Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 266 of 373
Found at i:90422031 original size:45 final size:46
Alignment explanation
Indices: 90421872--90422042 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
90421862 TGGTTGAGCA
* *
90421872 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
90421918 TCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
90421962 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
90422010 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90422043 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 2 0.02
45 39 0.37
46 42 0.40
47 7 0.07
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:90422035 original size:92 final size:92
Alignment explanation
Indices: 90421869--90422037 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
90421859 GGATGGTTGA
*
90421869 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
90421934 TGAGTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCGAGTTCGTGAGATGTAACTAG
* *
90421961 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
90422025 TGAGTCCGAGTTC
66 TGAGT-CGAGTTC
90422038 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 19 0.26
92 54 0.74
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:90424199 original size:52 final size:51
Alignment explanation
Indices: 90424079--90424257 Score: 222
Period size: 51 Copynumber: 3.5 Consensus size: 51
90424069 ACTAGTGACT
* *
90424079 CAAGTGTGGTACTATGTGAAGGCCGCTTTGAGAAG-AGATAGC-TTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATCA
*
90424128 CAAATGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGATCA
* * * * *
90424180 CAAGTGTTGTACTATGTGAAGGCCAATTTATGAAGAAGGTAGATTTGA-CTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATC-A
*
90424231 CAAG-GCTGGTACTATGTGCAGGCCACT
1 CAAGTG-TGGTACTATGTGAAGGCCACT
90424258 GGGTATCCGT
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
49 32 0.28
50 2 0.02
51 41 0.36
52 38 0.34
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGATCA
Found at i:90424248 original size:51 final size:52
Alignment explanation
Indices: 90424079--90424255 Score: 188
Period size: 52 Copynumber: 3.5 Consensus size: 52
90424069 ACTAGTGACT
** *
90424079 CAAGTGTGGTACTATGTGAAGGCC-GCTT-TG-AGAAGAGATAG-CTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAA-AGATAGATTTGATCA
* * * *
90424128 CAAATGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGATCA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATCA
* *
90424180 CAAGTGTTGTACTATGTGAAGGCCAATTTATGAAG-AAGGTAGATTTGA-CTA
1 CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATC-A
*
90424231 CAAG-GCTGGTACTATGTGCAGGCCA
1 CAAGTG-TGGTACTATGTGAAGGCCA
90424256 CTGGGTATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
49 23 0.21
50 4 0.04
51 41 0.37
52 42 0.38
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCAATTTATGAAGAAAGATAGATTTGATCA
Found at i:90427741 original size:51 final size:50
Alignment explanation
Indices: 90427686--90427784 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
90427676 CTACCACATA
* *
90427686 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTT
1 ACATG-AATCACATCC-TAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
* * *
90427737 ACATGAATCGCATCCTTATGAACTCAGACCTGTCAACAAGCTTGGATG
1 ACATGAATCACATCCTAATGAACTCAGACCTCTCAACAAGCTTGGATG
90427785 CTGGCATCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 31 0.74
51 11 0.26
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (50 bp):
ACATGAATCACATCCTAATGAACTCAGACCTCTCAACAAGCTTGGATGTT
Found at i:90429392 original size:44 final size:43
Alignment explanation
Indices: 90429312--90429414 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 43
90429302 ATGACTGAAT
* *
90429312 AAATGACACTAAGTGTGCGATATAGATATAAATTCGGTTTAATG
1 AAATGGCACTAAGTGTGCGATATAGATATAAATTCGG-CTAATG
* ** *
90429356 AAATGGCACTAAGTGTGCGATATTA-TTATAGCTTCGGCTAATT
1 AAATGGCACTAAGTGTGCGATA-TAGATATAAATTCGGCTAATG
*
90429399 AATTGGCACTAAGTGT
1 AAATGGCACTAAGTGT
90429415 ACGAGTTCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 19 0.37
44 30 0.59
45 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (43 bp):
AAATGGCACTAAGTGTGCGATATAGATATAAATTCGGCTAATG
Found at i:90435330 original size:20 final size:21
Alignment explanation
Indices: 90435305--90435344 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90435295 CACTTGAAGC
90435305 AAGGC-ACACGCCCGTGTGGA
1 AAGGCAACACGCCCGTGTGGA
*
90435325 AAGGCAACACGCTCGTGTGG
1 AAGGCAACACGCCCGTGTGG
90435345 CCACTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AAGGCAACACGCCCGTGTGGA
Found at i:90439410 original size:47 final size:47
Alignment explanation
Indices: 90439356--90439861 Score: 787
Period size: 47 Copynumber: 10.6 Consensus size: 47
90439346 GTATATTTGA
* *
90439356 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
90439403 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* *
90439450 ATGAATGTGAAAGTGTATATATATGTGATAAAGCCAAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
90439499 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
* * *
90439548 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
90439595 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
90439642 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
*
90439691 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
90439738 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* * * * *
90439785 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* *
90439832 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
90439862 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 292 0.68
49 137 0.32
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
Found at i:90439518 original size:96 final size:94
Alignment explanation
Indices: 90439356--90439861 Score: 823
Period size: 96 Copynumber: 5.3 Consensus size: 94
90439346 GTATATTTGA
*
90439356 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
90439421 ATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
* * *
90439450 ATGAATGTGAAAGTGTATATATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
*
90439515 ATATATATGTGATAAGGCCTAATGGCCAATGTG
63 -TATATATGTGATAAGGCCGAATGGCCAATGTG
* *
90439548 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
90439613 ATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
90439642 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
90439707 ATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATGTGATAAGGCCGAATGGCCAATGTG
90439738 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
90439803 ATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATGTGATAAGGCCGAATGGCCAATGTG
* *
90439832 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
90439862 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
94 162 0.42
96 175 0.46
98 46 0.12
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:90439519 original size:143 final size:142
Alignment explanation
Indices: 90439356--90439861 Score: 800
Period size: 143 Copynumber: 3.5 Consensus size: 142
90439346 GTATATTTGA
* *
90439356 ATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
90439420 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAAGCC
66 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
90439485 AAATGGCCAATGTG
129 AAATGGCCAATGTG
90439499 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
* * *
90439564 ATATATGTGATAAGGCCTAATAGCCGATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCG
65 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCA
90439629 AATGGCCAATGTG
130 AATGGCCAATGTG
*
90439642 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
*
90439707 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
65 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCA
*
90439772 AATGGCCGATGTG
130 AATGGCCAATGTG
* * * * * *
90439785 ATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
90439849 TAAATGTGATAAG
66 TATATGTGATAAG
90439862 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 21, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
141 54 0.16
143 198 0.58
145 88 0.26
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (142 bp):
ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAA
ATGGCCAATGTG
Found at i:90439524 original size:27 final size:27
Alignment explanation
Indices: 90439445--90439527 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
90439435 CGAATGGCCA
90439445 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* ** ***
90439472 ATGTGAT-AAAGCCAAA-TG--GCCA-
1 ATGTGATGAATGTGAAAGTGTATATAT
90439494 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
90439521 ATGTGAT
1 ATGTGAT
90439528 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
22 7 0.18
23 7 0.18
24 2 0.05
25 2 0.05
26 7 0.18
27 14 0.36
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:90440933 original size:48 final size:46
Alignment explanation
Indices: 90440862--90441076 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
90440852 TTACAGACGC
* * * *
90440862 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-TCTATCTCGAGGCTGATG
* * * * * **
90440910 CATGTCCCAGACATGTCTTACACTAGCTCCTGTCTCAATGTTTTTG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTATCTCGAGGCTGATG
* * **
90440956 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--CTATCTCGAGGCTGATG
* * *
90441004 CATGTCCCAGACATGTCTTACACTAGC-TCTCATCTTGTGGGTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCT-ATCTCGAGGCTGATG
