAACAAGGATCGAGTTCAGAGTAT
* *
2044466 ACTGTGGATCAGGATG
1 ACTCTGGATTAGGATG
2044482 GTATTTTGTA
Statistics
Matches: 481, Mismatches: 33, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
499 1 0.00
500 477 0.99
501 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (500 bp):
ACTCTGGATTAGGATGTGTTTTGATGCAAGATGGGAAGGTTGTCGCTTATGCTTCACGCCAATTA
AAGCCGCATGAGCGTAACTATCCTATTCACGATATGGAGTTAACTGCCGTGATTTTTGCTTTAAA
GATCTGGAGACACTACCTATACGGAGAAAAATGTTATATTTATACTGATCATAAGAGTCTAAAGT
ATCTGCTTACTCAGAAAGAATTGAATTTGAGACAGCGTCGCTAGTTGGAGCTTCTAAAGGACTAT
GATTTAGAGATAGAATATCATCCAGGGAACACTAATGTAGTGGCAGACGCCTTGAGCCGTAAGGC
GATATCAGATCTCAGAGCCTTATTCGCCAACTTGAGTTTATTTGACGATAACAGTTTGTTAGCAG
AGTTGCAGGTTAAACCTACTTTGGCCGAGGAGATTAAGACCAAACAACTTCTGGATAGCTCATTG
CTACCCATTATTGAACAAGTTAAACAAGGATCGAGTTCAGAGTAT
Found at i:2046641 original size:29 final size:29
Alignment explanation
Indices: 2046582--2046641 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
2046572 GTTTGACCGG
* * *
2046582 TTTAATTCGAAAAGGTGCTATTTTGGGAA
1 TTTAATTCAAAAAAGTGCTATTTTAGGAA
*
2046611 TTTAATTCAAAAAAGTGCTATTTTAGTAA
1 TTTAATTCAAAAAAGTGCTATTTTAGGAA
2046640 TT
1 TT
2046642 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (29 bp):
TTTAATTCAAAAAAGTGCTATTTTAGGAA
Found at i:2047423 original size:14 final size:16
Alignment explanation
Indices: 2047399--2047431 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2047389 TGATACGTGA
2047399 TTCCTGAATAT-TGAT
1 TTCCTGAATATCTGAT
2047414 TTCCTG-ATATCTGAT
1 TTCCTGAATATCTGAT
2047429 TTC
1 TTC
2047432 TGTATTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (16 bp):
TTCCTGAATATCTGAT
Done.