Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 38
Found at i:6088022 original size:81 final size:81
Alignment explanation
Indices: 6087912--6088792 Score: 1203
Period size: 81 Copynumber: 10.9 Consensus size: 81
6087902 AGTTCTAAAA
* * *
6087912 TAAAAGATTAATGGCTTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGGTT-GATGAAA
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCA-GTTAGATGAAA
6087976 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * * *
6087993 TAAAAGATTAATGGCCTAGCTATGTATTTGGCAGAAATGTGTCAATTATGCAAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6088058 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
6088074 TAAAAGATTAATGGACTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6088139 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
* * * ** * *
6088155 TAAAAGGTTAATGACCTAGATGTGCATTTGGCAGAAATATGTCAATTATGTCAGTTAGATTAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6088220 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
6088236 TAAAAGATTAATGTCCTAGTTGTTCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGTTGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6088301 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
6088317 TAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAAGTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6088382 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
6088398 TAAAAGATTAATGGCCTAGCTGTGCGTCTGGAAAAAAGGTGTCAATTATTCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
6088463 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
6088479 GAAAAGATTAATGACCTAGTTGTGCATTTGACAG-AAGGTTTCAATTATGCCAGTTATATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6088543 GTTAAATACCTTTAAG
66 GTTAAATACCTTTGAG
* * * * *
6088559 TAAAATATTAATGGTCTAGATGTGCATTTGGCAGAAAGGTTTCAATTATGCCAGTTAGATGGAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6088624 GTTAAATACCTTTCAG
66 GTTAAATACCTTTGAG
* *
6088640 TAAAAGATTAATGGCCTAGTTGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
6088705 GTTAAATACCTATGAG
66 GTTAAATACCTTTGAG
** * ** * * * *
6088721 TAAAATTTTAATTGCCTA-TATGCT-CATTTGGCAGAAAATTATCAGTAATGCAAGTTAGATGAA
1 TAAAAGATTAATGGCCTAGT-TG-TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
6088784 AGGCTAAAT
64 AGGTTAAAT
6088793 GATTTGGGTA
Statistics
Matches: 710, Mismatches: 86, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
80 74 0.10
81 635 0.89
82 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:6089900 original size:64 final size:63
Alignment explanation
Indices: 6089832--6090011 Score: 190
Period size: 65 Copynumber: 2.8 Consensus size: 63
6089822 TTGGACCCTT
*
6089832 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCA-AAATAGC-CA
1 AGTGCATCGATGCACT-AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAA-A-CTCA
6089895 G
63 G
* *
6089896 AGTGCATCGATGCATGGCT-G-GTACATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTC
1 AGTGCATCGATGCA---CTAGAGTGCATCGATGCATGAAATGCATTCGATG-TTTCATAAAACTC
*
6089959 TG
62 AG
* *
6089961 AGTGCATCGATGCA-TAGTATGTGTATCGGTGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCACTAG-A-GTGCATCGATGCATGAAATGCATTCGATGTT
6090012 CAATTTATTC
Statistics
Matches: 98, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 43 0.44
65 48 0.49
66 3 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCACTAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCATAAAACTCAG
Found at i:6089994 original size:65 final size:64
Alignment explanation
Indices: 6089856--6090011 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 64
6089846 CTAAGAGTGC
*
6089856 ATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGGTA
1 ATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGATGGTA
* * *
6089919 CATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGTATG
1 -ATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCAT-GGATG
6089982 TGT-
62 -GTA
*
6089985 ATCGGTGCATGAAATGCATTCGATGTT
1 ATCGATGCATGAAATGCATTCGATGTT
6090012 CAATTTATTC
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
64 25 0.31
65 48 0.59
66 6 0.07
67 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (64 bp):
ATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGATGGTA
Found at i:6090368 original size:34 final size:34
Alignment explanation
Indices: 6090325--6090397 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
6090315 GTGCGTAATT
6090325 TTAAG-ATTTTCTTTGAAAATAAATTTTGAAAAA
1 TTAAGTATTTTCTTTGAAAATAAATTTTGAAAAA
6090358 TTAAGTATTTTCTTTGAAAATAAATTTTGAAAAA
1 TTAAGTATTTTCTTTGAAAATAAATTTTGAAAAA
6090392 TTAAGT
1 TTAAGT
6090398 TTGAAATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 5 0.13
34 34 0.87
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (34 bp):
TTAAGTATTTTCTTTGAAAATAAATTTTGAAAAA
Found at i:6092291 original size:13 final size:13
Alignment explanation
Indices: 6092273--6092297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6092263 AATCAAAAAC
6092273 ATCAAATTTAGAA
1 ATCAAATTTAGAA
6092286 ATCAAATTTAGA
1 ATCAAATTTAGA
6092298 TTTTTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:6092754 original size:23 final size:22
Alignment explanation
Indices: 6092724--6092802 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
6092714 GCATGGCCTT
6092724 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
6092746 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
6092768 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
6092791 GATGCATCGATG
1 G-TGCATCGATG
6092803 TACTGTTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 19 0.42
24 9 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:6092780 original size:21 final size:22
Alignment explanation
Indices: 6092724--6092786 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
6092714 GCATGGCCTT
6092724 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTC-AGGC
* * *
6092747 GTGCATCGGTGCACCTTCATG-
1 GTGCATCGATGCACATTCAGGC
*
6092768 GTGTATCGATGCACATTCA
1 GTGCATCGATGCACATTCA
6092787 AAGGGATGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 16 0.47
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGC
Found at i:6098382 original size:65 final size:65
Alignment explanation
Indices: 6098249--6098409 Score: 186
Period size: 65 Copynumber: 2.5 Consensus size: 65
6098239 TGCACTAAGA
* * *
6098249 GTGCAACGATGCATGAAATGCATTCGATG-TTTCAAAATAGCGAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* * *
6098313 GTGCATCGATTCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
6098375 TAT
64 T-G
* *
6098378 GTGCATCGGTGCATGAAATGCATTTGATGTTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTT
6098410 AATTTATTCC
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 28 0.34
65 51 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:6098429 original size:45 final size:45
Alignment explanation
Indices: 6098378--6098482 Score: 183
Period size: 45 Copynumber: 2.3 Consensus size: 45
6098368 TGCATAGTAT
*
6098378 GTGCATCGGTGCATGAAATGCATTTGATGTTTAATTTATTCCATG
1 GTGCATCGGTGCATGAAATGCATTCGATGTTTAATTTATTCCATG
*
6098423 GTGCATCAGTGCATGAAATGCATTCGATGTTTAATTTATTCCATG
1 GTGCATCGGTGCATGAAATGCATTCGATGTTTAATTTATTCCATG
*
6098468 GTGCATCGATGCATG
1 GTGCATCGGTGCATG
6098483 GATTGGTGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (45 bp):
GTGCATCGGTGCATGAAATGCATTCGATGTTTAATTTATTCCATG
Found at i:6101658 original size:29 final size:29
Alignment explanation
Indices: 6101626--6101682 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
6101616 AAATTTCAAA
*
6101626 GTAACAATCCACAAATAAACCAAACTAAG
1 GTAAAAATCCACAAATAAACCAAACTAAG
* *
6101655 GTAAAAATCCACAAATACATCAAACTAA
1 GTAAAAATCCACAAATAAACCAAACTAA
6101683 AATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.16
Consensus pattern (29 bp):
GTAAAAATCCACAAATAAACCAAACTAAG
Found at i:6105800 original size:40 final size:40
Alignment explanation
Indices: 6105692--6105818 Score: 166
Period size: 40 Copynumber: 3.2 Consensus size: 40
6105682 AAGCAATTCA
* * *
6105692 GTGCATATGGTGGACACGACCTTATGTGAAATGCACTTCA
1 GTGCATATGGTGGGCACGACCTTATGTGTAATGCACTTCG
* * *
6105732 GTGCATATGGTGGGCACAATCATATGTGTAATGCACTTCG
1 GTGCATATGGTGGGCACGACCTTATGTGTAATGCACTTCG
* * *
6105772 GTGCATATGGTGGGCACGGCCTTATGTGTAA-GCGCTACG
1 GTGCATATGGTGGGCACGACCTTATGTGTAATGCACTTCG
6105811 GTGCATAT
1 GTGCATAT
6105819 ATTTGACTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 14 0.19
40 61 0.81
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
GTGCATATGGTGGGCACGACCTTATGTGTAATGCACTTCG
Found at i:6118752 original size:953 final size:953
Alignment explanation
Indices: 6116906--6119020 Score: 3948
Period size: 953 Copynumber: 2.2 Consensus size: 953
6116896 TTTATCATTA
* * * * * * ** *
6116906 ATGATATTTCGAGTATAAACTGCCCAATGTTATATTATGATAATATACTTTATCATGGATTGAAA
1 ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
* * *
6116971 AAAATAGACTATATGCCCAAGTAATTCATTGAGTAACAAGGTATAGTTGCCATGCCATAGAGTCT
66 AATATAGTCTAGATGCCCAAGTAATTCATTGAGTAACAAGGTATAGTTGCCATGCCATAGAGTCT
6117036 AGCAGTAGCTGCATATCGATTAAGCACTTTGGTGAATATGGTTGGTACAACCTTATGTGTAAGCA
131 AGCAGTAGCTGCATATCGATTAAGCACTTTGGTGAATATGGTTGGTACAACCTTATGTGTAAGCA
6117101 CTACGGTGCATATATTTGACTCGAATACCCAGGGTTCTCAGGGTTTAAATTGGGATATGGTTTAT
196 CTACGGTGCATATATTTGACTCGAATACCCAGGGTTCTCAGGGTTTAAATTGGGATATGGTTTAT
6117166 TGGTTACTAAATGATAGACAGGCAAATAAGCTTACGAGCTTATGGGATAAATGGAAATTATATTG
261 TGGTTACTAAATGATAGACAGGCAAATAAGCTTACGAGCTTATGGGATAAATGGAAATTATATTG
6117231 GTAAGAAACTTTATATTTGGTTATATTATGTTAAATTTTGGTAACATGGTTGGATTGCAGGTAAA
326 GTAAGAAACTTTATATTTGGTTATATTATGTTAAATTTTGGTAACATGGTTGGATTGCAGGTAAA
6117296 GTGATCACATTACATTGAATATTATTACTCATTTATATTTATATGTTGCATTGCTTTGAATATTT
391 GTGATCACATTACATTGAATATTATTACTCATTTATATTTATATGTTGCATTGCTTTGAATATTT
6117361 ATATGATTAACACACTAATTGTATACTTAGCATGTGATGATTTTCACGCATAGAAAAAAAGAATA
456 ATATGATTAACACACTAATTGTATACTTAGCATGTGATGATTTTCACGCATAGAAAAAAAGAATA
6117426 AAAGGAGTAAGGAGCTAAGTTTGGCATCAATCACCAAGAAAATATTTATAGGTAACAATGATGAC
521 AAAGGAGTAAGGAGCTAAGTTTGGCATCAATCACCAAGAAAATATTTATAGGTAACAATGATGAC