*
90441050 CATGTCCGAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
90441077 ACACAATCAC
Statistics
Matches: 135, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
45 1 0.01
46 73 0.54
47 2 0.01
48 59 0.44
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTATCTCGAGGCTGATG
Found at i:90441023 original size:94 final size:94
Alignment explanation
Indices: 90440862--90441032 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 94
90440852 TTACAGACGC
* *** **
90440862 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
90440927 TTACACTAGCTCCTGTCTCAATGTTTTTG
66 TTACACTAGCTCCTGTCTCAATGTTTTTG
* *
90440956 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATGCATGTCCCAGACATGTC
1 CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
90441021 TTACACTAGCTC
66 TTACACTAGCTC
90441033 TCATCTTGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (94 bp):
CATGTCCTAGACAGGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCCTGTCTCAATGTTTTTG
Found at i:90441052 original size:94 final size:94
Alignment explanation
Indices: 90440862--90441076 Score: 263
Period size: 94 Copynumber: 2.3 Consensus size: 94
90440852 TTACAGACGC
* * *** **
90440862 CATGTCCTAGATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
* * **
90440927 TTACACTAGCTCCTGTCTCAATGTTTTTG
66 TTACACTAGCTCCTATCTCAATGGTGATG
*
90440956 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCAATGCATGTCCCAGACATGTC
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
**
90441021 TTACACTAGCT-CTCATCT-TGTGGGTGATG
66 TTACACTAGCTCCT-ATCTCAAT-GGTGATG
*
90441050 CATGTCCGAGACATGTCTTACACTAGC
1 CATGTCCTAGACATGTCTTACACTAGC
90441077 ACACAATCAC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 3 0.03
94 101 0.97
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (94 bp):
CATGTCCTAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCAATGCATGTCCCAGACATGTC
TTACACTAGCTCCTATCTCAATGGTGATG
Found at i:90442126 original size:25 final size:25
Alignment explanation
Indices: 90442092--90442149 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
90442082 AAAATAGGAC
*
90442092 TTTTTCACTTTATTCGATTTAGTCA
1 TTTTTCACTTTATGCGATTTAGTCA
*
90442117 TTTTTCACTTTATGCGATTTAGTCC
1 TTTTTCACTTTATGCGATTTAGTCA
90442142 TTTTTCAC
1 TTTTTCAC
90442150 AATTAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (25 bp):
TTTTTCACTTTATGCGATTTAGTCA
Found at i:90451039 original size:46 final size:46
Alignment explanation
Indices: 90450972--90451184 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
90450962 TGATATGTGT
90450972 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
* *
90451018 GCCAGTGTAAGACATATCTGGGACATGCATCGGTCACATTATAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
* * *
90451064 GCCACTGTAAGACATGTTTGGGACATGCATCAG---CATTA-AGACGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATA-A-GA
** * *
90451108 GGGTTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGA-TATACA-A
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATA-AGA
* *
90451158 GCTAGTGTAAGACTTGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
90451185 GCGTCAGCTT
Statistics
Matches: 140, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 2 0.01
46 100 0.71
48 25 0.18
50 1 0.01
51 2 0.01
52 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGA
Found at i:90451273 original size:49 final size:49
Alignment explanation
Indices: 90451207--90451375 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 49
90451197 TGTGTGTCAG
*
90451207 TGTAAGACCTATT-TGGGACATGGCATCGACATCGATAGATGAGAGCCAA
1 TGTAAGACCT-TTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
* * * * * ** *
90451256 TGTAAGACCTTTCTGGGACACGACATCGGCCTCGATATATGAAAGTTAG
1 TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
* * * * **
90451305 TGTAAGACCTATCTAGGACATGGCATCGACTTTGAT-G-TGCTAGCCAA
1 TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
*
90451352 TGTAAGACCATGTCTGGGACATGG
1 TGTAAGACC-TTTCTGGGACATGG
90451376 TGTCGGCATC
Statistics
Matches: 94, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
47 14 0.15
48 14 0.15
49 66 0.70
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TGTAAGACCTTTCTGGGACATGGCATCGACATCGATAGATGAAAGCCAA
Found at i:90459412 original size:27 final size:27
Alignment explanation
Indices: 90459364--90459522 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
90459354 GCGAGGCTGC
* *
90459364 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
90459391 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
90459417 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
90459444 CAGATAATTGTGGCATAGCCACC--ATGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT-A
*
90459471 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
90459498 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
90459523 GATGCTTCCT
Statistics
Matches: 115, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.02
26 10 0.09
27 96 0.83
28 5 0.04
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:90459457 original size:54 final size:53
Alignment explanation
Indices: 90459364--90459522 Score: 223
Period size: 54 Copynumber: 3.0 Consensus size: 53
90459354 GCGAGGCTGC
* * * *
90459364 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG-A
* *
90459417 CAGATATATGTGGCAGAGCCATCAGATCAGATAATTGTGGCATAGCCACCATGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCA-GA
90459471 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
90459523 GATGCTTCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
53 13 0.14
54 81 0.85
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (53 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGA
Found at i:90462031 original size:45 final size:46
Alignment explanation
Indices: 90461951--90462305 Score: 235
Period size: 49 Copynumber: 7.5 Consensus size: 46
90461941 TATGTGTGCT
*
90461951 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
90461997 AGTGTAAGACATGTCT-GGACATGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
* * * **
90462042 AGTGTAAAACATGTTTGGGACATACATCGG---CATTAATACGAGAGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATA--AGAGCC
* *
90462088 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-TATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC---ACATTATA-AGAGCC
* * * * * *
90462136 AGTGTAATACCTATCTGGGACATGGCATC-GACACCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-C-AT-TATAAGAGCC
* * * * * *
90462185 AGTGTAAGACCTTTCTGGGACACGACATCGGCCTCGATATATAAAAGTC
1 AGTGTAAGACATGTCTGGGACATG-CATCGGCCAC-AT-TATAAGAGCC
* * * * **
90462234 AGTGTAAGACCTATCTTGGACATGGCATC-G--ACTTTGATGTGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATT-ATAAG--AGCC
90462281 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
90462306 GCGTCGGCAT
Statistics
Matches: 245, Mismatches: 41, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
43 4 0.02
44 4 0.02
45 46 0.19
46 60 0.24
47 14 0.06
48 39 0.16
49 70 0.29
50 6 0.02
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAAGAGCC
Found at i:90462249 original size:98 final size:97
Alignment explanation
Indices: 90461948--90462303 Score: 270
Period size: 98 Copynumber: 3.8 Consensus size: 97
90461938 TGATATGTGT
* * * * *
90461948 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCA-C-AT-TATAAGAGCCAGTGTAAGACAT
1 GCTAGTGTAAGACCTATCTGGGACATGGCATC-GACACCGATAGATGAGAGCCAGTGTAAGACAT
* * * *
90462009 GTCT-GGACATGCATCGGCCAC-A-TTATAAGA
65 GTCTGGGACACGCATCGGCCTCGAGATATAAAA
* * * * * * * ** * * **
90462039 GCCAGTGTAAAACATGTTTGGGACAT-ACATCGGCA-TTA-ATACGAGAGTTAGTGTAAGACATG
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
* * *
90462101 TCTGGGACATGCATCGGCCTTGAGATATACAA
66 TCTGGGACACGCATCGGCCTCGAGATATAAAA
* * *
90462133 GCTAGTGTAATACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTT
1 GCTAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
*
90462198 TCTGGGACACGACATCGGCCTCGATATATAAAA
66 TCTGGGACACG-CATCGGCCTCGAGATATAAAA
* *** **
90462231 G-TCAGTGTAAGACCTATCTTGGACATGGCATCGACTTTGAT-G-TGCTAGCCAGTGTAAGACCA
1 GCT-AGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGA-CA
90462293 TGTCTGGGACA
64 TGTCTGGGACA
90462304 TGGCGTCGGC
Statistics
Matches: 211, Mismatches: 43, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
90 3 0.01
91 50 0.24
92 15 0.07
93 1 0.00
94 26 0.12
95 7 0.03
96 16 0.08
97 41 0.19
98 52 0.25
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (97 bp):
GCTAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
TCTGGGACACGCATCGGCCTCGAGATATAAAA
Found at i:90463733 original size:46 final size:46
Alignment explanation
Indices: 90463683--90463855 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
90463673 TGGTTGAGCA
*
90463683 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
90463729 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
90463776 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
90463822 -CTCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90463856 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90463839 original size:93 final size:93
Alignment explanation
Indices: 90463680--90463850 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
90463670 GGATGGTTGA
* *
90463680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAGT
90463745 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
90463773 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAGCTCATTGAG
