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 167 of 373
Found at i:55746869 original size:34 final size:34
Alignment explanation
Indices: 55746818--55746883 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
55746808 TATAAAAGCG
* * *
55746818 CCGCTAAAAGTCTTGGTCTTTAGTGGCGTTTTAT
1 CCGCGAAAAGTCCTGGTCTTTAGAGGCGTTTTAT
55746852 CCGCGAAAAGTCCTGGTCTTTAGAGGCGTTTT
1 CCGCGAAAAGTCCTGGTCTTTAGAGGCGTTTT
55746884 TTAAGAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (34 bp):
CCGCGAAAAGTCCTGGTCTTTAGAGGCGTTTTAT
Found at i:55750840 original size:46 final size:44
Alignment explanation
Indices: 55750774--55750879 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
55750764 CTTATATTAC
* * **
55750774 GTTTGGTT-CATGTAATGGAATAGAGTTATAATCAGTAATTTAAT-T
1 GTTTGGTTGAATGAAATGGAATAGAACTATAAT-AGT-A-TTAATGT
* *
55750819 GTTTGGTTGAATGAAATGGAATAGAACTGTAATAGTATTCATGT
1 GTTTGGTTGAATGAAATGGAATAGAACTATAATAGTATTAATGT
55750863 GTTTGGTTGAATGAAAT
1 GTTTGGTTGAATGAAAT
55750880 AAATGTTCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 4 0.08
44 19 0.36
45 11 0.21
46 19 0.36
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.40
Consensus pattern (44 bp):
GTTTGGTTGAATGAAATGGAATAGAACTATAATAGTATTAATGT
Found at i:55755568 original size:52 final size:52
Alignment explanation
Indices: 55755456--55755575 Score: 181
Period size: 52 Copynumber: 2.3 Consensus size: 52
55755446 AACACACCAT
* *
55755456 TATCGTAGCAAAGCTGCCAATAATAATATCGCAGCAAAGCTGCCAATAATAA
1 TATCGCAGCAAAGCTGCCAATAATAATATCGCAGCAAAGCTGCCAATAACAA
*
55755508 TATCGCAGCAAAGCTGCCAATAATAATATCGCAGCAAAGCTGCCAGA-AACAG
1 TATCGCAGCAAAGCTGCCAATAATAATATCGCAGCAAAGCTGCCA-ATAACAA
55755560 TAAT-GCAGCAAAGCTG
1 T-ATCGCAGCAAAGCTG
55755576 TCAGTATCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
52 60 0.95
53 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (52 bp):
TATCGCAGCAAAGCTGCCAATAATAATATCGCAGCAAAGCTGCCAATAACAA
Found at i:55755575 original size:26 final size:26
Alignment explanation
Indices: 55755456--55755552 Score: 185
Period size: 26 Copynumber: 3.7 Consensus size: 26
55755446 AACACACCAT
*
55755456 TATCGTAGCAAAGCTGCCAATAATAA
1 TATCGCAGCAAAGCTGCCAATAATAA
55755482 TATCGCAGCAAAGCTGCCAATAATAA
1 TATCGCAGCAAAGCTGCCAATAATAA
55755508 TATCGCAGCAAAGCTGCCAATAATAA
1 TATCGCAGCAAAGCTGCCAATAATAA
55755534 TATCGCAGCAAAGCTGCCA
1 TATCGCAGCAAAGCTGCCA
55755553 GAAACAGTAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAATAATAA
Found at i:55755587 original size:26 final size:26
Alignment explanation
Indices: 55755486--55755575 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 26
55755476 TAATAATATC
* *
55755486 GCAGCAAAGCTGCCA-ATAATAAT-AT
1 GCAGCAAAGCTGCCAGA-AACAGTAAT
* *
55755511 CGCAGCAAAGCTGCCA-ATAATAAT-AT
1 -GCAGCAAAGCTGCCAGA-AACAGTAAT
55755537 CGCAGCAAAGCTGCCAGAAACAGTAAT
1 -GCAGCAAAGCTGCCAGAAACAGTAAT
55755564 GCAGCAAAGCTG
1 GCAGCAAAGCTG
55755576 TCAGTATCAG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
26 57 0.95
27 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGAAACAGTAAT
Found at i:55755756 original size:26 final size:28
Alignment explanation
Indices: 55755719--55755772 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
55755709 ATCATAGCAC
55755719 AAATCAGTCA-TTTACCCTCGAGGGGTA
1 AAATCAGTCATTTTACCCTCGAGGGGTA
**
55755746 AAAT-AGTCATTTTACCCTTTAGGGGTA
1 AAATCAGTCATTTTACCCTCGAGGGGTA
55755773 TTTTGTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTCGAGGGGTA
Found at i:55764258 original size:8 final size:8
Alignment explanation
Indices: 55764247--55764281 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
55764237 TGAGAAAAGC
55764247 TAAAAAAA
1 TAAAAAAA
55764255 TAAAAAAA
1 TAAAAAAA
55764263 -ATAAAAAA
1 TA-AAAAAA
55764271 TAAAAAAA
1 TAAAAAAA
55764279 TAA
1 TAA
55764282 CTTATATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 23 0.92
9 1 0.04
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
TAAAAAAA
Found at i:55767395 original size:96 final size:93
Alignment explanation
Indices: 55767204--55767517 Score: 252
Period size: 96 Copynumber: 3.3 Consensus size: 93
55767194 TATAATGCCG
* *
55767204 ATGCCATGTCCCAGACATGTTCTTACACTGGCTCATCTATCAAGTCGATTCCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGTCGATGCCATGTCCCAAACAT
* *
55767269 GGTCTTACACTGAATATCGAAATCGAAGCCA
66 GGTCCTACACTGAACATC---ATCGAAGCCA
* * *
55767300 ATGCCATGTCCCAGACATGGTCTTACATTAGCTC-TCACATATC-CGTGCCGATGCCATGTCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TATCAAGT--CGATGCCATGTCCCA
* *
55767363 GACATGGTCCTACACTGACACATC-TCGTAGCCA
61 AACATGGTCCTACACTGA-ACATCATCGAAGCCA
* *
55767396 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC--TCGAGGCTGATG-CATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCTATCAAGTC-GATGCCATGTCCCAAA
* * * * * * *
55767456 CAT-GTCTTACA-TTAGCTCTCATCTCAATGTCG
63 CATGGTCCTACACTGAAC-ATCATC-GAA-GCCA
*
55767488 ATGACATGTCCCAGACATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
55767518 ACTCTCATAA
Statistics
Matches: 179, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
88 1 0.01
89 4 0.02
90 9 0.05
91 15 0.08
92 11 0.06
93 15 0.08
94 22 0.12
95 17 0.09
96 43 0.24
97 4 0.02
98 4 0.02
99 30 0.17
100 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATCAAGTCGATGCCATGTCCCAAACAT
GGTCCTACACTGAACATCATCGAAGCCA
Found at i:55767448 original size:46 final size:48
Alignment explanation
Indices: 55767203--55767567 Score: 190
Period size: 46 Copynumber: 7.7 Consensus size: 48
55767193 GTATAATGCC
* * * *
55767203 GATGCCATGTCCCAGACATGTTCTTACACTGGCTC-ATC-TATCAAGTC-
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTA-CATCTCGAGGCT
* * ** * ** * *
55767250 GATTCCATGTCCCAAACATGGTCTTACACTGAATAT-CGAAATCGAAGCC
1 GA-TGCATGTCCCAGACATGGTCTTACACTGGCTCTAC-ATCTCGAGGCT
* * * * * *
55767299 AATGCCATGTCCCAGACATGGTCTTACATTAGCTCTCACATATCCG-TGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGAGGCT
* * *
55767349 GATGCCATGTCCCAGACATGGTCCTACACT-G-AC-ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG-AGGCT
*
55767395 AATGCATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCT
* * * * *
55767441 GATGCATGTCCCAAACAT-GTCTTACATTAGCTCT-CATCTCAATG-T
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCT
* * *
55767486 CGATGACATGTCCCAGACATGGTCTTACACTGACTCT-CATAAT-GTGG-T
1 -GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGAGGCT
* *
55767534 CGATGCATGTCCCAGACGT-GTCTTACACTAGCTC
1 -GATGCATGTCCCAGACATGGTCTTACACTGGCTC
55767568 ACAAATAACC
Statistics
Matches: 252, Mismatches: 46, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.04
45 19 0.08
46 75 0.30