6117491 ATCCTACTGTGTTCTAAAAGTTCTAGTTGGCATGTGTATGAGAATGAAATGTCTGCAATTTCTTA
586 ATCCTACTGTGTTCTAAAAGTTCTAGTTGGCATGTGTATGAGAATGAAATGTCTGCAATTTCTTA
6117556 ATATAGTTAGTATTAAATATAATTAATAGTATGAATATATATTATGATATTAAATTATGCTTAGC
651 ATATAGTTAGTATTAAATATAATTAATAGTATGAATATATATTATGATATTAAATTATGCTTAGC
6117621 AAAGATTAATTTGGGTTTTAAATCAAATGTGGTGGACAATAGTATTTATTTTATGAAACAGAATA
716 AAAGATTAATTTGGGTTTTAAATCAAATGTGGTGGACAATAGTATTTATTTTATGAAACAGAATA
6117686 TAATTGTCTATCACTACTTGAGACTGGTTTTAAATTATTAACCAGAAATATTATATTATGATTTT
781 TAATTGTCTATCACTACTTGAGACTGGTTTTAAATTATTAACCAGAAATATTATATTATGATTTT
6117751 TCTATAAATAAATACTTTATAATAATTATTCAAGTTATGAAACTAGAGATGTTTGAATGAAACAA
846 TCTATAAATAAATACTTTATAATAATTATTCAAGTTATGAAACTAGAGATGTTTGAATGAAACAA
6117816 AATTTTATTAATGGCAAAATGGACTTTGGAAAGATGAAAAGTT
911 AATTTTATTAATGGCAAAATGGACTTTGGAAAGATGAAAAGTT
6117859 ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
1 ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
6117924 AATATAGTCTAGATGCCCAAGTAATTCATTGAGTAACAAGGTATAGTTGCCATGCCATAGAGTCT
66 AATATAGTCTAGATGCCCAAGTAATTCATTGAGTAACAAGGTATAGTTGCCATGCCATAGAGTCT
6117989 AGCAGTAGCTGCATATCGATTAAGCACTTTGGTGAATATGGTTGGTACAACCTTATGTGTAAGCA
131 AGCAGTAGCTGCATATCGATTAAGCACTTTGGTGAATATGGTTGGTACAACCTTATGTGTAAGCA
6118054 CTACGGTGCATATATTTGACTCGAATACCCAGGGTTCTCAGGGTTTAAATTGGGATATGGTTTAT
196 CTACGGTGCATATATTTGACTCGAATACCCAGGGTTCTCAGGGTTTAAATTGGGATATGGTTTAT
6118119 TGGTTACTAAATGATAGACAGGCAAATAAGCTTACGAGCTTATGGGATAAATGGAAATTATATTG
261 TGGTTACTAAATGATAGACAGGCAAATAAGCTTACGAGCTTATGGGATAAATGGAAATTATATTG
6118184 GTAAGAAACTTTATATTTGGTTATATTATGTTAAATTTTGGTAACATGGTTGGATTGCAGGTAAA
326 GTAAGAAACTTTATATTTGGTTATATTATGTTAAATTTTGGTAACATGGTTGGATTGCAGGTAAA
6118249 GTGATCACATTACATTGAATATTATTACTCATTTATATTTATATGTTGCATTGCTTTGAATATTT
391 GTGATCACATTACATTGAATATTATTACTCATTTATATTTATATGTTGCATTGCTTTGAATATTT
6118314 ATATGATTAACACACTAATTGTATACTTAGCATGTGATGATTTTCACGCATAGAAAAAAAGAATA
456 ATATGATTAACACACTAATTGTATACTTAGCATGTGATGATTTTCACGCATAGAAAAAAAGAATA
6118379 AAAGGAGTAAGGAGCTAAGTTTGGCATCAATCACCAAGAAAATATTTATAGGTAACAATGATGAC
521 AAAGGAGTAAGGAGCTAAGTTTGGCATCAATCACCAAGAAAATATTTATAGGTAACAATGATGAC
6118444 ATCCTACTGTGTTCTAAAAGTTCTAGTTGGCATGTGTATGAGAATGAAATGTCTGCAATTTCTTA
586 ATCCTACTGTGTTCTAAAAGTTCTAGTTGGCATGTGTATGAGAATGAAATGTCTGCAATTTCTTA
6118509 ATATAGTTAGTATTAAATATAATTAATAGTATGAATATATATTATGATATTAAATTATGCTTAGC
651 ATATAGTTAGTATTAAATATAATTAATAGTATGAATATATATTATGATATTAAATTATGCTTAGC
6118574 AAAGATTAATTTGGGTTTTAAATCAAATGTGGTGGACAATAGTATTTATTTTATGAAACAGAATA
716 AAAGATTAATTTGGGTTTTAAATCAAATGTGGTGGACAATAGTATTTATTTTATGAAACAGAATA
6118639 TAATTGTCTATCACTACTTGAGACTGGTTTTAAATTATTAACCAGAAATATTATATTATGATTTT
781 TAATTGTCTATCACTACTTGAGACTGGTTTTAAATTATTAACCAGAAATATTATATTATGATTTT
6118704 TCTATAAATAAATACTTTATAATAATTATTCAAGTTATGAAACTAGAGATGTTTGAATGAAACAA
846 TCTATAAATAAATACTTTATAATAATTATTCAAGTTATGAAACTAGAGATGTTTGAATGAAACAA
6118769 AATTTTATTAATGGCAAAATGGACTTTGGAAAGATGAAAAGTT
911 AATTTTATTAATGGCAAAATGGACTTTGGAAAGATGAAAAGTT
6118812 ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
1 ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
* * *
6118877 AATATAGTCTAGATGCCCAAGTAATTCATTGAGTGAC-AGGTTATAGTTGGCATGACATAGAGTC
66 AATATAGTCTAGATGCCCAAGTAATTCATTGAGTAACAAGG-TATAGTTGCCATGCCATAGAGTC
* * * * * * * *
6118941 TAACAGTAGTTGCATATCAATTAAACACTTCGGT-ACATATGGTGGGCAC-GCCTTTATGTGTAT
130 TAGCAGTAGCTGCATATCGATTAAGCACTTTGGTGA-ATATGGTTGGTACAACC-TTATGTGTA-
* *
6119004 TGCACTTCGGTGCATAT
192 AGCACTACGGTGCATAT
6119021 GGTGGGCAAG
Statistics
Matches: 1133, Mismatches: 25, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
952 6 0.01
953 1112 0.98
954 15 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (953 bp):
ATGATATTTCGGGCATCAACTACCCGATGTTAAATTATGATAATATACTTTGCCATGGATTGCAA
AATATAGTCTAGATGCCCAAGTAATTCATTGAGTAACAAGGTATAGTTGCCATGCCATAGAGTCT
AGCAGTAGCTGCATATCGATTAAGCACTTTGGTGAATATGGTTGGTACAACCTTATGTGTAAGCA
CTACGGTGCATATATTTGACTCGAATACCCAGGGTTCTCAGGGTTTAAATTGGGATATGGTTTAT
TGGTTACTAAATGATAGACAGGCAAATAAGCTTACGAGCTTATGGGATAAATGGAAATTATATTG
GTAAGAAACTTTATATTTGGTTATATTATGTTAAATTTTGGTAACATGGTTGGATTGCAGGTAAA
GTGATCACATTACATTGAATATTATTACTCATTTATATTTATATGTTGCATTGCTTTGAATATTT
ATATGATTAACACACTAATTGTATACTTAGCATGTGATGATTTTCACGCATAGAAAAAAAGAATA
AAAGGAGTAAGGAGCTAAGTTTGGCATCAATCACCAAGAAAATATTTATAGGTAACAATGATGAC
ATCCTACTGTGTTCTAAAAGTTCTAGTTGGCATGTGTATGAGAATGAAATGTCTGCAATTTCTTA
ATATAGTTAGTATTAAATATAATTAATAGTATGAATATATATTATGATATTAAATTATGCTTAGC
AAAGATTAATTTGGGTTTTAAATCAAATGTGGTGGACAATAGTATTTATTTTATGAAACAGAATA
TAATTGTCTATCACTACTTGAGACTGGTTTTAAATTATTAACCAGAAATATTATATTATGATTTT
TCTATAAATAAATACTTTATAATAATTATTCAAGTTATGAAACTAGAGATGTTTGAATGAAACAA
AATTTTATTAATGGCAAAATGGACTTTGGAAAGATGAAAAGTT
Found at i:6119010 original size:40 final size:40
Alignment explanation
Indices: 6118966--6119099 Score: 173
Period size: 40 Copynumber: 3.4 Consensus size: 40
6118956 ATCAATTAAA
* * *
6118966 CACTTCGGTACATATGGTGGGCACG-CCTTTATGTGTATTG
1 CACTTCGGTGCATATGGTGGGCAAGACC-TTATGTGTAATG
6119006 CACTTCGGTGCATATGGTGGGCAAGACCTTATGTGTAATG
1 CACTTCGGTGCATATGGTGGGCAAGACCTTATGTGTAATG
* * * *
6119046 CACTTCGATGCATATCGTGGGCATGACCTTATGTGTAA-A
1 CACTTCGGTGCATATGGTGGGCAAGACCTTATGTGTAATG
*
6119085 CACTACGGTGCATAT
1 CACTTCGGTGCATAT
6119100 ATTTTACTCG
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.15
40 69 0.82
41 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
CACTTCGGTGCATATGGTGGGCAAGACCTTATGTGTAATG
Found at i:6121323 original size:81 final size:81
Alignment explanation
Indices: 6121203--6121748 Score: 734
Period size: 81 Copynumber: 6.7 Consensus size: 81
6121193 TATAAATCCT
* * * * * * * *
6121203 TTAATATTTTACCCAAAGGCATTTAGCCATTCATCTAACTTGCATGATTGACACCTTTCTGTCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
*
6121268 ATGCATAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
6121284 TTAATCTTTTACTCAAAGGTATTTAATCTTTCATGTAACTAACATTATTGACATCTTTTTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
*
6121349 ATGCACAGCTAGGTCA
66 ATGCACAGCTAGGCCA
* * * *
6121365 TTAGTCTTTTACTTAAAGGTATTTAACCTTTCATTTAACTGGCATTATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
6121430 ATGCACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
** * * *
6121446 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTATTTGGTATTATTGACACCTTTCTTCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
*
6121511 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * * *
6121527 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATGTAACTAGCATCATTGAAACATTTCTCCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
*
6121592 ATGCACAGCTAAGCCA
66 ATGCACAGCTAGGCCA
* *
6121608 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
*
6121673 ATGAACAGCTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
6121689 CTAATCTTTTACTCAAATGTATTTAACCTTTCATCTAACT-GATATTATTAACACCTTTCT
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAG-CATTATTGACACCTTTCT
6121749 TAAGCTTACA
Statistics
Matches: 408, Mismatches: 56, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 1 0.00
81 407 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATTATTGACACCTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:6125820 original size:81 final size:81
Alignment explanation
Indices: 6125722--6126423 Score: 994
Period size: 81 Copynumber: 8.7 Consensus size: 81
6125712 TATAAATCCT
* * * * * *
6125722 TTAATATTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
*
6125787 ATGCATAGCTAGGCCA
66 ATGCACAGCTAGGCCA
*
6125803 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
* * *
6125868 ATGCATAGCTGGGACA
66 ATGCACAGCTAGGCCA
* * * *
6125884 TTAATCTTTT-CTTTGAAAGGTACTTAACATTTCATCTAACTGGCATTATTGACACCTTTTTGCC
1 TTAATCTTTTAC--TCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCC
6125948 AAATGCACAGCTAGGCCA
64 AAATGCACAGCTAGGCCA
* * *
6125966 TTAATCTTTTACTCAAAGGTATTTATCCTTTCACCTAACTGGCATTATTGACACGTTTCTAG-CA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCT-GCCA
* *
6126030 AATACACATCTAGGCCA
65 AATGCACAGCTAGGCCA
* * *
6126047 TTAATCGTTTACTCAAAGGTATTTAACCTTTCATCTAATTTGCATTATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
*
6126112 ATGCACAGCTAGGACA
66 ATGCACAGCTAGGCCA
* * *
6126128 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCACTATTGACACATTTTTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
*
6126193 ATGCACAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * *
6126209 TTAATCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATTATTGACACATTTTTGCCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
* *
6126274 ATGCATAACTAGGCCA
66 ATGCACAGCTAGGCCA
* * * *
6126290 TTAATCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATTATTGATACATTTCTACCAA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
* *
6126355 ATGCACAACTAGGGCA
66 ATGCACAGCTAGGCCA
* *
6126371 TTAATCTTGTACTCAAAGGTAATTAACCTTTCATCTAACTGGCATTATTGACA
1 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACA
6126424 TATTTCTTAA
Statistics
Matches: 561, Mismatches: 55, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
80 2 0.00
81 486 0.87
82 72 0.13
83 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATTATTGACACCTTTCTGCCAA
ATGCACAGCTAGGCCA
Found at i:6131947 original size:40 final size:40
Alignment explanation
Indices: 6131892--6132015 Score: 162
Period size: 40 Copynumber: 3.1 Consensus size: 40
6131882 TATCGATTAA
6131892 GCACTTTGGTGCATAT-GTAGGGCACGACCTTATGTGTAAT
1 GCACTTTGGTGCATATGGT-GGGCACGACCTTATGTGTAAT
* * * * *
6131932 GCACTTCGGTCCATATGGTGAGCTCAACCTTATGTGTAAT
1 GCACTTTGGTGCATATGGTGGGCACGACCTTATGTGTAAT
* *
6131972 GCACTTTAGTGCATATGGTGGGTACGACCTTATGTGTAA-
1 GCACTTTGGTGCATATGGTGGGCACGACCTTATGTGTAAT
6132011 GCACT
1 GCACT
6132016 ACAGTGCATA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 5 0.07
40 64 0.90
41 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (40 bp):
GCACTTTGGTGCATATGGTGGGCACGACCTTATGTGTAAT
Found at i:6132806 original size:29 final size:29
Alignment explanation
Indices: 6132761--6132818 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