90463837 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
90463851 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90471400 original size:26 final size:27
Alignment explanation
Indices: 90471355--90471453 Score: 132
Period size: 26 Copynumber: 3.7 Consensus size: 27
90471345 AAACACATTA
90471355 GAAAATGAAAGCCTTTGTGGCGAACCAT
1 GAAAA-GAAAGCCTTTGTGGCGAACCAT
*
90471383 GAAAAGAAAG-CTTTGTGGAGAACCAT
1 GAAAAGAAAGCCTTTGTGGCGAACCAT
*
90471409 G-AAAGAAAGCCTTTGT-GCAAACCAT
1 GAAAAGAAAGCCTTTGTGGCGAACCAT
* *
90471434 GAAAATAAAGCCTTTATGGC
1 GAAAAGAAAGCCTTTGTGGC
90471454 AAATCTTTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
25 16 0.25
26 35 0.56
27 7 0.11
28 5 0.08
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (27 bp):
GAAAAGAAAGCCTTTGTGGCGAACCAT
Found at i:90471569 original size:27 final size:27
Alignment explanation
Indices: 90471539--90471623 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
90471529 CCTCTGTGGA
* *
90471539 GAACTTTAAAAGAATGGTACTCATGGC
1 GAACTATAAAGGAATGGTACTCATGGC
* * * *
90471566 GAACCATAATGGAATGGTACTTAGGGC
1 GAACTATAAAGGAATGGTACTCATGGC
* *
90471593 GAACTATGAAGGAATGGTATTCATGGC
1 GAACTATAAAGGAATGGTACTCATGGC
90471620 GAAC
1 GAAC
90471624 AACGAAAGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (27 bp):
GAACTATAAAGGAATGGTACTCATGGC
Found at i:90473765 original size:40 final size:40
Alignment explanation
Indices: 90473710--90473786 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
90473700 ATATGTGTAC
90473710 GGAAATTTTGTGTATTTTGTGATTTTGTGAATTAGGGTAA
1 GGAAATTTTGTGTATTTTGTGATTTTGTGAATTAGGGTAA
90473750 GGAAATTTTGTGTATTTTGTGATTTTGTGAATTAGGG
1 GGAAATTTTGTGTATTTTGTGATTTTGTGAATTAGGG
90473787 ACTAAAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (40 bp):
GGAAATTTTGTGTATTTTGTGATTTTGTGAATTAGGGTAA
Found at i:90474345 original size:43 final size:43
Alignment explanation
Indices: 90474191--90474346 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 43
90474181 TGTGTTTTTG
* *
90474191 GTAAGACCGCGTCTGGGACGTTGGCATCGACT-TATGATTTACGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACGT
* * * *
90474235 GTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTCGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACGT
* *
90474277 GTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTACAT
1 GTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACGT
*
90474320 GTAAGACCACGTCTGGAACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
90474347 TGTATGAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 30 0.33
43 36 0.39
44 26 0.28
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACGT
Found at i:90480922 original size:27 final size:27
Alignment explanation
Indices: 90480891--90481068 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
90480881 TAAATTGTAC
90480891 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90480918 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
90480944 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90480972 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90481000 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90481027 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90481054 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90481069 GACTCAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90481005 original size:82 final size:81
Alignment explanation
Indices: 90480892--90481047 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90480882 AAATTGTACA
* *
90480892 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90480956 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
** *
90480973 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90481038 TGCGAGTTGA
65 TGCGAATTGA
90481048 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:90481059 original size:82 final size:81
Alignment explanation
Indices: 90480891--90481068 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
90480881 TAAATTGTAC
* *
90480891 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
90480956 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* ** *
90480972 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
90481036 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
90481054 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90481069 GACTCAATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
81 16 0.19
82 67 0.81
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:90489000 original size:27 final size:27
Alignment explanation
Indices: 90488969--90489146 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90488959 TGAATTGTAC
90488969 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90488996 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90489022 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90489050 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90489078 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90489105 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90489132 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90489147 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90489083 original size:82 final size:81
Alignment explanation
Indices: 90488970--90489125 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90488960 GAATTGTACA
* *
90488970 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90489034 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90489051 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90489116 TGCGAGTTGA
65 TGCGAATTGA
90489126 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90489137 original size:82 final size:81
Alignment explanation
Indices: 90488966--90489146 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90488956 GATTGAATTG
* *
90488966 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90489031 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90489047 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90489111 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90489129 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90489147 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90492488 original size:30 final size:30
Alignment explanation
Indices: 90492452--90492508 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
90492442 CCGAGCCTAG
*
90492452 GGGCAAAAGTGTAATTATGCAAAAGTTTAA
1 GGGCAAAAATGTAATTATGCAAAAGTTTAA
* *
90492482 GGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGCAAAAATGTAATTATGCAAAAGTT
90492509 CATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGCAAAAGTTTAA
Found at i:90494550 original size:43 final size:43
Alignment explanation
Indices: 90494455--90494567 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
90494445 CCAATATGAG
* * * ** *
90494455 ATTACATGTAAGACCATGTCTGAGACATTGGCATTGTATTGAG
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAAAA
90494498 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TAAACA
1 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAAA-A
* * *
90494541 ATTATGTGTAAGACCTTGTCTAGGACA
1 ATTACGTGTAAGACCATGTCTGGGACA
90494568 GTGGAATCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 2 0.03
43 58 0.97
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATAAAA
Found at i:90497567 original size:24 final size:24
Alignment explanation
Indices: 90497515--90497673 Score: 115
Period size: 24 Copynumber: 6.5 Consensus size: 24
90497505 AATGACATTG
* *
90497515 GCACTAAGTGTGCGGATTTTGAATG
1 GCACTATGTGTGCGGA-TTTGAATA
*
90497540 GCACTATGTGTGCGGAATTGAATA
1 GCACTATGTGTGCGGATTTGAATA
*
90497564 GCACTATGTGTGCTGATTTGAAT-
1 GCACTATGTGTGCGGATTTGAATA
* * * * *
90497587 GTCAATACGAGTGTGTGGATTTCTAA-G
1 G-CACTA--TGTGTGCGGATTT-GAATA
* ** * *
90497614 GCACTATGTGTGCGGGTGAGCATG
1 GCACTATGTGTGCGGATTTGAATA
*
90497638 GCACTAAGTGTGCGGATTTGAATA
1 GCACTATGTGTGCGGATTTGAATA
*
90497662 GCATTATGTGTG
1 GCACTATGTGTG
90497674 TGAAATCGAT
Statistics
Matches: 102, Mismatches: 26, Indels: 13
0.72 0.18 0.09
Matches are distributed among these distances:
23 2 0.02
24 68 0.67
25 15 0.15
26 14 0.14
27 3 0.03
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGGATTTGAATA
Found at i:90497675 original size:74 final size:74
Alignment explanation
Indices: 90497521--90497660 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
90497511 ATTGGCACTA
* * *
90497521 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGAATTGAATAGCACTATGTGTGCTGATTTGAA
1 AGTGTGCGGATTTTGAATGGCACTATGTGTGCGG-AGTGAATAGCACTAAGTGTGCGGATTTGAA
90497586 TGTCAATACG
65 TGTCAATACG
* *
90497596 AGTGTGTGGATTTCT-AA-GGCACTATGTGTGCGG-GTGAGCATGGCACTAAGTGTGCGGATTTG
1 AGTGTGCGGATTT-TGAATGGCACTATGTGTGCGGAGTGA--ATAGCACTAAGTGTGCGGATTTG
90497658 AAT
63 AAT
90497661 AGCATTATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
72 3 0.05
74 39 0.68
75 14 0.25
76 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (74 bp):
AGTGTGCGGATTTTGAATGGCACTATGTGTGCGGAGTGAATAGCACTAAGTGTGCGGATTTGAAT
GTCAATACG
Found at i:90500729 original size:80 final size:78
Alignment explanation
Indices: 90500633--90500801 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 78
90500623 CGACTAAGAT
* *
90500633 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAG-CCCGAAGG-CATTGTGCGAGATACT
* *
90500697 AAATCCGGGTTAAGTC
63 AAAACCGGGCTAAGTC
* * * * * *
90500713 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCGAAGGCATTGTGTGAGTTACTAAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCGAAGGCATTGTGCGAGATACTAAA