47 54 0.21
48 31 0.12
49 28 0.11
50 33 0.13
51 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAGGCT
Found at i:55779176 original size:16 final size:16
Alignment explanation
Indices: 55779157--55779187 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55779147 GTTTGTTGAA
*
55779157 AAAATTATTTAATTAG
1 AAAATTAATTAATTAG
55779173 AAAATTAATTAATTA
1 AAAATTAATTAATTA
55779188 ATTAATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAATTAATTAATTAG
Found at i:55779410 original size:21 final size:23
Alignment explanation
Indices: 55779370--55779415 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
55779360 GCTCACCCTA
55779370 TTCTACTTACAGTAGAATATTGTT
1 TTCTACTTACAGTAGAATATT-TT
55779394 TTCTA-TTA-AGTA-AATATTTT
1 TTCTACTTACAGTAGAATATTTT
55779414 TT
1 TT
55779416 ATGTTTTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 4 0.18
23 3 0.14
24 5 0.23
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (23 bp):
TTCTACTTACAGTAGAATATTTT
Found at i:55780662 original size:20 final size:20
Alignment explanation
Indices: 55780626--55780663 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55780616 AGTAACCGTT
*
55780626 TTAACTAAACCTTAACAATC
1 TTAACTAAAACTTAACAATC
55780646 TTAAC-AAAACTTGAACAA
1 TTAACTAAAACTT-AACAA
55780664 ACTCAATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (20 bp):
TTAACTAAAACTTAACAATC
Found at i:55781961 original size:190 final size:190
Alignment explanation
Indices: 55781634--55782022 Score: 636
Period size: 190 Copynumber: 2.1 Consensus size: 190
55781624 ACCTGATCCA
* * *
55781634 CTTT-TTTAGAAGAATTGCCTGTGACGATTATGTCATCAACATATACCACTAAAAGCAATGATGT
1 CTTTGTTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGT
*
55781698 TTCAGCAGATGTTCGAACAAAGAGGGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAA
66 TTCAGCAGATGTTCGAACAAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAA
*
55781763 CTAGATACTGCCTTAGAGCATAAAATTATGCACGAGGTGATTGTCGAAGCTCATATAGAC
131 CTAGATACTGCCTTAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAGAC
*
55781823 CTTTGTTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGTAATGATGT
1 CTTTGTTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGT
* * * *
55781888 TTTAGCAGATGTTCGAACGAAGAGAGAATGGTTAATGTTTGAAACACAAAACCCGAGTTGATGAA
66 TTCAGCAGATGTTCGAACAAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAA
* * * *
55781953 CTAGATACTGCCTTAGAGTATGAAATTATGTACAAGGTGATTGTCGAAGCTTATATAGAC
131 CTAGATACTGCCTTAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAGAC
*
55782013 CCTTGTTTAG
1 CTTTGTTTAG
55782023 TCGAAAAACA
Statistics
Matches: 184, Mismatches: 15, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
189 4 0.02
190 180 0.98
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (190 bp):
CTTTGTTTAGAAGAATTGCCCGTGACAATTATGTCATCAACATACACCACTAAAAGCAATGATGT
TTCAGCAGATGTTCGAACAAAGAGAGAATGGTCAATGTTTGAAACACAAAACCCAAGTTGATGAA
CTAGATACTGCCTTAGAGCATAAAATTATGCACAAGGTGATTGTCGAAGCTCATATAGAC
Found at i:55783754 original size:43 final size:43
Alignment explanation
Indices: 55783706--55783856 Score: 221
Period size: 43 Copynumber: 3.5 Consensus size: 43
55783696 AATTAACGGG
* *
55783706 ATGTGATTATGTGTAAGACAATGTCTGGGACATTGGCATCCTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
* *
55783749 ATGTGATTACATGTAAGACCATGTCTGAGACATTGGCATCCTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
* *
55783792 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
* **
55783835 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
55783857 AGCTAAGCTA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTT
Found at i:55783873 original size:86 final size:86
Alignment explanation
Indices: 55783706--55783899 Score: 230
Period size: 86 Copynumber: 2.3 Consensus size: 86
55783696 AATTAACGGG
* *
55783706 ATGTGATTATGTGTAAGACAATGTCTGGGACATTGGCATCCTTATGTGATTACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTTATGTGATTACATGTAAGACCAT
* * *
55783771 GTCTGAGACATTGGCATCCTT
66 GTCTAAGACATCGGCATCCAT
* * * ***
55783792 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTTATTTGATTTTGTGTAAGACCAT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTTATGTGATTACATGTAAGACCAT
*
55783857 AG-CTAAG-CTATCGGCATCGAT
66 -GTCTAAGAC-ATCGGCATCCAT
* *
55783878 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
55783900 ATCTAGGATA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
85 1 0.01
86 90 0.98
87 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (86 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCCTTATGTGATTACATGTAAGACCAT
GTCTAAGACATCGGCATCCAT
Found at i:55785428 original size:33 final size:33
Alignment explanation
Indices: 55785391--55785461 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
55785381 TGATTAGACA
* * * *
55785391 CATGGTCATCAGGTTGTGTAGACTCTAATATTT
1 CATGGTCAACAGGTTGTCTAAACTCTAACATTT
* * *
55785424 CATGGTTAACATGTTGTCTAAATTCTAACATTT
1 CATGGTCAACAGGTTGTCTAAACTCTAACATTT
55785457 CATGG
1 CATGG
55785462 GTAGCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (33 bp):
CATGGTCAACAGGTTGTCTAAACTCTAACATTT
Found at i:55793141 original size:18 final size:19
Alignment explanation
Indices: 55793110--55793146 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
55793100 AGAGTGTTTT
55793110 GAAAATTCAGAGAA-AAAA
1 GAAAATTCAGAGAAGAAAA
55793128 GAAAATT-AGAAGAAGAAAA
1 GAAAATTCAG-AGAAGAAAA
55793147 TATCAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 11 0.65
19 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.19, T:0.11
Consensus pattern (19 bp):
GAAAATTCAGAGAAGAAAA
Found at i:55804370 original size:40 final size:40
Alignment explanation
Indices: 55804300--55804517 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
55804290 AGACCAAGTA
* *
55804300 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
*
55804339 CCTTCGGGACTTAGCCCGGATATAGTAACTCACCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
55804379 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
55804419 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
55804459 CCTTCGGGACTTAGCCCGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
55804499 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55804518 TTACCATCCG
Statistics
Matches: 169, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 15 0.09
40 154 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:55810003 original size:20 final size:20
Alignment explanation
Indices: 55809947--55810007 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
55809937 ATTATTTATC
* *
55809947 ATTATTATTATTATTCTATCAA
1 ATTATAATTATTA-T-TATTAA