6132751 TAAATTTCTG
* * *
6132761 ATGTGACATTTGTAACTTGTATTGGTTCA
1 ATGTGACATATGCAACTCGTATTGGTTCA
6132790 ATGTGACATATGCAACTCGTATTGGTTCA
1 ATGTGACATATGCAACTCGTATTGGTTCA
6132819 CGTATATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (29 bp):
ATGTGACATATGCAACTCGTATTGGTTCA
Found at i:6141597 original size:23 final size:22
Alignment explanation
Indices: 6141566--6141613 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
6141556 GCTCAATAGA
* *
6141566 ATTTATTTTATATTTTTATTAT
1 ATTTATTTTAAATTTTAATTAT
*
6141588 ATTTAATTTTAAATTTTAATTTT
1 ATTT-ATTTTAAATTTTAATTAT
6141611 ATT
1 ATT
6141614 AAATCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTATTTTAAATTTTAATTAT
Found at i:6146796 original size:21 final size:21
Alignment explanation
Indices: 6146772--6146832 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
6146762 GGCAACCAAC
6146772 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
**
6146793 TTTGGTAAATG--TTTC----
1 TTTGAAAAATGTTTTTCAAAG
6146808 TTTGAAAAATGTTTTTCAAAG
1 TTTGAAAAATGTTTTTCAAAG
6146829 TTTG
1 TTTG
6146833 GTAGATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 9 0.30
17 4 0.13
19 4 0.13
21 13 0.43
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (21 bp):
TTTGAAAAATGTTTTTCAAAG
Found at i:6146818 original size:36 final size:36
Alignment explanation
Indices: 6146771--6146850 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
6146761 TGGCAACCAA
6146771 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
6146807 CTTTGAAAAATGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
6146843 -GTTGAAAA
1 CTTTGAAAA
6146851 TAGGAATGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:6147277 original size:16 final size:16
Alignment explanation
Indices: 6147256--6147296 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
6147246 TACTATTCAT
6147256 GTGAATAGTGAATTTC
1 GTGAATAGTGAATTTC
6147272 GTGAATAGTGAATTTC
1 GTGAATAGTGAATTTC
6147288 GTGAATAGT
1 GTGAATAGT
6147297 AAAAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (16 bp):
GTGAATAGTGAATTTC
Found at i:6155474 original size:16 final size:16
Alignment explanation
Indices: 6155453--6155484 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6155443 AAAATTATTT
6155453 TTGTCACTTTTGAAAA
1 TTGTCACTTTTGAAAA
6155469 TTGTCACTTTTGAAAA
1 TTGTCACTTTTGAAAA
6155485 GAGTAATTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTGTCACTTTTGAAAA
Found at i:6155779 original size:42 final size:42
Alignment explanation
Indices: 6155726--6155807 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
6155716 GACGAAAATA
*
6155726 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGATGATAATTGT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGT
* *
6155768 TTTTGTTACTAGTCTTATTTGGTGATTTGTGACGATAATT
1 TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATT
6155808 ATTTGTCACC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.07, G:0.22, T:0.51
Consensus pattern (42 bp):
TTTTGTCACTAGTCTTAGTTGGTGATTTGTGACGATAATTGT
Found at i:6156267 original size:29 final size:29
Alignment explanation
Indices: 6156234--6156297 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
6156224 TATATAATTG
6156234 TGACACAAATTTCATCATCACAAAAATGT
1 TGACACAAATTTCATCATCACAAAAATGT
*
6156263 TGACACAAATTTCATCATCACAAAAATTT
1 TGACACAAATTTCATCATCACAAAAATGT
6156292 TGACAC
1 TGACAC
6156298 TATGAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (29 bp):
TGACACAAATTTCATCATCACAAAAATGT
Found at i:6156291 original size:17 final size:17
Alignment explanation
Indices: 6156240--6156291 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
6156230 ATTGTGACAC
6156240 AAATTTCATCATCACAA
1 AAATTTCATCATCACAA
* *
6156257 AAATGT--TGA-CAC--
1 AAATTTCATCATCACAA
6156269 AAATTTCATCATCACAA
1 AAATTTCATCATCACAA
6156286 AAATTT
1 AAATTT
6156292 TGACACTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 5 0.19
14 5 0.19
15 5 0.19
17 11 0.42
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (17 bp):
AAATTTCATCATCACAA
Found at i:6157048 original size:3 final size:3
Alignment explanation
Indices: 6157042--6157080 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6157032 AAAATTATTA
6157042 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6157081 TGAGATTATA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6157962 original size:106 final size:107
Alignment explanation
Indices: 6157760--6157955 Score: 259
Period size: 106 Copynumber: 1.8 Consensus size: 107
6157750 TAATAGTATC
* *
6157760 GAACATTTGGTCACTAAAAAAAACACTTAGTGTGACAATATTGGTGGTCACAAAATATACTTTCA
1 GAACATTTGGTCACTAAAAAAAACACTTAGTGTGACAATATTGATGGCCACAAAATATACTTTCA
* * * * *
6157825 GTGTCCAACACATTTATTACAATTTCTATTGACAGTAATATT
66 ATGTCAAACAAATTCATCACAATTTCTATTGACAGTAATATT
* * * * * * *
6157867 GAACATTTGGTCACT-ATAACAATACTTAGTGTGACAATATTTATGGCCACACAATATATTTTTA
1 GAACATTTGGTCACTAAAAAAAACACTTAGTGTGACAATATTGATGGCCACAAAATATACTTTCA
6157931 ATGTCAAACAAATTCATCACAATTT
66 ATGTCAAACAAATTCATCACAATTT
6157956 ACATTGATAA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
106 60 0.80
107 15 0.20
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (107 bp):
GAACATTTGGTCACTAAAAAAAACACTTAGTGTGACAATATTGATGGCCACAAAATATACTTTCA
ATGTCAAACAAATTCATCACAATTTCTATTGACAGTAATATT
Found at i:6160826 original size:19 final size:19
Alignment explanation
Indices: 6160790--6160826 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6160780 TGAAAATGAT
*
6160790 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
6160809 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
6160827 ATGAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:6168323 original size:22 final size:22
Alignment explanation
Indices: 6168293--6168376 Score: 109
Period size: 22 Copynumber: 3.9 Consensus size: 22
6168283 CTGTTCATCA
6168293 AGTACCGATATTGTTCTTGCTC
1 AGTACCGATATTGTTCTTGCTC
* *
6168315 AGTATCGATATTGTTCTTGCTT
1 AGTACCGATATTGTTCTTGCTC
* *
6168337 AGTATCGATATTGTTCAT-C-C
1 AGTACCGATATTGTTCTTGCTC
*
6168357 AGTACCGATACTGTTCTTGC
1 AGTACCGATATTGTTCTTGC
6168377 AGCCTTGATA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.28
21 2 0.04
22 37 0.69
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (22 bp):
AGTACCGATATTGTTCTTGCTC
Found at i:6168366 original size:42 final size:44
Alignment explanation
Indices: 6168293--6168376 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 44
6168283 CTGTTCATCA
* * *
6168293 AGTACCGATATTGTTCTTGCTCAGTATCGATATTGTTCTTGCTT
1 AGTACCGATATTGTTCATGCTCAGTACCGATACTGTTCTTGCTT
*
6168337 AGTATCGATATTGTTCAT-C-CAGTACCGATACTGTTCTTGC
1 AGTACCGATATTGTTCATGCTCAGTACCGATACTGTTCTTGC
6168377 AGCCTTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 19 0.53
43 1 0.03
44 16 0.44
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (44 bp):
AGTACCGATATTGTTCATGCTCAGTACCGATACTGTTCTTGCTT
Found at i:6171040 original size:21 final size:24
Alignment explanation
Indices: 6170985--6171044 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 24
6170975 TACCATATAC
*
6170985 GGTATCGATACTACTTAGTGTAGT
1 GGTATTGATACTACTTAGTGTAGT
*
6171009 AGTACTT-ATACT-CTTAGT-TA-T
1 GGTA-TTGATACTACTTAGTGTAGT
6171030 GGTATTGATACTACT
1 GGTATTGATACTACT
6171045 CCTTTTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.07
21 9 0.30
22 4 0.13
23 6 0.20
24 8 0.27
25 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (24 bp):
GGTATTGATACTACTTAGTGTAGT
Found at i:6175289 original size:62 final size:63
Alignment explanation
Indices: 6175202--6175324 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 63
6175192 ACCTAAGGGA
* * *
6175202 ACATATTAGGGCCTGAGAGCCTACCCAAGAAAG-TTTCAGGGCCATGGGGCCTACCTAAGAAT
1 ACATATTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCATAGAGCCTACCTAAGAAT
* * * * *
6175264 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATGATCTCAGGGCCGTAGAGCCTACCTAAGA
1 ACATATTAGGGCCTG-AGAGCCTACCCAAGAAAGATCTCAGGGCCATAGAGCCTACCTAAGA
6175325 TTTACATTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
61 1 0.02
62 27 0.53
63 23 0.45
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATATTAGGGCCTGAGAGCCTACCCAAGAAAGATCTCAGGGCCATAGAGCCTACCTAAGAAT
Found at i:6175317 original size:31 final size:31
Alignment explanation
Indices: 6175209--6175324 Score: 92
Period size: 31 Copynumber: 3.7 Consensus size: 31
6175199 GGAACATATT
* *
6175209 AGGGCC-TGAGAGCCTACCCAAGAAAG-TTTC
1 AGGGCCGT-AGAGCCTACCCAAGAATGATCTC
* * * * * *
6175239 AGGGCCATGGGGCCTACCTAAGAATACATCTT
1 AGGGCCGTAGAGCCTACCCAAGAAT-GATCTC
* * *
6175271 AGGGCCGCAGGGCCTACCCGAGAATGATCTC
1 AGGGCCGTAGAGCCTACCCAAGAATGATCTC
*
6175302 AGGGCCGTAGAGCCTACCTAAGA
1 AGGGCCGTAGAGCCTACCCAAGA
6175325 TTTACATTAG
Statistics
Matches: 65, Mismatches: 18, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
30 19 0.29
31 24 0.37
32 22 0.34
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (31 bp):
AGGGCCGTAGAGCCTACCCAAGAATGATCTC
Found at i:6184107 original size:18 final size:18
Alignment explanation
Indices: 6184084--6184118 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6184074 TTCTCTTTCT
6184084 CTTCTTCATCTCCCTCTC
1 CTTCTTCATCTCCCTCTC
* *
6184102 CTTCTTCCTCTTCCTCT
1 CTTCTTCATCTCCCTCT
6184119 TCCTCTGCTT
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:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (18 bp):
CTTCTTCATCTCCCTCTC
Found at i:6184123 original size:24 final size:24
Alignment explanation
Indices: 6184086--6184135 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6184076 CTCTTTCTCT
6184086 TCTTCATCTCCCTCTCCTTCTTCC
1 TCTTCATCTCCCTCTCCTTCTTCC
* * *
6184110 TCTTCCTCTTCCTCTGCTTCTTCC
1 TCTTCATCTCCCTCTCCTTCTTCC
6184134 TC
1 TC
6184136 CGCCTTGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.48, G:0.02, T:0.48
Consensus pattern (24 bp):
TCTTCATCTCCCTCTCCTTCTTCC
Found at i:6184153 original size:24 final size:24
Alignment explanation
Indices: 6184097--6184158 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
6184087 CTTCATCTCC
**
6184097 CTCTC-CTTCTTCCTCTTCCTCTT
1 CTCTCTCTTCTTCCTCCGCCTCTT