* *
90500778 ACTGGGCTATGTC
66 ACCGGGCTAAGTC
90500791 CCGAAGGCATT
1 CCGAAGGCATT
90500802 TGAACGAGGA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 36 0.47
79 7 0.09
80 30 0.39
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:90500795 original size:39 final size:39
Alignment explanation
Indices: 90500633--90500801 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 39
90500623 CGACTAAGAT
* * *
90500633 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
90500673 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
90500713 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGT-
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * * *
90500752 CCGAAGGCATTGTGTGAGTTACTAAAACTGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
90500791 CCGAAGGCATT
1 CCGAAGGCATT
90500802 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 22 0.19
39 25 0.22
40 63 0.55
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:90514730 original size:27 final size:27
Alignment explanation
Indices: 90514700--90514877 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90514690 ATATTGAGTC
* * * *
90514700 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90514727 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90514754 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90514782 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90514809 CGCACACTTAGTG-TATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90514836 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90514863 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90514878 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90514839 original size:82 final size:81
Alignment explanation
Indices: 90514721--90514876 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90514711 TGCTATATAA
* *
90514721 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90514786 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90514803 TCAATTCGCACACTTAGTG-TATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90514867 CACTTAGTGC
65 CACTTAGTGC
90514877 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90517136 original size:21 final size:21
Alignment explanation
Indices: 90517110--90517151 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
90517100 GATATATAAT
90517110 TTTTATAATATAAAA-TAAATA
1 TTTTAT-ATATAAAATTAAATA
*
90517131 TTTTATATTTAAAATTAAATA
1 TTTTATATATAAAATTAAATA
90517152 AAATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTATATATAAAATTAAATA
Found at i:90521818 original size:28 final size:28
Alignment explanation
Indices: 90521778--90521833 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
90521768 CAGAGAGATA
90521778 GTTAGTCATGACCAAACAAGCAAGACAC
1 GTTAGTCATGACCAAACAAGCAAGACAC
90521806 GTTAGTCATGACCAAACAAGCAAGACAC
1 GTTAGTCATGACCAAACAAGCAAGACAC
90521834 AAATTGTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.25, G:0.18, T:0.14
Consensus pattern (28 bp):
GTTAGTCATGACCAAACAAGCAAGACAC
Found at i:90524399 original size:47 final size:47
Alignment explanation
Indices: 90524340--90524905 Score: 857
Period size: 47 Copynumber: 12.1 Consensus size: 47
90524330 TATCACATTT
* * * *
90524340 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90524385 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
90524432 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90524479 ATATACATGTTTACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90524526 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90524573 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTACCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
90524620 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90524667 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAT
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90524714 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90524761 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAT
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90524808 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90524855 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
90524903 ATA
1 ATA
90524906 TACACTTTCA
Statistics
Matches: 476, Mismatches: 42, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 460 0.97
48 9 0.02
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:90524501 original size:25 final size:25
Alignment explanation
Indices: 90524472--90524549 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
90524462 ATTCGGCCTT
*
90524472 ATCACACATATACATGTTTACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
90524497 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
90524519 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
90524544 ATCACA
1 ATCACA
90524550 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:90529180 original size:40 final size:40
Alignment explanation
Indices: 90529123--90529585 Score: 709
Period size: 40 Copynumber: 11.6 Consensus size: 40
90529113 CCAGCATGAT
* *
90529123 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90529163 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
90529203 TGCTCTTCGGGACTTAGCCCGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
90529243 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
90529283 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90529323 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
90529363 TGCTCTTCGGGACTTAGCCCGGATTTATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
90529403 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
90529443 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
90529483 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
90529524 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
90529564 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
90529586 CATCATTCGA
Statistics
Matches: 389, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
39 3 0.01
40 365 0.94
41 21 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:90529225 original size:23 final size:23
Alignment explanation
Indices: 90529194--90529300 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 23
90529184 GATACATCAC
90529194 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
90529217 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
90529234 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
90529257 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
90529274 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
90529297 TAGC
1 TAGC
90529301 CCGGATATAT
Statistics
Matches: 58, Mismatches: 14, Indels: 24
0.60 0.15 0.25
Matches are distributed among these distances:
17 17 0.29
18 6 0.10
19 4 0.07
21 4 0.07
22 6 0.10
23 21 0.36
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:90531038 original size:47 final size:47
Alignment explanation
Indices: 90530979--90531544 Score: 857
Period size: 47 Copynumber: 12.1 Consensus size: 47
90530969 TATCACATTT
* * * *
90530979 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90531024 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
90531071 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90531118 ATATACATGTTTACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90531165 ATATACATGTTCACTTTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90531212 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTACCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
*
90531259 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90531306 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAT
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90531353 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90531400 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAT
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
90531447 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
* *
90531494 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTA-TCACAC
90531542 ATA
1 ATA
90531545 TACACTTTCA
Statistics
Matches: 476, Mismatches: 42, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 460 0.97
48 9 0.02
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:90531140 original size:25 final size:25
Alignment explanation
Indices: 90531111--90531188 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
90531101 ATTCGGCCTT
*
90531111 ATCACACATATACATGTTTACTTTC
1 ATCACACATATACATGTTCACTTTC
* *** *
90531136 ATCACA-TTGGCCA--TTCGGCTTT-
1 ATCACACATATACATGTTC-ACTTTC
90531158 ATCACACATATACATGTTCACTTTC
1 ATCACACATATACATGTTCACTTTC
90531183 ATCACA
1 ATCACA
90531189 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 15 0.41
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCACACATATACATGTTCACTTTC
Found at i:90538580 original size:24 final size:24
Alignment explanation
Indices: 90538548--90538598 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
90538538 TTTACTTTAA
90538548 GTTATCCGAACTTACCTGGTATTC
1 GTTATCCGAACTTACCTGGTATTC
90538572 GTTATCCGAACTTACCTGGTATTC
1 GTTATCCGAACTTACCTGGTATTC
90538596 GTT
1 GTT
90538599 TCGGTGTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (24 bp):
GTTATCCGAACTTACCTGGTATTC
Found at i:90544927 original size:11 final size:11
Alignment explanation
Indices: 90544891--90544946 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
90544881 CATGGTATGT
90544891 ATGATATGCAC