55809969 ATTATAATT-TATATTATTAA
1 ATTATAATTAT-TATTATTAA
*
55809989 ATTATGATTATTATTATTA
1 ATTATAATTATTATTATTA
55810008 TTAAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 21 0.62
21 3 0.09
22 10 0.29
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATAATTATTATTATTAA
Found at i:55810262 original size:3 final size:3
Alignment explanation
Indices: 55810254--55810285 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
55810244 AAATAAGATA
55810254 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
55810286 AGTTAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:55810319 original size:13 final size:12
Alignment explanation
Indices: 55810290--55810347 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
55810280 TTATTAAGTT
55810290 AATAAAGTAAA-A
1 AATAAAG-AAAGA
55810302 GAATAAAGAAATGA
1 -AATAAAGAAA-GA
*
55810316 AATAAATAAAGA
1 AATAAAGAAAGA
55810328 AA-AAAGAAAGA
1 AATAAAGAAAGA
*
55810339 AAGAAAGAA
1 AATAAAGAA
55810348 CAACAGAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.25
12 13 0.32
13 16 0.40
14 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (12 bp):
AATAAAGAAAGA
Found at i:55810337 original size:4 final size:4
Alignment explanation
Indices: 55810306--55810347 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
55810296 GTAAAAGAAT
* *
55810306 AAAG AAATG AAAT AAAT AAAG AAA- AAAG AAAG AAAG AAAG AA
1 AAAG AAA-G AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
55810348 CAACAGAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
5 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (4 bp):
AAAG
Found at i:55812416 original size:36 final size:37
Alignment explanation
Indices: 55812348--55812455 Score: 173
Period size: 36 Copynumber: 2.9 Consensus size: 37
55812338 AGCTCAGATG
* *
55812348 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55812385 AAATCTCCACACGTAGTCAT-GGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
55812421 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55812456 ATGTATTTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 34 0.52
37 32 0.48
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55812656 original size:48 final size:48
Alignment explanation
Indices: 55812597--55813166 Score: 884
Period size: 48 Copynumber: 12.0 Consensus size: 48
55812587 TATACACACG
* * * *
55812597 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55812645 TTTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55812693 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55812741 TCTCATGCATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55812789 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55812837 TCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55812885 TCTCATACATGTTTCACATTAGCCATTCGGC-TT------TATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55812926 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55812974 TCTCATACATGTTTCACATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55813022 TCTCATACATGTTTCACATTAGCCATTTGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
** * *
55813070 TCTCATACATGCTTCACATTAGACATTCGGCTTTACCACATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
55813118 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
55813166 T
1 T
55813167 ATTTATCTTG
Statistics
Matches: 488, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
41 39 0.08
42 2 0.00
47 2 0.00
48 445 0.91
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:55816827 original size:40 final size:40
Alignment explanation
Indices: 55816771--55817257 Score: 652
Period size: 40 Copynumber: 12.0 Consensus size: 40
55816761 GAATACACAT
* * *
55816771 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55816811 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55816851 CACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55816891 CACCAGTACGAATGCTCTTCGGGACTTAGCCCGGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
* *
55816933 CACTAACACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
55816973 AACCAGCACGAATGCTCTTCGGGGCTTAGCCCAGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCC-G-GATATAA
* *
55817015 CACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55817055 CACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
* *
55817097 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55817137 CACCAGCACGAATGCTCTTTGGGGCTTAGCCC-GACTATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGA-TATA-A
* *
55817178 TCACTAGCACGAATGCTTTTCGGGACTTAGCCCGGATATAA
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55817219 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
55817258 TAACTCTCAA
Statistics
Matches: 389, Mismatches: 48, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.01
40 244 0.63
41 3 0.01
42 138 0.35
43 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:55816970 original size:82 final size:82
Alignment explanation
Indices: 55816769--55817259 Score: 806
Period size: 82 Copynumber: 6.0 Consensus size: 82
55816759 TGGAATACAC
* * * * *
55816769 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
55816834 ACTTAGCCCGG--ATAT
66 ACTTAGCCCGGCTATAT
* *
55816849 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACACCAGTACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
55816914 ACTTAGCCCGGCTATAT
66 ACTTAGCCCGGCTATAT
* *
55816931 ATCACTAACACGAATGCTCTTCGGGACTTAGCCCGGATATAAAACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
* *
55816996 GCTTAGCCCAGCTATAT
66 ACTTAGCCCGGCTATAT
*
55817013 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
*
55817078 GCTTAGCCCGGCTATAT
66 ACTTAGCCCGGCTATAT
* *
55817095 ATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
* *
55817160 GCTTAGCCCGACTATAT
66 ACTTAGCCCGGCTATAT
*
55817177 ATCACTAGCACGAATGCTTTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
55817242 ACTTAGCCCGGCTATAT
66 ACTTAGCCCGGCTATAT
55817259 A
1 A
55817260 ACTCTCAATT
Statistics
Matches: 383, Mismatches: 26, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
80 69 0.18
82 314 0.82
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (82 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
ACTTAGCCCGGCTATAT
Found at i:55818590 original size:37 final size:37
Alignment explanation
Indices: 55818531--55818676 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
55818521 AGCTCAGATG
* *
55818531 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55818568 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55818605 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