6184120 C-CTCTGCTTCTTCCTCCGCCT-TGT
1 CTCTCT-CTTCTTCCTCCGCCTCT-T
6184144 CTCTCTCTTCTTCCT
1 CTCTCTCTTCTTCCT
6184159 TCTCCATGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 3 0.09
23 2 0.06
24 24 0.73
25 4 0.12
ACGTcount: A:0.00, C:0.47, G:0.05, T:0.48
Consensus pattern (24 bp):
CTCTCTCTTCTTCCTCCGCCTCTT
Found at i:6184730 original size:155 final size:155
Alignment explanation
Indices: 6184448--6184754 Score: 596
Period size: 155 Copynumber: 2.0 Consensus size: 155
6184438 GAGGAAAAAC
6184448 CCATCTCTGGATTCTCTTAGCACCGCTTCCAAATCTGTTTAATTGTTCAGGAAAGTGGATTCGGG
1 CCATCTCTGGATTCTCTTAGCACCGCTTCCAAATCTGTTTAATTGTTCAGGAAAGTGGATTCGGG
*
6184513 TCGGGTTCGTGGAGGGAGAGGCAATGGGGAACGCATGATAAGAGAGCTGAGATTGCCTTCGTTGG
66 TCGGGTTCGTGGAGGGAGAGGCAATGGGGAACGCAGGATAAGAGAGCTGAGATTGCCTTCGTTGG
6184578 ATTTCAGGAATGCTCCTTTGAAGAT
131 ATTTCAGGAATGCTCCTTTGAAGAT
*
6184603 CCATCTCTGGATTCTCTTAGCACCGCTTCCAAATCTGTTTACTTGTTCAGGAAAGTGGATTCGGG
1 CCATCTCTGGATTCTCTTAGCACCGCTTCCAAATCTGTTTAATTGTTCAGGAAAGTGGATTCGGG
6184668 TCGGGTTCGTGGAGGGAGAGGCAATGGGGAACGCAGGATAAGAGAGCTGAGATTGCCTTCGTTGG
66 TCGGGTTCGTGGAGGGAGAGGCAATGGGGAACGCAGGATAAGAGAGCTGAGATTGCCTTCGTTGG
6184733 ATTTCAGGAATGCTCCTTTGAA
131 ATTTCAGGAATGCTCCTTTGAA
6184755 ACTTTTGCAG
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 150 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (155 bp):
CCATCTCTGGATTCTCTTAGCACCGCTTCCAAATCTGTTTAATTGTTCAGGAAAGTGGATTCGGG
TCGGGTTCGTGGAGGGAGAGGCAATGGGGAACGCAGGATAAGAGAGCTGAGATTGCCTTCGTTGG
ATTTCAGGAATGCTCCTTTGAAGAT
Found at i:6185673 original size:191 final size:192
Alignment explanation
Indices: 6185349--6185730 Score: 685
Period size: 191 Copynumber: 2.0 Consensus size: 192
6185339 GAAATTGCTG
*
6185349 TATATATGGAAACGGAAACACTTGATTACCCCTTAGTACATCAATGAGTTGAGAAATACTTGTGT
1 TATATATGGAAACGGAAACACTTAATTACCCCTTAGTACATCAATGAGTTGAGAAATACTTGTGT
* *
6185414 GCTTGGAACTTTAGCAAGGCAAACCATGCAGATTTAGGCTGGAAATATCTTATTTGTATTCCTAA
66 GCTTGGAACTTTAGCAAGGCAAACCATGCAGATTTAGGCTGGAAATATCTTATTTATATGCCTAA
*
6185479 GCCGGTGTCTGCAGGTATAGTTCTTGCATCATGTGAGGAAATG-CATATTAGTTTCCTTGTA
131 GCCGGTGTCTGCAGGTATAGTTCTTGCATCATGCGAGGAAATGCCATATTAGTTTCCTTGTA
* *
6185540 TATATATGGAAACGGAAACACTTAATTATCCCTTAGTACATCAATGAGTTGAGAGATACTTGTGT
1 TATATATGGAAACGGAAACACTTAATTACCCCTTAGTACATCAATGAGTTGAGAAATACTTGTGT
*
6185605 GCTTGGAACTTTAGCAAGGCAAACCATGCAGATTTAGGCTGGAAGTATCTTATTTATATGCCTAA
66 GCTTGGAACTTTAGCAAGGCAAACCATGCAGATTTAGGCTGGAAATATCTTATTTATATGCCTAA
*
6185670 GCCGGTGTCTGCTGGTATAGTTCTTGCATCATGCGAGGAAATGCCATATTAGTTTCCTTGT
131 GCCGGTGTCTGCAGGTATAGTTCTTGCATCATGCGAGGAAATGCCATATTAGTTTCCTTGT
6185731 GGACTTGGGA
Statistics
Matches: 182, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
191 165 0.91
192 17 0.09
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (192 bp):
TATATATGGAAACGGAAACACTTAATTACCCCTTAGTACATCAATGAGTTGAGAAATACTTGTGT
GCTTGGAACTTTAGCAAGGCAAACCATGCAGATTTAGGCTGGAAATATCTTATTTATATGCCTAA
GCCGGTGTCTGCAGGTATAGTTCTTGCATCATGCGAGGAAATGCCATATTAGTTTCCTTGTA
Found at i:6199090 original size:21 final size:21
Alignment explanation
Indices: 6199064--6199106 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6199054 TGAAAGAATG
6199064 GAAGGGCATTATGGTCTTTTA
1 GAAGGGCATTATGGTCTTTTA
6199085 GAAGGGCATTATGGTCTTTTA
1 GAAGGGCATTATGGTCTTTTA
6199106 G
1 G
6199107 CAGGAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (21 bp):
GAAGGGCATTATGGTCTTTTA
Found at i:6199782 original size:20 final size:20
Alignment explanation
Indices: 6199737--6199785 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
6199727 CGATTAACAT
6199737 TATCGATATTGATTGAAGTAG
1 TATCGATATTGATTGAAG-AG
*
6199758 TATCGATATTGATGTGGAG-G
1 TATCGATATTGAT-TGAAGAG
6199778 TATCGATA
1 TATCGATA
6199786 CCAAGAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (20 bp):
TATCGATATTGATTGAAGAG
Found at i:6203200 original size:19 final size:19
Alignment explanation
Indices: 6203176--6203221 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
6203166 CGAGTAAAAT
6203176 ACCTGCACCGTAGGGATAA
1 ACCTGCACCGTAGGGATAA
6203195 ACCTGCACCGTAGGGATAA
1 ACCTGCACCGTAGGGATAA
6203214 ACCTGCAC
1 ACCTGCAC
6203222 TAAGCTTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.15
Consensus pattern (19 bp):
ACCTGCACCGTAGGGATAA
Found at i:6209202 original size:3 final size:3
Alignment explanation
Indices: 6209194--6209237 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6209184 TGGTTCTCTA
6209194 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6209238 ATCTTCCCCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6209821 original size:20 final size:20
Alignment explanation
Indices: 6209776--6209824 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
6209766 CGATGAACAA
6209776 TATCGATACTGATTGAAGTAG
1 TATCGATACTGATTGAAG-AG
*
6209797 TATCGATACTGATGTGGAG-G
1 TATCGATACTGAT-TGAAGAG
6209817 TATCGATA
1 TATCGATA
6209825 TCAAGAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (20 bp):
TATCGATACTGATTGAAGAG
Found at i:6210289 original size:11 final size:11
Alignment explanation
Indices: 6210273--6210316 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
6210263 AAATTAGGAT
6210273 GAATTTGAAAA
1 GAATTTGAAAA
6210284 GAATTTGAAAA
1 GAATTTGAAAA
6210295 GAATTTGAAAA
1 GAATTTGAAAA
6210306 GAATTTGAAAA
1 GAATTTGAAAA
6210317 TAATAATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (11 bp):
GAATTTGAAAA
Found at i:6212407 original size:30 final size:30
Alignment explanation
Indices: 6212372--6212441 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
6212362 ATATATGAAA
6212372 CATTATTCAAAACATTAAAAGTAATGTATT
1 CATTATTCAAAACATTAAAAGTAATGTATT
6212402 CATTATTCAAAACATTAAAAGTAATGTATT
1 CATTATTCAAAACATTAAAAGTAATGTATT
*
6212432 CATCATTCAA
1 CATTATTCAA
6212442 GTGCATAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.36
Consensus pattern (30 bp):
CATTATTCAAAACATTAAAAGTAATGTATT
Found at i:6217630 original size:13 final size:13
Alignment explanation
Indices: 6217612--6217646 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
6217602 AAAGTTTTTC
6217612 TTTTCTTTCATTA
1 TTTTCTTTCATTA
6217625 TTTTCTTTCATTA
1 TTTTCTTTCATTA
6217638 TTTTCTTTC
1 TTTTCTTTC
6217647 CACAATGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCTTTCATTA
Found at i:6220883 original size:20 final size:19
Alignment explanation
Indices: 6220851--6220903 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
6220841 ATAAGGTAAG
*
6220851 TTTT-GAAAATCTTATAAA
1 TTTTCGAAACTCTTATAAA
* *
6220869 CTTTTCGAAACTCTTGTGAA
1 -TTTTCGAAACTCTTATAAA
*
6220889 GTTTCGAAACTCTTA
1 TTTTCGAAACTCTTA
6220904 AGTCCATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTTCGAAACTCTTATAAA
Found at i:6220961 original size:20 final size:20
Alignment explanation
Indices: 6220915--6220961 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
6220905 GTCCATTATT
*
6220915 TTAG-CAAGTTTCAAAACTC
1 TTAGTCAAGTTTCAAAACAC
* *
6220934 TTATTCAAGTTTCGAAACAC
1 TTAGTCAAGTTTCAAAACAC
*
6220954 TTGGTCAA
1 TTAGTCAA
6220962 AGCATGTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
TTAGTCAAGTTTCAAAACAC
Found at i:6225079 original size:5 final size:5
Alignment explanation
Indices: 6225069--6225093 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6225059 ATATTTTTCC
6225069 TCAAT TCAAT TCAAT TCAAT TCAAT
1 TCAAT TCAAT TCAAT TCAAT TCAAT
6225094 CAGTTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TCAAT
Found at i:6228035 original size:3 final size:3
Alignment explanation
Indices: 6228029--6228058 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6228019 TTTCCAGGTT
6228029 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6228059 GTTAATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6228888 original size:17 final size:18
Alignment explanation
Indices: 6228848--6228888 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
6228838 GAAAAATGAA
*
6228848 GAGAAGAAAACGATAGAG
1 GAGAAGAAAACGAGAGAG
*
6228866 GA-AAGAAAATGAGAG-G
1 GAGAAGAAAACGAGAGAG
6228882 GAGAAGA
1 GAGAAGA
6228889 GAAGACTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 15 0.75
18 2 0.10
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.05
Consensus pattern (18 bp):
GAGAAGAAAACGAGAGAG
Found at i:6244890 original size:36 final size:36
Alignment explanation
Indices: 6244823--6244893 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
6244813 CTTGTTATTG
* *
6244823 ATGATTATATGCATGATATACATATGTTTGCTACTC
1 ATGATTATATGCATGATATACATACGATTGCTACTC
* *
6244859 ATGATTATATTCATGATATACATGCGATTGCTACT
1 ATGATTATATGCATGATATACATACGATTGCTACT
6244894 GGTCCTTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (36 bp):
ATGATTATATGCATGATATACATACGATTGCTACTC
Found at i:6244912 original size:49 final size:49
Alignment explanation
Indices: 6244850--6244992 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 49
6244840 ATACATATGT
* * *
6244850 TTGCTACTCATGATTATATTCATGATATACATGCGATTGCTACTGGTC-C
1 TTGCTATTGATGATTATATTCATGATATACATGCGCTTGCTACTGG-CAC
*
6244899 TTGCTATTGATGATTATATTCATGATATACATGTGCTTGCTACTGGCAC
1 TTGCTATTGATGATTATATTCATGATATACATGCGCTTGCTACTGGCAC
* *
6244948 TTGCTATTGATGATTATATGCAT-ATTATACATGGGCTTGCTACTG
1 TTGCTATTGATGATTATATTCATGA-TATACATGCGCTTGCTACTG
6244993 ATGATTATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
48 2 0.02
49 84 0.98
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (49 bp):
TTGCTATTGATGATTATATTCATGATATACATGCGCTTGCTACTGGCAC
Found at i:6244987 original size:36 final size:36
Alignment explanation
Indices: 6244947--6245141 Score: 239
Period size: 36 Copynumber: 5.4 Consensus size: 36
6244937 GCTACTGGCA
* *
6244947 CTTGCTATTGATGATTATATGCAT-ATTATACATGGG
1 CTTGCTACTGATGATTATATGCATGA-TATACATGCG
* * *
6244983 CTTGCTACTGATGATTATATGCATGATACATATGGG
1 CTTGCTACTGATGATTATATGCATGATATACATGCG
* * *
6245019 CTTGTTACTGATGATTATATGCATGAAATACATACG
1 CTTGCTACTGATGATTATATGCATGATATACATGCG
* * *
6245055 CTTGATATTTATGATTATATGCATGATATACATGCG
1 CTTGCTACTGATGATTATATGCATGATATACATGCG
* * * *
6245091 CTTTCTATTAATGATTATATGCATGATATACATGAG
1 CTTGCTACTGATGATTATATGCATGATATACATGCG