1 ATGATATGCAC
* *
90544902 ATGACATG--T
1 ATGATATGCAC
90544911 ATGATATGCAC
1 ATGATATGCAC
*
90544922 ATGATATG--T
1 ATGATATGCAC
90544931 ATGATATGCAC
1 ATGATATGCAC
90544942 ATGAT
1 ATGAT
90544947 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:90544946 original size:20 final size:20
Alignment explanation
Indices: 90544880--90544946 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
90544870 ATTTTGATAA
*
90544880 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
90544900 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
90544920 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
90544940 ACATGAT
1 ACATGAT
90544947 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:90545080 original size:24 final size:23
Alignment explanation
Indices: 90544997--90545092 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
90544987 AGGAAGTGAA
90544997 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
90545020 AAAGGACTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
90545043 AAAAGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
90545066 AGAAGGGCTTTTGCCCCAGTTATT
1 A-AAGGGCTTATGCCCCAGTTATT
90545090 AAA
1 AAA
90545093 AGAGGCTAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
23 46 0.69
24 21 0.31
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:90545083 original size:47 final size:46
Alignment explanation
Indices: 90544996--90545094 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 46
90544986 GAGGAAGTGA
90544996 AAAAGGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATT
1 AAAA-GGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATT
* *
90545043 AAAAGGCTTATGCCCCAGTTATTAGAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATTA-AAGGACTTATGCCCCAGTTATT
90545090 AAAAG
1 AAAAG
90545095 AGGCTAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 20 0.41
47 29 0.59
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAAGGCTTATGCCCCAGTTATTAAAGGACTTATGCCCCAGTTATT
Found at i:90545342 original size:31 final size:31
Alignment explanation
Indices: 90545307--90545370 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90545297 CATTTATAGT
90545307 AAAGGCATCGGCCCAGTAATATGAAATATGA
1 AAAGGCATCGGCCCAGTAATATGAAATATGA
* **
90545338 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCATCGGCCCAGTAATATGAAATATGA
90545369 AA
1 AA
90545371 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCATCGGCCCAGTAATATGAAATATGA
Found at i:90551652 original size:37 final size:36
Alignment explanation
Indices: 90551589--90551664 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
90551579 GATAATCACT
*
90551589 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAG-A
*
90551626 TTAA-ATTAAATTTAATATTAAT-CTATTAAAATAAGA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAAGA
90551662 TTA
1 TTA
90551665 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 22 0.63
38 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGA
Found at i:90553279 original size:15 final size:15
Alignment explanation
Indices: 90553259--90553288 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90553249 CTATTCATGC
90553259 AAAATACAAAAGACA
1 AAAATACAAAAGACA
90553274 AAAATACAAAAGACA
1 AAAATACAAAAGACA
90553289 TAATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.13, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:90574188 original size:79 final size:79
Alignment explanation
Indices: 90574029--90574202 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 79
90574019 ATGATAACCA
* ** * * *
90574029 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGT
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTCGAGC
*
90574094 GAGTTACTATTTCC
66 GAGTTACTATATCC
90574108 GGGCTAAGTCCCGAAGGCAATTGTGC-AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTCGAG
1 -GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTCGAG
90574172 CGAG-TAGCTATATCC
65 CGAGTTA-CTATATCC
**
90574187 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
90574203 TACTTGGTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 16 0.19
79 44 0.52
80 24 0.29
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTCGAGC
GAGTTACTATATCC
Found at i:90574191 original size:39 final size:40
Alignment explanation
Indices: 90574029--90574202 Score: 237
Period size: 40 Copynumber: 4.4 Consensus size: 40
90574019 ATGATAACCA
*
90574029 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
90574069 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
90574109 GGCTAAGTCCCGAAGGCAATTGTGC-AGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
90574148 GGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
**
90574187 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
90574203 TACTTGGTTG
Statistics
Matches: 121, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 50 0.41
40 71 0.59
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:90585218 original size:40 final size:40
Alignment explanation
Indices: 90585163--90585337 Score: 237
Period size: 40 Copynumber: 4.4 Consensus size: 40
90585153 ATGATAACCA
*
90585163 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
90585203 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
90585243 GGCTAAGTCCCGAAGGCAATTGTGCAAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
90585283 GGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
**
90585322 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
90585338 TACTTGGTTG
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
39 16 0.13
40 105 0.87
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:90586822 original size:29 final size:29
Alignment explanation
Indices: 90586764--90586823 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
90586754 AGACCTATAA
90586764 GATATTTCCCATATTGCATGGCCCTAATG
1 GATATTTCCCATATTGCATGGCCCTAATG
* *
90586793 GATATTTCCCATGTTGCATGGCCCTGATG
1 GATATTTCCCATATTGCATGGCCCTAATG
90586822 GA
1 GA
90586824 CTCCCACTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (29 bp):
GATATTTCCCATATTGCATGGCCCTAATG
Found at i:90590130 original size:18 final size:19
Alignment explanation
Indices: 90590109--90590145 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90590099 TTGCAATTTA
*
90590109 AATTTTT-ATTTTTTTTCT
1 AATTTTTCATTTATTTTCT
90590127 AATTTTTCATTTATTTTCT
1 AATTTTTCATTTATTTTCT
90590146 TCTAACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (19 bp):
AATTTTTCATTTATTTTCT
Found at i:90596499 original size:40 final size:40
Alignment explanation
Indices: 90596406--90596630 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
90596396 GCTCCTCGTT
* * * * *
90596406 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
90596446 C-AATGCCTTCGGGACTTAACCCGGATTTAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
90596485 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
90596525 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
90596565 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
90596606 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
90596631 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 38 0.24
40 105 0.66
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:90596639 original size:41 final size:41
Alignment explanation
Indices: 90596562--90596639 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
90596552 TTTGTATCTC
* * *
90596562 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
90596603 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
90596640 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:90613320 original size:14 final size:14
Alignment explanation
Indices: 90613273--90613312 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
90613263 AATCAATCGA
90613273 ATTTTCCCAAAACT
1 ATTTTCCCAAAACT
*
90613287 ATTTTCCCAAAAGT
1 ATTTTCCCAAAACT
90613301 ATTTTCCCAAAA
1 ATTTTCCCAAAA
90613313 TTTCTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (14 bp):
ATTTTCCCAAAACT
Found at i:90615141 original size:43 final size:41
Alignment explanation
Indices: 90615029--90615142 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 41
90615019 TATGTGGTTA
* * ** *
90615029 CATGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATT
1 CATGTAAGACCACGTCTGGGACATTGGCATCGTATGAGATG
* * *
90615070 CGTGTAAGACC-CTGTTTGGGACAGTGGCATCGTTATGAGATAG
1 CATGTAAGACCAC-GTCTGGGACATTGGCATCG-TATGAGAT-G
*
90615113 CATGTAAGACCACGTCTGAGACATTGGCAT
1 CATGTAAGACCACGTCTGGGACATTGGCAT
90615143 TGTACAATAT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 26 0.46
42 6 0.11
43 24 0.42
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (41 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGTATGAGATG
Found at i:90617323 original size:21 final size:20
Alignment explanation
Indices: 90617299--90617337 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90617289 CCGTGTTGAT
90617299 TTCGTACCTTGGCCCATTTTC
1 TTCGT-CCTTGGCCCATTTTC
**
90617320 TTCGTTTTTGGCCCATTT
1 TTCGTCCTTGGCCCATTT
90617338 CTCATTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.08, C:0.28, G:0.15, T:0.49
Consensus pattern (20 bp):
TTCGTCCTTGGCCCATTTTC
Found at i:90624505 original size:27 final size:27
Alignment explanation
Indices: 90624474--90624651 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90624464 TAAATTGTAC