55818642 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55818677 ATGTATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55818876 original size:48 final size:48
Alignment explanation
Indices: 55818817--55819216 Score: 514
Period size: 48 Copynumber: 8.0 Consensus size: 48
55818807 TATACACACG
* * * * *
55818817 TCTCCTACATATTTCACACTAGCCCTTCTGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55818865 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55818913 TCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55818961 TCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55819009 TCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
55819057 TCTCATACATGCCTATCTCATACATATTTCA-CATTAGCCATTCGGCTTTACCACATATACCTA
1 TCTCATACA----TAT-T--T-CACA-TT-AGC------CATTCGGCTTTACCACATATACATA
* * *
55819120 TCTCATACATATTTCATATTAGCCATTCGGCTTTACCGCATATACCTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
55819168 TCTCATACATATTTCACATTACCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
55819216 T
1 T
55819217 ATTTATCTTG
Statistics
Matches: 317, Mismatches: 18, Indels: 34
0.86 0.05 0.09
Matches are distributed among these distances:
48 260 0.82
52 3 0.01
53 2 0.01
54 3 0.01
55 5 0.02
56 3 0.01
57 3 0.01
58 2 0.01
59 3 0.01
63 33 0.10
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:55819079 original size:63 final size:63
Alignment explanation
Indices: 55819007--55819129 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
55818997 CACATATACA
*
55819007 TATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
*
55819070 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACAT
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
55819130 ATTTCATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.37
Consensus pattern (63 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
Found at i:55819092 original size:111 final size:111
Alignment explanation
Indices: 55818959--55819177 Score: 384
Period size: 111 Copynumber: 2.0 Consensus size: 111
55818949 CACATATACA
* *
55818959 TATCTCATACATATTTCACATTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTT
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
55819024 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
*
55819070 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
* * *
55819135 ATATTAGCCATTCGGCTTTACCGCATATACCTATCTCATACAT
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
55819178 ATTTCACATT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 102 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (111 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATGCC
Found at i:55819200 original size:159 final size:159
Alignment explanation
Indices: 55818911--55819216 Score: 540
Period size: 159 Copynumber: 1.9 Consensus size: 159
55818901 CACATATACA
*
55818911 TATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
* * *
55818976 ACATTAGCCATTCGGCTTTATCACATATACATATCTCATACATATTTTACATTAGCCATTCGGCT
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTACCCATTCGGCT
55819041 TTACCACATATACATATCTCATACATGCC
131 TTACCACATATACATATCTCATACATGCC
*
55819070 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
* * *
55819135 ATATTAGCCATTCGGCTTTACCGCATATACCTATCTCATACATATTTCACATTACCCATTCGGCT
66 ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTACCCATTCGGCT
55819200 TTACCACATATACATAT
131 TTACCACATATACATAT
55819217 ATTTATCTTG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
159 139 1.00
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (159 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTACCCATTCGGCT
TTACCACATATACATATCTCATACATGCC
Found at i:55822323 original size:27 final size:27
Alignment explanation
Indices: 55822286--55822348 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
55822276 GAAAGGAGTG
55822286 ATACT-AGAGAAAGAGATAATTCATAA
1 ATACTCAGAGAAAGAGATAATTCATAA
55822312 ATACTCAGAGAAAGAGATAATTCATAA
1 ATACTCAGAGAAAGAGATAATTCATAA
55822339 ATACTCAGAG
1 ATACTCAGAG
55822349 TGATCGCCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (27 bp):
ATACTCAGAGAAAGAGATAATTCATAA
Found at i:55825077 original size:50 final size:50
Alignment explanation
Indices: 55824853--55825070 Score: 305
Period size: 50 Copynumber: 4.4 Consensus size: 50
55824843 GAGCTAAATG
* *
55824853 ACCTTGTGTATTCAGCCATGTAGGTAAGTATTTATGTGATGATATATTGA
1 ACCTTGTATATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGA
* * *
55824903 ACCTTGTGTATTCGACCATGTAGGTAAGTATTTATGTGATGATGTATTGA
1 ACCTTGTATATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGA
* *
55824953 ACCTTGTGTATTCGGCCATGTAGGTAAGTATTCATGTGATGATATATTGA
1 ACCTTGTATATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGA
* *
55825003 ACCTTGTATATTTGGCCATAT-GAGTAAGTATTTATGTGATGATATACTTG-
1 ACCTTGTATATTCGGCCATGTAG-GTAAGTATTTATGTGATGATATA-TTGA
* *
55825053 ATCTTGCATATTCGGCCA
1 ACCTTGTATATTCGGCCA
55825071 AATGAGTGGT
Statistics
Matches: 153, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.01
50 149 0.97
51 3 0.02
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (50 bp):
ACCTTGTATATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGA
Found at i:55826323 original size:23 final size:23
Alignment explanation
Indices: 55826293--55826341 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
55826283 TTTACTGATT
55826293 AGGCACTTTAAGTGTCGTATATC
1 AGGCACTTTAAGTGTCGTATATC
* *
55826316 AGGCACTTTATGTGTCGTATTTC
1 AGGCACTTTAAGTGTCGTATATC
55826339 AGG
1 AGG
55826342 TACCTCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (23 bp):
AGGCACTTTAAGTGTCGTATATC
Found at i:55826382 original size:21 final size:21
Alignment explanation
Indices: 55826333--55826383 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
55826323 TTATGTGTCG
55826333 TATTTCAGGTACCTCGTGTGT
1 TATTTCAGGTACCTCGTGTGT
* *
55826354 TATATCAGGTACCTTGTGTGT
1 TATTTCAGGTACCTCGTGTGT
*
55826375 TGTTTCAGG
1 TATTTCAGG
55826384 CACTTATGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (21 bp):
TATTTCAGGTACCTCGTGTGT
Found at i:55836761 original size:13 final size:13
Alignment explanation
Indices: 55836745--55836779 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
55836735 CTTAGGATAT
55836745 GGGCGTGTGCCTA
1 GGGCGTGTGCCTA
55836758 GGGCGTGTGCCTA
1 GGGCGTGTGCCTA
*
55836771 GGCCGTGTG
1 GGGCGTGTG
55836780 AAGTCTGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.23, G:0.49, T:0.23
Consensus pattern (13 bp):
GGGCGTGTGCCTA
Found at i:55839052 original size:68 final size:68
Alignment explanation
Indices: 55838936--55839073 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