6245127 CTTGCTACTGATGAT
1 CTTGCTACTGATGAT
6245142 CAATTTTGAT
Statistics
Matches: 137, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
36 136 0.99
37 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (36 bp):
CTTGCTACTGATGATTATATGCATGATATACATGCG
Found at i:6246395 original size:42 final size:42
Alignment explanation
Indices: 6246298--6246396 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
6246288 CTAAGCATAG
*
6246298 AATAATTTTTTGCCATATCAACTTTTATTAACTTACTCTTGC
1 AATAATTTTTTGCCATAGCAACTTTTATTAACTTACTCTTGC
* * ***
6246340 AATTAA-TTTTTGCCTTAGCAATTTTTATTTGTTTACTCTTGC
1 AA-TAATTTTTTGCCATAGCAACTTTTATTAACTTACTCTTGC
6246382 -ATAATTTTCTTGCCA
1 AATAATTTT-TTGCCA
6246397 CGAAAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
40 3 0.06
41 4 0.09
42 37 0.79
43 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (42 bp):
AATAATTTTTTGCCATAGCAACTTTTATTAACTTACTCTTGC
Found at i:6260155 original size:11 final size:11
Alignment explanation
Indices: 6260139--6260166 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6260129 AAGAGGTAAA
6260139 AAAATATTAAC
1 AAAATATTAAC
6260150 AAAATATTAAC
1 AAAATATTAAC
6260161 AAAATA
1 AAAATA
6260167 AAACACTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATATTAAC
Found at i:6264743 original size:20 final size:20
Alignment explanation
Indices: 6264718--6264769 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
6264708 TTTATCCCAA
6264718 TTCATCTAGTATCGATATTG
1 TTCATCTAGTATCGATATTG
6264738 TTCATCTAGTATCGATATTG
1 TTCATCTAGTATCGATATTG
6264758 TTCATCTAGTAT
1 TTCATCTAGTAT
6264770 TGGTACTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (20 bp):
TTCATCTAGTATCGATATTG
Found at i:6269247 original size:2 final size:2
Alignment explanation
Indices: 6269240--6269265 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6269230 CAATACACGT
6269240 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
6269266 ACGAGGCGGA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6271754 original size:53 final size:50
Alignment explanation
Indices: 6271678--6271799 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
6271668 GACATGGCTT
* * * *
6271678 ACACGT-GGGTATAGCGCGCCCCCTTATCCGCGCTATACGCCACGTTTATCTG
1 ACACGTGGGGTATAGCGCGGCCCCTGATCCGCACTATA--CC-CGCTTATCTG
* * * *
6271730 ACACGTGGGGTATAGCGCGGCCCCTGATCCGTATTATATCTGCTTATCTG
1 ACACGTGGGGTATAGCGCGGCCCCTGATCCGCACTATACCCGCTTATCTG
6271780 ACACGTGGGGTATAGCGCGG
1 ACACGTGGGGTATAGCGCGG
6271800 TACTTGGGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 28 0.46
51 1 0.02
52 6 0.10
53 26 0.43
ACGTcount: A:0.18, C:0.29, G:0.28, T:0.25
Consensus pattern (50 bp):
ACACGTGGGGTATAGCGCGGCCCCTGATCCGCACTATACCCGCTTATCTG
Found at i:6271891 original size:10 final size:10
Alignment explanation
Indices: 6271876--6271900 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6271866 TTCATCACAC
6271876 CAAATTCTCT
1 CAAATTCTCT
6271886 CAAATTCTCT
1 CAAATTCTCT
6271896 CAAAT
1 CAAAT
6271901 ACTATCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:6273009 original size:12 final size:12
Alignment explanation
Indices: 6272992--6273016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6272982 ATATATTCCT
6272992 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6273004 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6273016 G
1 G
6273017 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6275308 original size:19 final size:19
Alignment explanation
Indices: 6275286--6275501 Score: 240
Period size: 19 Copynumber: 12.4 Consensus size: 19
6275276 CGGAAATTAC
*
6275286 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6275305 AATC-CAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
6275318 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
6275338 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6275352 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6275371 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6275390 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6275404 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6275423 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
6275442 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
6275456 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6275475 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
6275494 AATCGCAA
1 AATCGCAA
6275502 CGAGAGAATC
Statistics
Matches: 169, Mismatches: 6, Indels: 44
0.77 0.03 0.20
Matches are distributed among these distances:
13 9 0.05
14 33 0.20
15 3 0.02
16 8 0.05
17 5 0.03
18 7 0.04
19 91 0.54
20 13 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:6275337 original size:33 final size:34
Alignment explanation
Indices: 6275286--6275501 Score: 216
Period size: 33 Copynumber: 6.2 Consensus size: 34
6275276 CGGAAATTAC
*
6275286 AATCGCAACGCGAAATGAAAATC-CAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
6275318 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
6275352 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
6275390 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
6275423 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
6275456 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
6275494 AATCGCAA
1 AATCGCAA
6275502 CGAGAGAATC
Statistics
Matches: 159, Mismatches: 7, Indels: 30
0.81 0.04 0.15
Matches are distributed among these distances:
32 10 0.06
33 86 0.54
34 19 0.12
35 7 0.04
36 4 0.03
37 3 0.02
38 30 0.19
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:6275512 original size:33 final size:33
Alignment explanation
Indices: 6275371--6275523 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
6275361 GCGAAATGAA
6275371 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
6275404 AATCGCAATGCGAAATGAAAATCGCAATGCGA-
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* * * *
6275436 AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAG
6275475 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
6275508 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
6275524 TATAAACGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 56 0.57
34 1 0.01
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:6275539 original size:52 final size:52
Alignment explanation
Indices: 6275313--6275523 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
6275303 AAAATCCAAC
6275313 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6275366 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6275418 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6275470 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
6275522 AT
1 AT
6275524 TATAAACGCA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 142 0.90
53 16 0.10
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:6275630 original size:33 final size:33
Alignment explanation
Indices: 6275530--6275647 Score: 164
Period size: 33 Copynumber: 3.4 Consensus size: 33
6275520 AAATTATAAA
6275530 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT
*
6275563 CCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 -CGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTT
6275603 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT
6275636 CGCATTGCGATT
1 CGCATTGCGATT
6275648 TTCATTTCGC
Statistics
Matches: 76, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
33 27 0.36
34 10 0.13
35 2 0.03
36 5 0.07
37 5 0.07
38 2 0.03
39 10 0.13
40 15 0.20
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (33 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTT
Found at i:6275635 original size:73 final size:71
Alignment explanation
Indices: 6275530--6275665 Score: 254
Period size: 73 Copynumber: 1.9 Consensus size: 71
6275520 AAATTATAAA
6275530 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCGCATTGCGAT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT-CGCATTGCGAT
6275595 TTTCATTT
64 TTTCATTT
6275603 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
6275666 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 11 0.17
72 19 0.30
73 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (71 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTT
TCATTT
Found at i:6275673 original size:19 final size:19
Alignment explanation
Indices: 6275548--6275665 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
6275538 GATTCTCTCG
6275548 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6275568 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6275588 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6275607 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
6275621 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6275640 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6275659 TTGCGAT
1 TTGCGAT
6275666 AGTCATTTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 36 0.40
20 35 0.38
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6275789 original size:14 final size:14
Alignment explanation
Indices: 6275770--6275806 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6275760 CATCAATTAC
6275770 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6275784 ACAAATCATCTTTT
1 ACAAATCAACTTTT
6275798 ACAAATCAA
1 ACAAATCAA
6275807 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6275889 original size:12 final size:12
Alignment explanation
Indices: 6275872--6275907 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6275862 AACTTTTACA
6275872 AATCAATTAAAC
1 AATCAATTAAAC
**
6275884 AATCAAAAAAAC
1 AATCAATTAAAC
6275896 AATCAATTAAAC
1 AATCAATTAAAC
6275908 TATTGAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:6276710 original size:14 final size:14
Alignment explanation
Indices: 6276693--6276722 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6276683 GTTTACGTTC
6276693 CAAACAGGGATAAA
1 CAAACAGGGATAAA
6276707 CAAACAGGGATAAA
1 CAAACAGGGATAAA
6276721 CA
1 CA
6276723 CCTGCAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.20, T:0.07
Consensus pattern (14 bp):
CAAACAGGGATAAA