90624474 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90624501 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90624527 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90624555 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90624583 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90624610 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90624637 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90624652 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90624588 original size:82 final size:81
Alignment explanation
Indices: 90624475--90624630 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90624465 AAATTGTACA
* *
90624475 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
90624539 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
90624556 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
90624621 TGCGAGTTGA
65 TGCGAATTGA
90624631 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90624642 original size:82 final size:81
Alignment explanation
Indices: 90624471--90624651 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
90624461 GATTAAATTG
* *
90624471 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90624536 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90624552 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90624616 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90624634 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90624652 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90632558 original size:27 final size:27
Alignment explanation
Indices: 90632527--90632704 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
90632517 TAAATTGTAC
90632527 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
90632554 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
90632580 ATGGACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
90632608 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
90632636 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
90632663 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
90632690 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
90632705 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:90632670 original size:82 final size:81
Alignment explanation
Indices: 90632528--90632683 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
90632518 AAATTGTACA
* * *
90632528 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGGACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
90632593 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
90632609 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
90632673 GTGCGAGTTGA
64 GTGCGAATTGA
90632684 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:90632695 original size:82 final size:81
Alignment explanation
Indices: 90632524--90632704 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
90632514 GATTAAATTG
* * *
90632524 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGGACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
90632589 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
90632605 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
90632669 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
90632687 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
90632705 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:90634815 original size:27 final size:27
Alignment explanation
Indices: 90634750--90634817 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
90634740 AAAAACCTAC
*
90634750 CAAGAGAAATAAAAAGTAAATTAATTAG
1 CAAGAAAAAT-AAAAGTAAATTAATTAG
* * * *
90634778 TAATAATAATAAAATTAAATTAAATT-G
1 CAAGAAAAATAAAAGTAAATT-AATTAG
90634805 CAAGAAAAATAAA
1 CAAGAAAAATAAA
90634818 TGGCTAAAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (27 bp):
CAAGAAAAATAAAAGTAAATTAATTAG
Found at i:90638969 original size:23 final size:23
Alignment explanation
Indices: 90638921--90638992 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 23
90638911 TTTTCACTAA
* *
90638921 TAATTATT-TAAAATATTTAAAAT
1 TAATTATTCTAAAATATTT-TATT
*
90638944 TAATTATTCAAAAATATTTTATT
1 TAATTATTCTAAAATATTTTATT
* *
90638967 TAATT-TTCTAGATTATTTTATT
1 TAATTATTCTAAAATATTTTATT
90638989 TAAT
1 TAAT
90638993 CGATTTTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.43
23 15 0.36
24 9 0.21
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (23 bp):
TAATTATTCTAAAATATTTTATT
Found at i:90640436 original size:26 final size:26
Alignment explanation
Indices: 90640405--90640468 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
90640395 AACAAATTTT
90640405 ATCAAAATTTTATC-GAGGGTAAAATC
1 ATCAAAATTTTATCAG-GGGTAAAATC
*
90640431 GTCAAAATTTTATCAGGGGTAAAATC
1 ATCAAAATTTTATCAGGGGTAAAATC
90640457 ATCAAAATTTTA
1 ATCAAAATTTTA
90640469 CTAGAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 34 0.97
27 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (26 bp):
ATCAAAATTTTATCAGGGGTAAAATC
Found at i:90658889 original size:49 final size:49
Alignment explanation
Indices: 90658817--90659003 Score: 239
Period size: 49 Copynumber: 3.8 Consensus size: 49
90658807 TGAGGTCACG
*
90658817 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
* * ** * ** * * *
90658866 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-TGGTCGCA
90658917 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
* *
90658966 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
90659004 AGCTTCGGCT
Statistics
Matches: 113, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 73 0.65
50 2 0.02
51 38 0.34
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
Found at i:90658987 original size:100 final size:100
Alignment explanation
Indices: 90658812--90658999 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
90658802 CATTGTGAGG
*
90658812 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
*
90658877 AAGTGTAGGCTACTATGCATACCCGAAAACTATGA
66 AAGTGCAGGCTACTATGCATACCCGAAAACTATGA
90658912 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
*
90658977 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCATACC
90659000 AGATAGCTTC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGAAAACTATGA
Found at i:90661427 original size:251 final size:250
Alignment explanation
Indices: 90660951--90661456 Score: 940
Period size: 251 Copynumber: 2.0 Consensus size: 250
90660941 CAAGCTATCC
90660951 AGAAAACATAGGATGCATGCATAATTATACTTGACTAAATAAGATAACTGGAAAGTGGGCATTAA
1 AGAAAACATAGGATGCATGCATAATTATACTTGACTAAATAAGATAACTGGAAAGTGGGCATTAA
*
90661016 ACCAATATGAATGTTAGTTACTCGAAATGAATGACATGATTGAATATAATTGCTATGATGAAAAT
66 ACCAATATGAATGTTAGTTACTCGAAATGAATGACATGATTGAATATAATTGCTATGATGAAAAC
90661081 TGTGTTATATGTATATGTATATGAGAGTTGAGTTAGAGGCCCTACGACCCCTTCCCCCTTACCAA
131 TGTGTTATATGTATATGTATATGAGAGTTGAGTTAGAGGCCCTACGACCCCTTCCCCCTTACCAA
*
90661146 AGTGGTGTTTTATAATGGAATTTCATGAGATTTGTACTAAATAAGTTTCCGGTTG
196 AGTGGTGTTTTATAATGGAATTTCATGAGATTCGTACTAAATAAGTTTCCGGTTG
*
90661201 AGAAAACATAGGATGCATGCATAATTATACTTGACTAAATGAGATAACTGGAAAGTGGGCATTAA
1 AGAAAACATAGGATGCATGCATAATTATACTTGACTAAATAAGATAACTGGAAAGTGGGCATTAA
* *
90661266 ACCAATATGAATGTTAGTTACTCGAAATGAATGACATGATTGAGATATGATTGTTATGATGAAAA
66 ACCAATATGAATGTTAGTTACTCGAAATGAATGACATGATTGA-ATATAATTGCTATGATGAAAA
90661331 CTGTGTTATATGTATATGTATATGAGAGTTGAGTTAGAGGCCCTACGACCCCTTCCCCCTTACCA
130 CTGTGTTATATGTATATGTATATGAGAGTTGAGTTAGAGGCCCTACGACCCCTTCCCCCTTACCA
* *
90661396 AAGTGGTGTTTTATAATGGAATTTCATGAGATTCGTACTGAATAAGTTTTCGGTTG
195 AAGTGGTGTTTTATAATGGAATTTCATGAGATTCGTACTAAATAAGTTTCCGGTTG
90661452 AGAAA
1 AGAAA
90661457 CCAAAGAGTT
Statistics
Matches: 248, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
250 107 0.43
251 141 0.57
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (250 bp):
AGAAAACATAGGATGCATGCATAATTATACTTGACTAAATAAGATAACTGGAAAGTGGGCATTAA
ACCAATATGAATGTTAGTTACTCGAAATGAATGACATGATTGAATATAATTGCTATGATGAAAAC
TGTGTTATATGTATATGTATATGAGAGTTGAGTTAGAGGCCCTACGACCCCTTCCCCCTTACCAA
AGTGGTGTTTTATAATGGAATTTCATGAGATTCGTACTAAATAAGTTTCCGGTTG
Found at i:90662226 original size:15 final size:15
Alignment explanation
Indices: 90662206--90662257 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
90662196 CTTGGGTTTC
90662206 TTTATTCTGGATTTA
1 TTTATTCTGGATTTA
90662221 TTTATTCTAGG-TTT-
1 TTTATTCT-GGATTTA
90662235 TTCTA-TCTTGGATTTA
1 TT-TATTC-TGGATTTA
90662251 TTTATTC
1 TTTATTC
90662258 GGTTTTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 6 0.19
15 19 0.61
16 6 0.19
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTATTCTGGATTTA
Found at i:90664906 original size:100 final size:100
Alignment explanation
Indices: 90664733--90664912 Score: 324
Period size: 100 Copynumber: 1.8 Consensus size: 100
90664723 TTGTGAGGTT
*
90664733 ACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTATTGGCCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGCCGCATGTGTAGTACTAA
*
90664798 GTGTAGGCTACTATGTGCACCCGAAAACTGTGATC
66 GTGCAGGCTACTATGTGCACCCGAAAACTGTGATC
* *
90664833 ACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTACCAGATTATTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGCCGCATGTGTAGTACTAA
90664898 GTGCAGGCTACTATG
66 GTGCAGGCTACTATG
90664913 CATACCAGAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGCCGCATGTGTAGTACTAA
GTGCAGGCTACTATGTGCACCCGAAAACTGTGATC
Found at i:90664922 original size:49 final size:49
Alignment explanation
Indices: 90664736--90664910 Score: 224
Period size: 49 Copynumber: 3.5 Consensus size: 49
90664726 TGAGGTTACG
* *
90664736 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTATTGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