55838926 TTCGATAACC
*
55838936 TTTGATTTTCCCCGATCAAAATCCGATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
1 TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
55839001 CAT
66 CAT
* * *
55839004 TTTGATTTTCCCCGATCTAAATCCAATTTCTTTCGTTCTTTATGTATATACATTCAAAATTAACT
1 TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
55839069 CAT
66 CAT
55839072 TT
1 TT
55839074 ATTCATCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.45
Consensus pattern (68 bp):
TTTGATTTTCCCCGATCAAAATCCAATTTCTTTCGTTCTTGATCTATATACATTCAAAATTAACT
CAT
Found at i:55843121 original size:24 final size:25
Alignment explanation
Indices: 55843076--55843130 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
55843066 ACATAAAATC
*
55843076 CCAT-ATTTTCCTCCTTAAATCTGT
1 CCATGATTTTCCTCCTTAAATCTCT
*
55843100 CCCTGATTTT-CTCC-TAATATCTCT
1 CCATGATTTTCCTCCTTAA-ATCTCT
55843124 CCATGAT
1 CCATGAT
55843131 ACACTCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.12
24 18 0.69
25 5 0.19
ACGTcount: A:0.20, C:0.31, G:0.05, T:0.44
Consensus pattern (25 bp):
CCATGATTTTCCTCCTTAAATCTCT
Found at i:55850083 original size:46 final size:46
Alignment explanation
Indices: 55850016--55850191 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
55850006 TGTAACCCGC
*
55850016 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAT
* * * *
55850062 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACG-TTCGCAT
* *** * * * *
55850108 ACATCTCTCGAACTCAGACTCAACTGAACAAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAT
* *
55850155 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGA
55850192 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 70 0.68
47 33 0.32
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGACGTTCGCAT
Found at i:55850129 original size:93 final size:93
Alignment explanation
Indices: 55850024--55850195 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
55850014 GCCCATAAGT
* * *
55850024 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55850089 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
55850117 GAACTCAGACTCAACTGAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
55850182 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
55850196 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55855623 original size:93 final size:93
Alignment explanation
Indices: 55855517--55855688 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
55855507 GCCCATAAGT
* * *
55855517 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55855582 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
55855610 GAACTCGGACTCAACTCAATGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
55855675 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
55855689 CAAACATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:55855684 original size:46 final size:46
Alignment explanation
Indices: 55855509--55855685 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
55855499 TGTAACCCGC
*** *
55855509 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATATTAGCAT
** *
55855555 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT-ATTAGCAT
* *** * * *
55855601 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGATATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATATTAGCAT
*
55855648 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
55855686 GCCCAAACAT
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 72 0.67
47 35 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATATTAGCAT
Found at i:55857647 original size:43 final size:43
Alignment explanation
Indices: 55857600--55857714 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
55857590 ATTACATATT
* * *
55857600 GATGCCGATACCCCAG-CTATGGTCTTACTCGAAATCAAATAAC
1 GATGCCAATATCCCAGAC-ATGGTCTTACACGAAATCAAATAAC
* * * *
55857643 GATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATAAT
1 GATGCCAATATCCCAGACATGGTCTTACACGAAATCAAATAAC
*
55857686 GATGCCAATTTCCCAGACATGGTCTTACA
1 GATGCCAATATCCCAGACATGGTCTTACA
55857715 TATAATTACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 62 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
GATGCCAATATCCCAGACATGGTCTTACACGAAATCAAATAAC
Found at i:55864776 original size:32 final size:32
Alignment explanation
Indices: 55864735--55864813 Score: 131
Period size: 32 Copynumber: 2.5 Consensus size: 32
55864725 ACAGTCTCAA
* *
55864735 TTGGGCCTAGCCCATCTCAGAATAAATATCAG
1 TTGGGCCTAGCCCATATCAGAACAAATATCAG
*
55864767 TTGGGCCTAGCCCATATCAGAACCAATATCAG
1 TTGGGCCTAGCCCATATCAGAACAAATATCAG
55864799 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
55864814 TTCAATATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAGAACAAATATCAG
Found at i:55872180 original size:26 final size:26
Alignment explanation
Indices: 55872149--55872198 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
55872139 ATGGATTAAT
55872149 TTTTAGCATTTATGAACCCAATTGAA
1 TTTTAGCATTTATGAACCCAATTGAA
55872175 TTTTAGCATTTATGAACCCAATTG
1 TTTTAGCATTTATGAACCCAATTG
55872199 TGAAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTTAGCATTTATGAACCCAATTGAA
Found at i:55873465 original size:47 final size:47
Alignment explanation
Indices: 55873223--55873494 Score: 165
Period size: 47 Copynumber: 5.8 Consensus size: 47
55873213 TGGGTTAATG
* *
55873223 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGC-C-ACATTA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGAGA-TA
* *
55873267 TGAGAGCCAGTGTAAGACCATGTATGGGACATGTG-ATC-AGCATCGAGGTGA
1 T--GAGCCAGTGTAAGACCATGTCTGGGACATG-GCATCGA-C-TCGAGAT-A
* * * * * *
55873318 -GTGCTAGTGTAAGA-CATGTATGGGACAT-GCATCGGCCTCAAGACA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATA
* * * * ** *
55873363 TAAGCCAGTGTAAGA-TATGTCTAGGACAT-CCATCGGTTACGAAATGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT-A
* *
55873410 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
* *
55873456 TGAGCCAGTGTAAGACCATGTCTAGGACTTGGCATCGAC
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
55873495 ACCTTACTCC
Statistics
Matches: 177, Mismatches: 33, Indels: 33
0.73 0.14 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 63 0.36
47 80 0.45
48 24 0.14
49 1 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
Found at i:55875142 original size:29 final size:30
Alignment explanation
Indices: 55875089--55875146 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
55875079 TGGAAGTTTT
**
55875089 GGCACTAAGTGTGTTATTTAAACTAGCTTG
1 GGCACTAAGTGTGCGATTTAAACTAGCTTG
55875119 GGCACTAAGTGTGCGATTT-AACTAGCTT
1 GGCACTAAGTGTGCGATTTAAACTAGCTT