Found at i:6277972 original size:14 final size:14
Alignment explanation
Indices: 6277953--6278009 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6277943 GCGAAATGAA
*
6277953 AATCGCAACGACAG
1 AATCGCAACGAAAG
6277967 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
6277984 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
6278000 AATCGCAACG
1 AATCGCAACG
6278010 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:6277985 original size:33 final size:33
Alignment explanation
Indices: 6277934--6278026 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
6277924 GCGAAACCAA
* *
6277934 AATCACAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
6277967 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
6278000 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
6278027 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:6277991 original size:19 final size:19
Alignment explanation
Indices: 6277897--6278031 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
6277887 TAGTTTACTT
* *
6277897 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
6277917 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
6277936 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6277955 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
6277969 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
6277988 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
6278002 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
6278021 TCGCAATGCGA
1 TCGCAACGCGA
6278032 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.17
16 11 0.12
17 11 0.12
19 45 0.47
20 12 0.13
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:6278049 original size:19 final size:19
Alignment explanation
Indices: 6278027--6278155 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
6278017 AAAATCGCAA
6278027 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6278046 TGCGA-TCT--TAT--CGT
1 TGCGATTTTGGTTTCGCGT
6278060 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6278079 TGCGATTCT-G--T-G-TT
1 TGCGATTTTGGTTTCGCGT
**
6278093 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
6278112 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
6278131 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
6278151 TGCGA
1 TGCGA
6278156 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 17 0.20
15 3 0.03
16 3 0.03
17 3 0.03
18 4 0.05
19 43 0.50
20 13 0.15
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:6278069 original size:33 final size:33
Alignment explanation
Indices: 6278027--6278118 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
6278017 AAAATCGCAA
6278027 TGCGATTTTGGTTTCGCGTTGCGA-TCTTATCG-T
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TAT-GTT
*
6278060 TGCGATTTTGGTTTCGCGTTGCGATTCTGTGTT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTATGTT
**
6278093 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
6278119 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
32 1 0.02
33 51 0.94
34 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTATGTT
Found at i:6278483 original size:93 final size:93
Alignment explanation
Indices: 6278203--6278576 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
6278193 ATGGATTGCA
6278203 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6278267 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6278295 TTACTTTCAACC-AAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6278358 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6278386 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
6278451 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6278479 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
6278544 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
6278572 TTACT
1 TTACT
6278577 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 74 0.27
92 38 0.14
93 166 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:6279006 original size:18 final size:18
Alignment explanation
Indices: 6278983--6279030 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
6278973 GGGTCGATCG
6278983 GGTGATGGCTCTAGGTGA
1 GGTGATGGCTCTAGGTGA
6279001 GGTGATGGCTCTAGGTGA
1 GGTGATGGCTCTAGGTGA
6279019 GGTGATGGCTCT
1 GGTGATGGCTCT
6279031 CGAATTGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.15, C:0.12, G:0.44, T:0.29
Consensus pattern (18 bp):
GGTGATGGCTCTAGGTGA
Found at i:6280320 original size:14 final size:14
Alignment explanation
Indices: 6280301--6280390 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
6280291 TTGAAATGAA
6280301 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6280315 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6280334 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
6280348 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6280367 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6280381 AATCGCAACG
1 AATCGCAACG
6280391 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6280333 original size:33 final size:33
Alignment explanation
Indices: 6280293--6280407 Score: 230
Period size: 33 Copynumber: 3.5 Consensus size: 33
6280283 TCTTTTGGTT
6280293 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6280326 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6280359 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6280392 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6280408 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6280339 original size:19 final size:19
Alignment explanation
Indices: 6280315--6280412 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
6280305 GCAACGAGAG
6280315 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6280334 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
6280348 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6280367 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
6280381 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6280400 AATCGCAATGCGA
1 AATCGCAACGCGA
6280413 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 32 0.50
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:6280443 original size:14 final size:14
Alignment explanation
Indices: 6280424--6280480 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
6280414 TTTGGTTTCG
6280424 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6280438 CGTTGCGATTTTCATAT
1 CGTTGCGA--TTC-TCT
6280455 CGCTTTGCGATTCTCT
1 CG--TTGCGATTCTCT
6280471 CGTTGCGATT
1 CGTTGCGATT
6280481 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6280463 original size:33 final size:33
Alignment explanation
Indices: 6280421--6280539 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 33
6280411 GATTTTGGTT
6280421 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
* *
6280454 TCGCTTTGCGATTCTCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTCTCTCGTTGCGATTTTCA--TA
*
6280489 TCTCGTTGCGACAGTCATCTCTCGTTGCGATTTTCATTTA
1 TCGCGTTGCG--A-T--TCTCTCGTTGCGATTTTCA--TA
*
6280529 TCTCGTTGCGA
1 TCGCGTTGCGA
6280540 CTCTTCTGCA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
33 30 0.41
35 9 0.12
37 1 0.01
38 2 0.03
40 32 0.43
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGATTTTCATA
Found at i:6280491 original size:21 final size:21
Alignment explanation
Indices: 6280465--6280539 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
6280455 CGCTTTGCGA
6280465 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
6280486 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
6280506 -TCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
6280526 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
6280540 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 16 0.36
21 29 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:6280525 original size:19 final size:19
Alignment explanation
Indices: 6280433--6280539 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 19
6280423 GCGTTGCGAT
6280433 TCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCA
* * *
6280452 TATCGCTTTGCGA---T--
1 TCTCTCGTTGCGATTTTCA
6280466 TCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCA
***
6280485 TTTCTCTCGTTGCGACAGTCA
1 --TCTCTCGTTGCGATTTTCA
6280506 TCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCA
*
6280525 TTTATCTCGTTGCGA
1 --TCTCTCGTTGCGA
6280540 CTCTTCTGCA
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
14 10 0.15
16 1 0.02
17 1 0.02
19 26 0.39
21 28 0.42
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (19 bp):
TCTCTCGTTGCGATTTTCA
Found at i:6280661 original size:33 final size:33
Alignment explanation
Indices: 6280619--6280689 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6280609 AATACTAACT
6280619 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
6280652 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
6280685 TGAAA
1 TGAAA
6280690 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:6280921 original size:22 final size:22
Alignment explanation
Indices: 6280869--6280923 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
6280859 TGGTTGTGAG
**
6280869 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
* **
6280891 TGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6280913 GGATTTCTTCG
1 GGATTTCTTCG
6280924 CCGTAGAGAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.38, T:0.25
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:6281238 original size:20 final size:20
Alignment explanation
Indices: 6281070--6281263 Score: 194
Period size: 20 Copynumber: 9.7 Consensus size: 20
6281060 CTTTAAATAT
6281070 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
6281090 CGCATTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
6281112 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
6281131 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
6281151 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
6281171 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6281191 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