* * * * ** * * *
90664785 TGTGTAGTACTAAGTGTAGGCTACTATGTGCACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-TGGTCGCA
*
90664836 TGTGTAGTACTAAGTGCAGGCTACTGCGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
90664885 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
90664911 TGCATACCAG
Statistics
Matches: 102, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 63 0.62
50 2 0.02
51 37 0.36
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
Found at i:90668833 original size:40 final size:40
Alignment explanation
Indices: 90668749--90668973 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
90668739 TTGAATGATG
* * * *
90668749 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
90668789 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90668829 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
90668868 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90668908 TCCGTGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
90668949 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90668974 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90668991 original size:80 final size:79
Alignment explanation
Indices: 90668756--90669006 Score: 226
Period size: 79 Copynumber: 3.2 Consensus size: 79
90668746 ATGTCCGGGC
* * * * * * **
90668756 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCATTTGAACG
* *
90668819 AGAT-ACTAATTCCGGGC
64 AG-TGACTAAATCC-GGT
* **
90668836 TAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
*
90668900 TTACTAAATCCGTGT
66 TGACTAAATCCG-GT
* *
90668915 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGA
*
90668979 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
90668994 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
90669007 TACGTGATTT
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.02
79 71 0.49
80 70 0.48
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:90674749 original size:16 final size:17
Alignment explanation
Indices: 90674717--90674750 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90674707 CCTAATTTTC
*
90674717 CCTTTTCTTCTTTCTTT
1 CCTTTTCTTCCTTCTTT
90674734 CCTTTT-TTCCTTCTTT
1 CCTTTTCTTCCTTCTTT
90674750 C
1 C
90674751 TTTCCCTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (17 bp):
CCTTTTCTTCCTTCTTT
Found at i:90674779 original size:4 final size:4
Alignment explanation
Indices: 90674770--90674808 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
90674760 TAATCGTGCC
* *
90674770 TTCT TTCT TTCT TTCT TTCT TTTT TTAT TTCAT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TT
90674809 ATTCTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:90674800 original size:12 final size:12
Alignment explanation
Indices: 90674773--90674815 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
90674763 TCGTGCCTTC
*
90674773 TTTCTTTCTTTC
1 TTTCTTTCTTTA
*
90674785 TTTCTTTTTTTA
1 TTTCTTTCTTTA
90674797 TTTCATTTCTTTA
1 TTTC-TTTCTTTA
90674810 -TTCTTT
1 TTTCTTT
90674816 TATTATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 3 0.11
12 17 0.63
13 7 0.26
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCTTTCTTTA
Found at i:90674805 original size:21 final size:20
Alignment explanation
Indices: 90674777--90674819 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
90674767 GCCTTCTTTC
* *
90674777 TTTCTTTCTTTCTTTTTTTA
1 TTTCTTTCTTTATTCTTTTA
90674797 TTTCATTTCTTTATTCTTTTA
1 TTTC-TTTCTTTATTCTTTTA
90674818 TT
1 TT
90674820 ATATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTCTTTATTCTTTTA
Found at i:90676641 original size:22 final size:22
Alignment explanation
Indices: 90676616--90676661 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
90676606 ATCGCATTAT
90676616 CAGAACTTGGGTATCACAATAC
1 CAGAACTTGGGTATCACAATAC
* * *
90676638 CAGAGCTTGGGTATCGCTATAC
1 CAGAACTTGGGTATCACAATAC
90676660 CA
1 CA
90676662 CTATTGAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
CAGAACTTGGGTATCACAATAC
Found at i:90680459 original size:39 final size:39
Alignment explanation
Indices: 90680415--90680491 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
90680405 CATTTCATAA
* *
90680415 GAAATTATATACTTTAATTTATATCACCTTTTCATGTAT
1 GAAATTATATACTTTAATTTATACCACCGTTTCATGTAT
*
90680454 GAAATTATATATTTTAATTTATACCACCGTTTCATGTA
1 GAAATTATATACTTTAATTTATACCACCGTTTCATGTA
90680492 CATAAGCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (39 bp):
GAAATTATATACTTTAATTTATACCACCGTTTCATGTAT
Found at i:90684938 original size:19 final size:19
Alignment explanation
Indices: 90684914--90684953 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
90684904 AAAATCTTTC
90684914 ATTTTTAAACATTTCATAA
1 ATTTTTAAACATTTCATAA
90684933 ATTTTTAAACATTTCATAA
1 ATTTTTAAACATTTCATAA
90684952 AT
1 AT
90684954 CATATCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTAAACATTTCATAA
Found at i:90696615 original size:54 final size:53
Alignment explanation
Indices: 90696531--90696641 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
90696521 AGGAAGCGTC
* *
90696531 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
90696585 CTGGTGGCTCTACCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
90696638 CTGG
1 CTGG
90696642 CAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
CTGGTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:90696638 original size:26 final size:26
Alignment explanation
Indices: 90696531--90696641 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
90696521 AGGAAGCGTC
* *
90696531 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
90696558 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
90696585 CTGGTGGCTCTACCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
90696612 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
90696638 CTGG
1 CTGG
90696642 CAACCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 16 0.21
27 58 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:90704423 original size:27 final size:26
Alignment explanation
Indices: 90704383--90704494 Score: 152
Period size: 27 Copynumber: 4.2 Consensus size: 26
90704373 AGGAAGCGTC
* *
90704383 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
90704410 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
90704437 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* *
90704464 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
*
90704490 TTGGT
1 CTGGT
90704495 AGTCATGCTG
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 16 0.21
27 60 0.77
28 2 0.03
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:90704467 original size:54 final size:53
Alignment explanation
Indices: 90704383--90704494 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 53
90704373 AGGAAGCGTC
*
90704383 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * *
90704437 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
*
90704490 TTGGT
1 CTGGT
90704495 AGTCATGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:90705779 original size:26 final size:27
Alignment explanation
Indices: 90705744--90705795 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
90705734 TCGCAGTGAA
*
90705744 GCTACTAACAGT-AACGTAGCAAAGCT
1 GCTAATAACAGTAAACGTAGCAAAGCT
*
90705770 GCTAATAACAGTAAACGTGGCAAAGC
1 GCTAATAACAGTAAACGTAGCAAAGC
90705796 CACCAGAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (27 bp):
GCTAATAACAGTAAACGTAGCAAAGCT
Found at i:90710107 original size:19 final size:18
Alignment explanation
Indices: 90710063--90710109 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
90710053 TGCAATCTAA
*
90710063 TTTTATTTTTAATTTTAT
1 TTTTATTTCTAATTTTAT
* *
90710081 TCTAATTTACTAATTTTAT
1 TTTTATTT-CTAATTTTAT
90710100 TTTTATTTCT
1 TTTTATTTCT
90710110 TCTGACAGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTATTTCTAATTTTAT
Found at i:90717843 original size:18 final size:18
Alignment explanation
Indices: 90717820--90717855 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
90717810 ATGAATTTTT
90717820 AGTTTAGATAATTAGTTA
1 AGTTTAGATAATTAGTTA
90717838 AGTTTAGATAATTAGTTA
1 AGTTTAGATAATTAGTTA
90717856 GTTAAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTTTAGATAATTAGTTA
Found at i:90727855 original size:8 final size:7
Alignment explanation
Indices: 90727820--90727859 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
90727810 AATAAATTCA
*
90727820 TAAATTA
1 TAAATTT
90727827 TAAATTT
1 TAAATTT
*
90727834 CAAATTT
1 TAAATTT
90727841 TAAATTT
1 TAAATTT
*
90727848 TAAAATT
1 TAAATTT
90727855 TAAAT
1 TAAAT
90727860 CTAAATCCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTT
Found at i:90732535 original size:25 final size:23
Alignment explanation
Indices: 90732507--90732552 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
90732497 AGAAAATTCA
90732507 AAATTTTAAAAATAAAAATAATTAC
1 AAATTTT-AAAA-AAAAATAATTAC
*
90732532 AAATTTTGAAAAAAAATAATT
1 AAATTTTAAAAAAAAATAATT
90732553 TTTATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATTTTAAAAAAAAATAATTAC
Found at i:90732892 original size:3 final size:3
Alignment explanation
Indices: 90732884--90732918 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
90732874 TGAATAAATC
90732884 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90732919 GCCAAAGCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90734204 original size:17 final size:17
Alignment explanation