55875147 CGGCTATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (30 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTG
Found at i:55876619 original size:32 final size:32
Alignment explanation
Indices: 55876579--55876642 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
55876569 TTGTATTAAG
*
55876579 CCTCAAATGATGGTAATTATTCATTTTGATTT
1 CCTCAAATGATGGTAATTATTCATTTTAATTT
55876611 CCTCAAATGATGGTAATTATTCATTTTAATTT
1 CCTCAAATGATGGTAATTATTCATTTTAATTT
55876643 GTATGCAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (32 bp):
CCTCAAATGATGGTAATTATTCATTTTAATTT
Found at i:55891128 original size:15 final size:15
Alignment explanation
Indices: 55891108--55891137 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55891098 ATATGTTAGT
55891108 TCAATTTCACTTTTC
1 TCAATTTCACTTTTC
55891123 TCAATTTCACTTTTC
1 TCAATTTCACTTTTC
55891138 AAATGTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (15 bp):
TCAATTTCACTTTTC
Found at i:55892165 original size:24 final size:24
Alignment explanation
Indices: 55892125--55892189 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
55892115 TGTGATTATA
*
55892125 AAATTAAAATACT-AAATTATATT-
1 AAATTAAAATA-TAAAATTAAATTC
55892148 AGAATTAAAATATAAAATTAAATTC
1 A-AATTAAAATATAAAATTAAATTC
*
55892173 AAATTTTAAATATAAAA
1 AAA-TTAAAATATAAAA
55892190 ACTAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 2 0.06
24 21 0.58
25 13 0.36
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATTAAAATATAAAATTAAATTC
Found at i:55912882 original size:40 final size:41
Alignment explanation
Indices: 55912835--55913019 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 41
55912825 CTCGCACAAG
* * * * *
55912835 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
*
55912875 GCCTTCGGGACTTAGCCTGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
** *
55912915 GCCTTC-GGATCTTAGTTCGGATGTAGTCGCTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAT
* * *
55912955 GCCTTCGGGACTTAGCTCGGATATAGTCGCTTAGTACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
55912996 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
55913020 CATTCGACTA
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 89 0.70
41 35 0.28
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
Found at i:55916483 original size:28 final size:28
Alignment explanation
Indices: 55916420--55916517 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
55916410 ATATTAAGTC
*
55916420 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55916447 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55916475 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
55916503 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55916518 GTACAATTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.32
28 46 0.68
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55923303 original size:79 final size:80
Alignment explanation
Indices: 55923205--55923351 Score: 242
Period size: 79 Copynumber: 1.9 Consensus size: 80
55923195 TCCTCGTTCA
* *
55923205 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
55923269 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* * *
55923284 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
55923349 TTA
66 TTA
55923352 GTATCTCGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
79 35 0.56
80 27 0.44
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACATAGCCCGGATTTAATAACTCACACGAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACG
Found at i:55923306 original size:40 final size:39
Alignment explanation
Indices: 55923205--55923427 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
55923195 TCCTCGTTCA
* * * *
55923205 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * *
55923244 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
55923283 GAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * *
55923323 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * * * * * *
55923363 AAAGGCCTTC-AGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCAC
*
55923404 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55923428 CAGTATTCAA
Statistics
Matches: 156, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 36 0.23
40 113 0.72
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
Found at i:55923435 original size:41 final size:41
Alignment explanation
Indices: 55923359--55923436 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55923349 TTAGTATCTC
* *
55923359 GCACAAAGGCCTTCAGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCAGATCTTAGCCCGGACATATTCACTTA
*
55923400 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGTATTCA
1 GCACAAAGGCCTTC-AGATCTTAGCCCGGACA-TATTCA
55923437 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:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAAGGCCTTCAGATCTTAGCCCGGACATATTCACTTA
Found at i:55930701 original size:40 final size:39
Alignment explanation
Indices: 55930600--55930822 Score: 223
Period size: 40 Copynumber: 5.6 Consensus size: 39
55930590 TCCTCGTTCA
* * * *
55930600 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * * * *
55930639 AGTGCCTTCGGGACATAACCCGGATCTAACAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
55930678 GAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * *
55930718 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
* * * * * *
55930758 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCAC
*
55930799 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
55930823 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 35 0.23
40 111 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC
Found at i:55930831 original size:41 final size:41
Alignment explanation
Indices: 55930754--55930831 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55930744 TTAGTATCTC
* * *
55930754 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55930795 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55930832 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:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55935197 original size:28 final size:28
Alignment explanation
Indices: 55935134--55935284 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
55935124 ATATTAAGTC
*
55935134 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55935161 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55935189 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55935217 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55935245 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55935274 CGCACACTTAG
1 CGCACACTTAG