6281211 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6281231 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
6281251 CGCGTTGCGATTT
1 CGCGTTGCGATTT
6281264 TGTAAAATCG
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
19 2 0.01
20 123 0.87
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6281257 original size:60 final size:60
Alignment explanation
Indices: 6281070--6281263 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
6281060 CTTTAAATAT
** *
6281070 CGCGTTGCGATTTACGGATACGCATTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * *
6281131 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
6281191 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
6281251 CGCGTTGCGATTT
1 CGCGTTGCGATTT
6281264 TGTAAAATCG
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
60 84 0.74
61 29 0.26
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:6281280 original size:21 final size:20
Alignment explanation
Indices: 6281230--6281327 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
6281220 ATTTATGTGT
* * * *
6281230 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
6281250 TCGCGTTGCGATTTTGTAAAA
1 TCGCATTGCGATTTTG-AAAA
* * **
6281271 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
6281291 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
6281312 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
6281328 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:6281303 original size:61 final size:60
Alignment explanation
Indices: 6281230--6281387 Score: 169
Period size: 61 Copynumber: 2.6 Consensus size: 60
6281220 ATTTATGTGT
*
6281230 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * * **
6281291 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGTAAAATGATATGCGATTCTGACGA
*
6281352 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTGT
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGT
6281388 TGGTCATTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 22 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAATGATATGCGATTCTGACGA
Found at i:6281322 original size:41 final size:41
Alignment explanation
Indices: 6281230--6281386 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
6281220 ATTTATGTGT
* * *
6281230 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGTAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
6281271 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
6281312 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
6281352 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
6281387 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:6281529 original size:17 final size:18
Alignment explanation
Indices: 6281493--6281533 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6281483 ATATTATGTA
*
6281493 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
6281511 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
6281528 TTTACT
1 TTTACT
6281534 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:6283235 original size:18 final size:18
Alignment explanation
Indices: 6283212--6283247 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6283202 ACAGCAGCCA
*
6283212 CCGCAGCCATTTATGATG
1 CCGCAGCCATATATGATG
6283230 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
6283248 TCGTCGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:6283769 original size:26 final size:24
Alignment explanation
Indices: 6283698--6283769 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
6283688 TTATATTTGT
6283698 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
6283723 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
6283745 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
6283770 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:6283837 original size:35 final size:34
Alignment explanation
Indices: 6283798--6283884 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
6283788 GTATTTCAGT
6283798 TAATTTTGTTT-A-TTACCATTTAATATCAGTTATTG
1 TAATTTTGTTTCATTTACCATTTAAT-TC--TTATTG
*
6283833 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTT-TCATTTACCATTTAATTCTTATTG
* *
6283868 TAAGTTTGTTTTATTTA
1 TAATTTTGTTTCATTTA
6283885 AAATTATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 6 0.13
35 23 0.51
36 1 0.02
37 3 0.07
38 12 0.27
ACGTcount: A:0.26, C:0.08, G:0.09, T:0.56
Consensus pattern (34 bp):
TAATTTTGTTTCATTTACCATTTAATTCTTATTG
Found at i:6286802 original size:13 final size:12
Alignment explanation
Indices: 6286769--6286802 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6286759 AATAAGCAAA
*
6286769 ATAAAAAAATTT
1 ATAACAAAATTT
6286781 ATAACAAAATTT
1 ATAACAAAATTT
6286793 ATAACGAAAA
1 ATAAC-AAAA
6286803 ATCGCACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (12 bp):
ATAACAAAATTT
Found at i:6290484 original size:307 final size:307
Alignment explanation
Indices: 6289930--6290510 Score: 791
Period size: 307 Copynumber: 1.9 Consensus size: 307
6289920 CTAATATAAC
*
6289930 TAAACCCAAAACCATGTATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATC
1 TAAACCCAAAACCATATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATC
* *
6289995 TGAAATGATAAATTTAAATCTAATACGAATGATCTGTTTGTCACCCCTACTTCTACTTAAACCTA
66 TGAAATGATAAACTTAAATCTAATACGAATGATCTGTTTGTCACCCCTACTTCTACGTAAACCTA
* * **
6290060 AAATCATTTTATAATATATACTCTTAATAAATAAAGAAAATAATTATACGTAGAAGTAGGGTTGA
131 AAATCATTTTATAAGATATACTCTTAATAAATAAAGAAAATAATTATAAGTAGAAGTAGGGGCGA
* *
6290125 CAAACGGATCATTCGAATTAGATTTAAGTTGGATCATTTCAGATCAATTTAGTTTGTGTATATAT
196 CAAACGGATCATTCGAATTAGATTTAAGTTGGAACATTTCAGATCAATTTAGTTTGTGTATAGAT
6290190 TACATTCGATTTAACGTGTTAATAGTTATACTTTAAAAGCCTATGGT
261 TACATTCGATTTAACGTGTTAATAGTTATACTTTAAAAGCCTATGGT
* *
6290237 TAAACCCTAAACCTTATATGAAC-AAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATC
1 TAAACCCAAAACCATATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATC
* * * *
6290301 TGAAATGATCCAACTTAAATCTAATTCGAATGATCTGTTTGTCATCCCTACTTCTACGTATAA-T
66 TGAAATGAT-AAACTTAAATCTAATACGAATGATCTGTTTGTCACCCCTACTTCTACGTA-AACC
*** * * * **** *
6290365 TATTTTCTTTATTTATTAAGAGTATA-TGTT-AT-AA-AATGCTTTTAGGTT-TAAGTAGAAGTA
129 TAAAATC-AT-TTTA-TAAGA-TATACTCTTAATAAATAAAGAAAATA-ATTATAAGTAGAAGTA
6290425 GGGGCGACAAACGGATCATTC-ATATTAGATTTAAGTTGGAACATTTCAGATCAATTTAGTTTGT
189 GGGGCGACAAACGGATCATTCGA-ATTAGATTTAAGTTGGAACATTTCAGATCAATTTAGTTTGT
*
6290489 GTCTAGATTACATTCGATTTAA
253 GTATAGATTACATTCGATTTAA
6290511 TTTTGTTCAT
Statistics
Matches: 239, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
306 51 0.21
307 164 0.69
308 7 0.03
309 6 0.03
310 7 0.03
311 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (307 bp):
TAAACCCAAAACCATATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATC
TGAAATGATAAACTTAAATCTAATACGAATGATCTGTTTGTCACCCCTACTTCTACGTAAACCTA
AAATCATTTTATAAGATATACTCTTAATAAATAAAGAAAATAATTATAAGTAGAAGTAGGGGCGA
CAAACGGATCATTCGAATTAGATTTAAGTTGGAACATTTCAGATCAATTTAGTTTGTGTATAGAT
TACATTCGATTTAACGTGTTAATAGTTATACTTTAAAAGCCTATGGT
Found at i:6292452 original size:16 final size:15
Alignment explanation
Indices: 6292439--6292490 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
6292429 TATTTTTTTC
6292439 CTTTTTCCTTTTTTGT
1 CTTTTT-CTTTTTTGT
6292455 CTTTTTCTTTTTGTTGT
1 CTTTTTC-TTTT-TTGT
* *
6292472 -TTTCTCTTTTTTTT
1 CTTTTTCTTTTTTGT
6292486 CTTTT
1 CTTTT
6292491 ATTTTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 3 0.10
15 8 0.27
16 15 0.50
17 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (15 bp):
CTTTTTCTTTTTTGT
Found at i:6292483 original size:24 final size:24
Alignment explanation
Indices: 6292456--6292512 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
6292446 CTTTTTTGTC
*
6292456 TTTTTCTTTT-TGTTGTTTTCTCTTT
1 TTTTTCTTTTAT-TT-TTATCTCTTT
6292481 TTTTTCTTTTATTTTTATCTCTTT
1 TTTTTCTTTTATTTTTATCTCTTT
6292505 TTTCTTCT
1 TTT-TTCT
6292513 CTTTTCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 12 0.41
25 16 0.55
26 1 0.03
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTCTTTTATTTTTATCTCTTT
Found at i:6292487 original size:11 final size:11
Alignment explanation
Indices: 6292471--6292517 Score: 58
Period size: 12 Copynumber: 4.0 Consensus size: 11
6292461 CTTTTTGTTG
6292471 TTTTCTCTTTT
1 TTTTCTCTTTT
*
6292482 TTTTCTTTTATT
1 TTTTCTCTT-TT
6292494 TTTATCTCTTTT
1 TTT-TCTCTTTT
6292506 TTCTTCTCTTTT
1 TT-TTCTCTTTT
6292518 CCTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 8 0.26
12 17 0.55
13 6 0.19
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:6292496 original size:22 final size:21
Alignment explanation
Indices: 6292471--6292535 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
6292461 CTTTTTGTTG
* *
6292471 TTTTCTCTTTTTTTTCTTTTAT
1 TTTTCTCTTTTTTTTCTTCT-C
* *
6292493 TTTTATCTCTTTTTTCTTCTC
1 TTTTCTCTTTTTTTTCTTCTC
6292514 TTTTC-CTTTTTTTTCTCTCTC
1 TTTTCTCTTTTTTTTCT-TCTC
6292535 T
1 T
6292536 CTTTTCTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 17 0.47
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTCTTTTTTTTCTTCTC
Found at i:6292539 original size:17 final size:17
Alignment explanation
Indices: 6292498--6292540 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
6292488 TTTATTTTTA
6292498 TCTCTTTTTTCTTCTCT
1 TCTCTTTTTTCTTCTCT
*
6292515 TTTCCTTTTTT-TTCTCT
1 TCT-CTTTTTTCTTCTCT
6292532 CTCTCTTTT
1 -TCTCTTTT
6292541 CTAAATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
TCTCTTTTTTCTTCTCT
Found at i:6295313 original size:28 final size:28
Alignment explanation
Indices: 6295277--6295344 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
6295267 TTAGAGAACA
*
6295277 ATGTATTGGATTGACCCACCATGAGCAT
1 ATGTCTTGGATTGACCCACCATGAGCAT
6295305 ATGTCTTGGATTGACCCACCATGAGCAT
1 ATGTCTTGGATTGACCCACCATGAGCAT
6295333 ATGTCTTGGATT
1 ATGTCTTGGATT
6295345 ATTATGTGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (28 bp):
ATGTCTTGGATTGACCCACCATGAGCAT
Found at i:6296106 original size:89 final size:89
Alignment explanation
Indices: 6295992--6296166 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 89