Indices: 90734153--90734204 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
90734143 ATAATATATA
* *
90734153 TTATA-ATTTAATAATA
1 TTATATATTTTATAATT
* * *
90734169 TTATATTTTTTGTACTT
1 TTATATATTTTATAATT
90734186 TTATATATTTTATAATT
1 TTATATATTTTATAATT
90734203 TT
1 TT
90734205 TTTATAATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATATTTTATAATT
Found at i:90734206 original size:19 final size:20
Alignment explanation
Indices: 90734184--90734235 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
90734174 TTTTTTGTAC
90734184 TTTTATAT-ATTTTATAATT
1 TTTTATATAATTTTATAATT
**
90734203 TTTT-TATAATTTTATGTTT
1 TTTTATATAATTTTATAATT
90734222 TTTTA-ATAATTTTA
1 TTTTATATAATTTTA
90734236 ATTATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 3 0.10
19 26 0.90
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATATAATTTTATAATT
Found at i:90734224 original size:28 final size:30
Alignment explanation
Indices: 90734174--90734234 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
90734164 TAATATTATA
* *
90734174 TTTTTTGTACTTTTATA-TATTTT-ATAAT
1 TTTTTTATAATTTTATATTATTTTAATAAT
* *
90734202 TTTTTTATAATTTTATGTTTTTTTAATAAT
1 TTTTTTATAATTTTATATTATTTTAATAAT
90734232 TTT
1 TTT
90734235 AATTATAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 5 0.19
30 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (30 bp):
TTTTTTATAATTTTATATTATTTTAATAAT
Found at i:90734402 original size:31 final size:32
Alignment explanation
Indices: 90734338--90734402 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
90734328 ATTGACTATT
* *
90734338 AATTTTAACAATTAAAAGATTTAATTAATTAA
1 AATTTTAACAATTAAAAGATTAAATTAAGTAA
*
90734370 AATTTTAA-AGTTCAAAA-ATTAAATTAAGTAA
1 AATTTTAACAATT-AAAAGATTAAATTAAGTAA
90734401 AA
1 AA
90734403 AAAATAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 17 0.59
32 12 0.41
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (32 bp):
AATTTTAACAATTAAAAGATTAAATTAAGTAA
Found at i:90735460 original size:21 final size:22
Alignment explanation
Indices: 90735436--90735488 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
90735426 AAAGGTTTTC
* *
90735436 TTTTTATTTTTTCAAAAT-ATA
1 TTTTTATTTTTTAAAAATGAGA
*
90735457 TTTTT-TTTTGTAAAAATGAGA
1 TTTTTATTTTTTAAAAATGAGA
*
90735478 TTTTGATTTTT
1 TTTTTATTTTT
90735489 AGTTCTATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 10 0.40
21 11 0.44
22 4 0.16
ACGTcount: A:0.28, C:0.02, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTTTATTTTTTAAAAATGAGA
Found at i:90735665 original size:33 final size:33
Alignment explanation
Indices: 90735623--90735689 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
90735613 TAAGGACATA
*
90735623 GTTTTTCAACCTACCTTTGTTGTCTTTAACGGT
1 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
90735656 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
1 GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
90735689 G
1 G
90735690 AAATTTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
GTTTTTCAACCTACCGTTGTTGTCTTTAACGGT
Found at i:90735771 original size:21 final size:21
Alignment explanation
Indices: 90735746--90735787 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
90735736 AGAATATCAT
90735746 AAGAATTTGACATTTTCTATA
1 AAGAATTTGACATTTTCTATA
90735767 AAGAATTTGACATTTTCTATA
1 AAGAATTTGACATTTTCTATA
90735788 TTTGGAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
AAGAATTTGACATTTTCTATA
Found at i:90737674 original size:5 final size:5
Alignment explanation
Indices: 90737664--90737690 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
90737654 AAGATATGAT
90737664 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
90737691 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:90737797 original size:27 final size:27
Alignment explanation
Indices: 90737766--90737829 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
90737756 AAGGGAATCG
90737766 ATTACTTTTGGGAGGAGACTTAGATGA
1 ATTACTTTTGGGAGGAGACTTAGATGA
90737793 ATTACTTTTGGGAGGAGACTTAGATGA
1 ATTACTTTTGGGAGGAGACTTAGATGA
90737820 ATTACTTTTG
1 ATTACTTTTG
90737830 TATTCCTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.38
Consensus pattern (27 bp):
ATTACTTTTGGGAGGAGACTTAGATGA
Found at i:90739654 original size:15 final size:15
Alignment explanation
Indices: 90739622--90739667 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
90739612 ATTTATCTAT
90739622 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
90739639 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
90739654 TTATATTTTTATTT
1 TTATATTTCTATTT
90739668 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:90739660 original size:23 final size:23
Alignment explanation
Indices: 90739634--90739700 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
90739624 ATATTTCTAC
90739634 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
90739657 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
90739679 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
90739700 T
1 T
90739701 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:90739866 original size:25 final size:24
Alignment explanation
Indices: 90739805--90739866 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
90739795 TATAACGCTC
* *
90739805 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
90739829 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
90739854 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
90739867 TTTTACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Found at i:90754434 original size:46 final size:44
Alignment explanation
Indices: 90754367--90754541 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 44
90754357 TGTAACCCGC
90754367 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCGTTC-CAT
* * *
90754413 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCC-A--T
* *** * * *
90754459 ACATCTCTCGAACTCGGACTAAACTCAACGAGTTCGGACGCTCTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CGTTC-CAT
*
90754506 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
90754542 GTGCCCAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.62
47 30 0.29
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCCAT
Found at i:90757000 original size:15 final size:15
Alignment explanation
Indices: 90756926--90757005 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
90756916 CAAAGATAAC
*
90756926 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
90756940 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* * *
90756955 GAGAAACCCGGAATA
1 AAGAAATCCAGAATA
90756970 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
90756985 AAGAGATGCAGGATA
1 AAGAAATCCAGAATA
90757000 AAGAAA
1 AAGAAA
90757006 CCCAAGATAC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.12, G:0.20, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:90757014 original size:15 final size:15
Alignment explanation
Indices: 90756937--90757014 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
90756927 AGAAAACCGA
90756937 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
90756952 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
90756966 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
90756981 AATAAAGAGATGCAGG
1 -ATAAAGAAATCCAAG
*
90756997 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
90757012 ATA
1 ATA
90757015 CGATACTATG
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.14, G:0.19, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:90760850 original size:46 final size:45
Alignment explanation
Indices: 90760783--90760957 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
90760773 TGTAACCCGC
90760783 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCGTTCGCAT
* * *
90760829 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGC-A--T
* *** * * *
90760875 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
*
90760922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
90760958 GTGCCCAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 65 0.62
47 30 0.29
49 2 0.02
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCAT
Found at i:90760899 original size:93 final size:93
Alignment explanation
Indices: 90760791--90760962 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
90760781 GCCCATAAGT
* *
90760791 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
90760855 ATGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
90760884 GAACTCAGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
90760949 CGAGTTCGGGTGCC
66 CGAGCTCGGATGCC
90760963 CAAATATCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90772450 original size:12 final size:11
Alignment explanation
Indices: 90772432--90772456 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90772422 ACACCATAGT
90772432 TAAAAAAAAAC
1 TAAAAAAAAAC
90772443 TAAAAAAAAAC
1 TAAAAAAAAAC
90772454 TAA
1 TAA
90772457 CTTAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (11 bp):
TAAAAAAAAAC
Found at i:90774103 original size:28 final size:29
Alignment explanation
Indices: 90774070--90774170 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
90774060 TATAGTAAGT
* * *
90774070 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
90774098 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
90774127 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
90774156 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
90774171 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Done.