55935285 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55944049 original size:20 final size:22
Alignment explanation
Indices: 55944024--55944063 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
55944014 TTGAAAAATA
55944024 ATAAAAAA-TT-TAGTATATGT
1 ATAAAAAAGTTCTAGTATATGT
55944044 ATAAAAAAGTTCTAGTATAT
1 ATAAAAAAGTTCTAGTATAT
55944064 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (22 bp):
ATAAAAAAGTTCTAGTATATGT
Found at i:55944103 original size:21 final size:22
Alignment explanation
Indices: 55944079--55944122 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
55944069 TTTAAGTGCT
55944079 AAATTTATATT-ATAAAA-TTAA
1 AAATTT-TATTAATAAAACTTAA
*
55944100 AAATTTTGTTAATAAAACTTAA
1 AAATTTTATTAATAAAACTTAA
55944122 A
1 A
55944123 TGTTGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 12 0.60
22 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATTTTATTAATAAAACTTAA
Found at i:55949448 original size:6 final size:7
Alignment explanation
Indices: 55949432--55949459 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
55949422 TAAAATAAGT
55949432 AAAATCA
1 AAAATCA
55949439 AAAATCA
1 AAAATCA
55949446 AAAATCA
1 AAAATCA
55949453 AAAATCA
1 AAAATCA
55949460 TGTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATCA
Found at i:55950350 original size:43 final size:43
Alignment explanation
Indices: 55950303--55950474 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
55950293 TGGGATTACA
*
55950303 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
* * *
55950346 TGTAAGACCATGTCTGAGACATTGGCATCGTTAATCA-ATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTGAGATTAT-G
* * * * * **
55950389 TGTAAAACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGAGATTATG
* * * * *
55950432 TGTAAGACCATATCTAGGATA-TGGCATTGTA-TGAGCTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
55950473 TG
1 TG
55950475 ATTTTCGAGT
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
41 8 0.08
42 9 0.09
43 77 0.79
44 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGAGATTATG
Found at i:55968633 original size:43 final size:43
Alignment explanation
Indices: 55968538--55968660 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
55968528 ACTGAGATGC
* * * * * * *
55968538 GATTACATGTAAGACCGTGTCTAGGACATTGGAATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATCA
55968581 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATCA
* * *
55968625 -ATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCG
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG
55968661 ATATGTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 65 0.94
44 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATCA
Found at i:55976451 original size:43 final size:43
Alignment explanation
Indices: 55976394--55976475 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
55976384 GATATACATG
** *
55976394 GCATCCAAGATCGTTGAGAGGTTTGAGTTCATTATGGATGTGA
1 GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGATGTGA
* * *
55976437 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGAT
1 GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGAT
55976476 ACGATACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
GCATCCAAGATCGTTGAGAGGTCCGAGTTCATAATGGATGTGA
Found at i:55985183 original size:43 final size:43
Alignment explanation
Indices: 55985112--55985322 Score: 291
Period size: 43 Copynumber: 4.9 Consensus size: 43
55985102 CGTACGGTAC
*
55985112 TATTCGGGCCTTCGAGCCTAGCAGGCTATTATGCCGGTGAGTTAA
1 TATT-GGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
* * * *
55985157 TATCAGGG-TTCGAGCCTAGTAGGCTATAATGCCGATGAGTTCA
1 TAT-TGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
* * *
55985200 TATCGAGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGTTAA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
55985243 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
* *
55985286 TATTGGGCTTCGAGCCTAGCAGGC-GTAATGTCGGTGA
1 TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
55985323 ATGAGTTCAG
Statistics
Matches: 148, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
42 13 0.09
43 129 0.87
45 6 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
TATTGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAA
Found at i:55985917 original size:16 final size:18
Alignment explanation
Indices: 55985886--55985918 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55985876 AACTCATCAC
55985886 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
55985904 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
55985919 AATTCGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:55992346 original size:43 final size:43
Alignment explanation
Indices: 55992279--55992529 Score: 335
Period size: 43 Copynumber: 5.8 Consensus size: 43
55992269 ACGGTACTAT
* *
55992279 TCGGGCCTTCGAGCCTAGAAGGCTATAATGCCGATGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* ** *
55992323 TCGGGCTTTGAGTGTAGTAGGCTATAATGCCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
55992366 TTGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* *
55992409 TCGGGCTTCGAGCGTAGCAGGCTATAATGCCGGTGAGTCAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
* * * *
55992452 TCAGGCTTCGAGCCTAGCAAGCTATAATACCAGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
*
55992495 TCGGGAGTT-GAGCCTAGCAGGC-ATAATGCCGGTGA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATGCCGGTGA
55992530 ATGAGTTCAG
Statistics
Matches: 180, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 11 0.06
43 162 0.90
44 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGTTAATA
Found at i:55993125 original size:16 final size:18
Alignment explanation
Indices: 55993094--55993126 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55993084 AACTCGTCAC
55993094 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
55993112 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
55993127 AGTTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:55996089 original size:22 final size:22
Alignment explanation
Indices: 55996050--55996092 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
55996040 ATCACTCTTC
* *
55996050 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
55996072 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
55996093 CTTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:55998650 original size:46 final size:47
Alignment explanation
Indices: 55998597--55998818 Score: 269
Period size: 46 Copynumber: 4.8 Consensus size: 47
55998587 TATTTGGGCA
*