6295982 TAATCCCGAA
* * * * * * *
6295992 TATTTAATTTCAATTAATTAAATATATATTTGATTAATTTGAAATAATAAAATCCTAATATTATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCGAATATAATT
6296057 AGGGTAACTTGGATATAAAAGGAT
66 AGGGTAACTTGGATATAAAAGGAT
* *
6296081 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGATATAATAGAACCCGAATATAATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCGAATATAATT
*
6296146 AGGGTAACTTGGCTATAAAAG
66 AGGGTAACTTGGATATAAAAG
6296167 AGTGTGTTAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCGAATATAATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:6296874 original size:20 final size:20
Alignment explanation
Indices: 6296849--6296887 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6296839 TTGAAGGTCC
6296849 ATTTGAAGGTCCATATTAAA
1 ATTTGAAGGTCCATATTAAA
6296869 ATTTGAAGGTCCATATTAA
1 ATTTGAAGGTCCATATTAA
6296888 TTTTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTTGAAGGTCCATATTAAA
Found at i:6309710 original size:3 final size:3
Alignment explanation
Indices: 6309702--6309785 Score: 152
Period size: 3 Copynumber: 28.0 Consensus size: 3
6309692 ACCACTGCAA
6309702 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6309750 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
6309786 TGCTAAGTAG
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 74 0.94
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6314636 original size:190 final size:191
Alignment explanation
Indices: 6314313--6314700 Score: 742
Period size: 190 Copynumber: 2.0 Consensus size: 191
6314303 GGAAAATAGA
6314313 TTTAAAAGTTTAATTTATTAGGGATATTTAAGAAGAGGAAAAGGGGAAAGTTAGATAAGTTATTT
1 TTTAAAAGTTTAATTTATTAGGGATATTTAAGAAGAGGAAAAGGGGAAAGTTAGATAAGTTATTT
6314378 TCTTCTTCTCCTTCCTTCTCGTCCCATACTCTCCCCATAGCCCAAAGGTAAGATTTCTTCAAGTT
66 TCTTCTTCTCCTTCCTTCTCGTCCCATACTCTCCCCATAGCCCAAAGGTAAGATTTCTTCAAGTT
*
6314443 GGTTTTCCTTTAGTTTATGGGCTGGTATTGAAACC-CAGTGATGTGGAAGCTTAAGGAAGG
131 GGTTTTCCTTTAGTTTATGGGCTGGTATTGAAACCTAAGTGATGTGGAAGCTTAAGGAAGG
*
6314503 TTTAAAAGTTTATTTTATTAGGGATATTTAAGAAGAGGAAAAGGGGAAAGTTAGATAAGTTATTT
1 TTTAAAAGTTTAATTTATTAGGGATATTTAAGAAGAGGAAAAGGGGAAAGTTAGATAAGTTATTT
6314568 TCTTCTTCTCCTTCCTTCTCGTCCCATACTCTCCCCATAGCCCAAAGGTAAGATTTCTTCAAGTT
66 TCTTCTTCTCCTTCCTTCTCGTCCCATACTCTCCCCATAGCCCAAAGGTAAGATTTCTTCAAGTT
6314633 GGTTTTCCTTTAGTTTATGGGCTGGTATTGAAACCTTAAGTGATGTGGAAGCTTAAGGAAGG
131 GGTTTTCCTTTAGTTTATGGGCTGGTATTGAAACC-TAAGTGATGTGGAAGCTTAAGGAAGG
6314695 TTTAAA
1 TTTAAA
6314701 GAGGATTAAA
Statistics
Matches: 194, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
190 164 0.85
192 30 0.15
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (191 bp):
TTTAAAAGTTTAATTTATTAGGGATATTTAAGAAGAGGAAAAGGGGAAAGTTAGATAAGTTATTT
TCTTCTTCTCCTTCCTTCTCGTCCCATACTCTCCCCATAGCCCAAAGGTAAGATTTCTTCAAGTT
GGTTTTCCTTTAGTTTATGGGCTGGTATTGAAACCTAAGTGATGTGGAAGCTTAAGGAAGG
Found at i:6315579 original size:111 final size:112
Alignment explanation
Indices: 6315446--6315675 Score: 284
Period size: 112 Copynumber: 2.1 Consensus size: 112
6315436 GTCATAGGTG
* ** * * **
6315446 CATTTCAACATACTTTGTGTATGATAG-TATCGATCGATTTTATTTAATGCATAAAGATGCATTG
1 CATTTCGACATACTTCATGTATGAAAGTTATCGATCGATTTTACTTAACACATAAAGATGCATT-
* * *
6315510 TT-GGCATAAAAAGTGCCACCCATGGAATTCATAATGAGATTAATTAC
65 TTCAGCATAAAAAGTGCCACCCATGGAATTCATAATAAGATGAATTAC
* * *
6315557 CATTTCGACATACTTCATGTATGAAAGTTATCGATCGATTTTGCTTAACACATAACGGTGCATTT
1 CATTTCGACATACTTCATGTATGAAAGTTATCGATCGATTTTACTTAACACATAAAGATGCATTT
* * * *
6315622 TCAGCATAAAAGGTGCCACCCATGGTATTTATAATAAGGTGAATTAC
66 TCAGCATAAAAAGTGCCACCCATGGAATTCATAATAAGATGAATTAC
6315669 CATTTCG
1 CATTTCG
6315676 GTACTTCGGT
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
111 25 0.25
112 75 0.75
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (112 bp):
CATTTCGACATACTTCATGTATGAAAGTTATCGATCGATTTTACTTAACACATAAAGATGCATTT
TCAGCATAAAAAGTGCCACCCATGGAATTCATAATAAGATGAATTAC
Found at i:6317965 original size:54 final size:54
Alignment explanation
Indices: 6317834--6318358 Score: 681
Period size: 54 Copynumber: 9.7 Consensus size: 54
6317824 TTCATTACGA
* * * * * * **
6317834 TGCACACGTAGTGCCAATACGGTCATTCATAAATATATTATGAAATTTTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG-AATTCCGTGGGT
* *
6317889 TGCACACATAGTACCTATACGGTCGTTCATCAACAGATGATGAATTCCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
6317943 TACACAGATAATGCCTATACGGTCGTTCATCAACATATGATGAATTACGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
6317997 TGCACACATAGTACCTATACGGTTGTTCATCAATATATGATGAATTACGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * * **
6318051 TGCACACATAGTGCCTATACGGTCATTCGTCAATATATGATGAATTTTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
6318105 TACACACATAGTGCATATACGCTCGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* *
6318159 TGCACACATAGTGCCTATACGATCGTTCATCAATATATGATGAATTCCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * * * **
6318213 TGCACACGTAGTGCCTATACGGTCATTCATCAACATATGCTTAATTCTATGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* * *
6318267 TGCACACATAGTTCCTATGCGGTCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
* *
6318321 TACACACATAGTGCCTGTACGGTCGTTCATCAACATAT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATAT
6318359 ACCTTTAACA
Statistics
Matches: 407, Mismatches: 63, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
54 373 0.92
55 34 0.08
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:6318005 original size:27 final size:27
Alignment explanation
Indices: 6317975--6318060 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
6317965 TCGTTCATCA
6317975 ACATATGATGAATTACGTGGGTTGCAC
1 ACATATGATGAATTACGTGGGTTGCAC
* *
6318002 ACATA-G-T-ACCTATACG-GTTGTT-CATC
1 ACATATGATGA-AT-TACGTG-GGTTGCA-C
*
6318028 AATATATGATGAATTACGTGGGTTGCAC
1 -ACATATGATGAATTACGTGGGTTGCAC
6318056 ACATA
1 ACATA
6318061 GTGCCTATAC
Statistics
Matches: 43, Mismatches: 6, Indels: 20
0.62 0.09 0.29
Matches are distributed among these distances:
24 1 0.02
25 5 0.12
26 9 0.21
27 13 0.30
28 9 0.21
29 5 0.12
30 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (27 bp):
ACATATGATGAATTACGTGGGTTGCAC
Found at i:6318692 original size:22 final size:22
Alignment explanation
Indices: 6318664--6318721 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
6318654 TACCCCTACC
6318664 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
6318686 ATGGTATCGATACTTCTATACT
1 ATGGTATCGATACTTCTATACT
6318708 ATGGTATCGATACT
1 ATGGTATCGATACT
6318722 CCCTTTCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (22 bp):
ATGGTATCGATACTTCTATACT
Found at i:6322523 original size:14 final size:13
Alignment explanation
Indices: 6322473--6322524 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
6322463 TAAATAGGAA
*
6322473 ATAATTCTAAATA
1 ATAATTCTAAATG
6322486 ATAATTCTTAAGA-G
1 ATAATTC-TAA-ATG
*
6322500 ATAGTTCTAAATG
1 ATAATTCTAAATG
6322513 ATAATTCCTAAA
1 ATAATT-CTAAA
6322525 AACAATTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 1 0.03
13 16 0.50
14 14 0.44
15 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (13 bp):
ATAATTCTAAATG
Found at i:6322650 original size:12 final size:12
Alignment explanation
Indices: 6322633--6322665 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6322623 TTAGATGCAT
6322633 TCATGCCCAAGG
1 TCATGCCCAAGG
6322645 TCATGCCCAAGG
1 TCATGCCCAAGG
6322657 TCATGCCCA
1 TCATGCCCA
6322666 TTAATCTAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.18
Consensus pattern (12 bp):
TCATGCCCAAGG
Found at i:6323507 original size:25 final size:24
Alignment explanation
Indices: 6323459--6323512 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6323449 CGGCATTGCA
*
6323459 TTTTTTTGCACTGTTCGAATATGT
1 TTTTTTTGCACTGTTCGAAAATGT
6323483 TTTTTTTGCACTGTTCGAACAATGT
1 TTTTTTTGCACTGTTCGAA-AATGT
*
6323508 ATTTT
1 TTTTT
6323513 CTAATTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.54
Consensus pattern (24 bp):
TTTTTTTGCACTGTTCGAAAATGT
Found at i:6332631 original size:20 final size:19
Alignment explanation
Indices: 6332600--6332647 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
6332590 TCTTGACAAT
*
6332600 AAAAGAAAAATAAAGAAATTG
1 AAAAG-AAAATAAAGAAA-AG
6332621 AAAAGAAAATAAAGAAAAG
1 AAAAGAAAATAAAGAAAAG
6332640 AAAAGAAA
1 AAAAGAAA
6332648 GCTTTATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.35
20 12 0.46
21 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAGAAAATAAAGAAAAG
Found at i:6332639 original size:14 final size:14
Alignment explanation
Indices: 6332601--6332648 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
6332591 CTTGACAATA
6332601 AAAGAAAA-ATAAAG
1 AAAGAAAAGA-AAAG
*
6332615 AAATTGAAAAGAAAAT
1 AAA--GAAAAGAAAAG
6332631 AAAGAAAAGAAAAG
1 AAAGAAAAGAAAAG
6332645 AAAG
1 AAAG
6332649 CTTTATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 17 0.59
16 11 0.38
17 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:6333760 original size:2 final size:2
Alignment explanation
Indices: 6333753--6333786 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
6333743 AATTACTTTA
*
6333753 AT AT AT AT AT AT AT AT AT AT AT CAT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A
6333787 CATGTTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6334118 original size:10 final size:10
Alignment explanation
Indices: 6334105--6334131 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6334095 GCATTTTGAT
6334105 TCATTTCATC
1 TCATTTCATC
6334115 TCATTTCATC
1 TCATTTCATC
6334125 TCATTTC
1 TCATTTC
6334132 CTTCATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.52
Consensus pattern (10 bp):
TCATTTCATC
Found at i:6335676 original size:30 final size:30
Alignment explanation
Indices: 6335642--6335698 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
6335632 TATATATATA
6335642 TATATATATATATATATATTGCAAAATTGT
1 TATATATATATATATATATTGCAAAATTGT
6335672 TATATATATATATATATATTGCAAAAT
1 TATATATATATATATATATTGCAAAAT
6335699 ACAATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATATATATATATATATTGCAAAATTGT
Done.