55998597 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGC-AAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
55998643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
* * * * *
55998689 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAAGCG
* *
55998736 TCCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GCG
* *
55998783 -CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55998819 GCGGGTTACA
Statistics
Matches: 153, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.01
46 108 0.71
47 31 0.20
48 4 0.03
50 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGCG
Found at i:56001801 original size:14 final size:15
Alignment explanation
Indices: 56001752--56001801 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
56001742 GTAACTTGGG
*
56001752 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
56001767 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56001782 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56001796 TTTCTT
1 TTTCTT
56001802 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56004248 original size:46 final size:46
Alignment explanation
Indices: 56004195--56004370 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
56004185 TATTTGGGCA
56004195 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*
56004241 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * * *
56004287 TGCGAACGCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
56004334 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56004371 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 73 0.66
47 28 0.25
48 2 0.02
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:56005739 original size:27 final size:27
Alignment explanation
Indices: 56005699--56005810 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
56005689 AGGAAGCGTC
*
56005699 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
56005726 CTGGTGGCTCTGCCACAAATT-TATGTT
1 CTGGTGGCTCTGCCAC-AATTATCTGAT
* * *
56005753 CTAGAGGCTCTGCCACTATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
** * *
56005781 CTGGTGATTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
56005807 CTGG
1 CTGG
56005811 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 8 0.12
27 44 0.65
28 16 0.24
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:56018947 original size:23 final size:23
Alignment explanation
Indices: 56018917--56018971 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
56018907 AGAATCAGTC
56018917 AGATCATGCTGAGCATTTAAGAG
1 AGATCATGCTGAGCATTTAAGAG
56018940 AGATCATGCTGAGCATTTAAGAG
1 AGATCATGCTGAGCATTTAAGAG
* *
56018963 TGGTCATGC
1 AGATCATGC
56018972 AAACTTTGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (23 bp):
AGATCATGCTGAGCATTTAAGAG
Found at i:56020954 original size:54 final size:54
Alignment explanation
Indices: 56020872--56020979 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
56020862 TCGTACGAGA
*
56020872 TTACTAAAAGAATCAGTTTTGTAGCTTACAGATTAACTTTACCTCCTAAACTTG
1 TTACTAAAAGAATCAGTCTTGTAGCTTACAGATTAACTTTACCTCCTAAACTTG
*
56020926 TTACTAAAAGAATCAGTCTTGTAGCTTACAGATTAGCTTTACCTCCTAAACTTG
1 TTACTAAAAGAATCAGTCTTGTAGCTTACAGATTAACTTTACCTCCTAAACTTG
56020980 AGAAAATTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (54 bp):
TTACTAAAAGAATCAGTCTTGTAGCTTACAGATTAACTTTACCTCCTAAACTTG
Found at i:56022443 original size:20 final size:20
Alignment explanation
Indices: 56022387--56022488 Score: 75
Period size: 20 Copynumber: 5.1 Consensus size: 20
56022377 AATTATTGTA
*
56022387 TGATTGCACATACGTTCCCC
1 TGATTGCACATACGTGCCCC
* *
56022407 T-ATTTGTAC-TTCGGTGCCCC
1 TGA-TTGCACATAC-GTGCCCC
56022427 TGATTGCACATACGTGCCCC
1 TGATTGCACATACGTGCCCC
* * ** *
56022447 T-ATTTGTACTTTGGTACCCC
1 TGA-TTGCACATACGTGCCCC
*
56022467 TGATTGCACATATGTGCCCC
1 TGATTGCACATACGTGCCCC
56022487 TG
1 TG
56022489 TTTGTATTTC
Statistics
Matches: 61, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
19 4 0.07
20 53 0.87
21 4 0.07
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (20 bp):
TGATTGCACATACGTGCCCC
Found at i:56022447 original size:40 final size:40
Alignment explanation
Indices: 56022387--56022708 Score: 369
Period size: 40 Copynumber: 8.1 Consensus size: 40
56022377 AATTATTGTA
* *
56022387 TGATTGCACATACGTTCCCCTATTTGTACTTCGGTGCCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
56022427 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
56022467 TGATTGCACATATGTGCCCCTGTTTGTATTTCGATACCCA
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * *
56022507 TAATTGCACATACGTGCCCCTATTTGTACTTTGATAACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGT-ACCCC
* *
56022548 -GATTGTACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* ** * *
56022587 TGATTGTACATATATGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * * *
56022627 TAATTGCACAAATGTGCCCCTGTTTGTACTTCAGTA-CCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
56022666 TGATTGCACATACGAGCCCCTATTTATACTTTGGTAACCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
56022706 TGA
1 TGA
56022709 ATCAAATAGT
Statistics
Matches: 240, Mismatches: 39, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
39 35 0.15
40 201 0.84
41 4 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:56022520 original size:80 final size:80
Alignment explanation
Indices: 56022387--56022708 Score: 407
Period size: 80 Copynumber: 4.0 Consensus size: 80
56022377 AATTATTGTA
* * * *
56022387 TGATTGCACATACGTTCCCCTATTTGTACTTCGGTGCCCCTGATTGCACATACGTGCCCCTATTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTT
56022452 GTACTTTGGTACCCC
66 GTACTTTGGTACCCC
* * * *
56022467 TGATTGCACATATGTGCCCCTGTTTGTATTTCGATACCCATAATTGCACATACGTGCCCCTATTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTT
*
56022532 GTACTTTGATAACCCC
66 GTACTTTGGT-ACCCC
* * * ** *
56022548 -GATTGTACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGTACATATATGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTT
56022612 GTACTTTGGTACCCC
66 GTACTTTGGTACCCC
* * * * *
56022627 TAATTGCACAAATGTGCCCCTGTTTGTACTTC-AGTA-CCTTGATTGCACATACGAGCCCCTATT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGA-TACCCCTGATTGCACATACGTGCCCCTATT
* *
56022690 TATACTTTGGTAACCC
65 TGTACTTTGGTACCCC
56022706 TGA
1 TGA
56022709 ATCAAATAGT
Statistics
Matches: 205, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
79 42 0.20
80 158 0.77
81 5 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (80 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTT
GTACTTTGGTACCCC
Found at i:56022605 original size:120 final size:120
Alignment explanation
Indices: 56022389--56022708 Score: 414
Period size: 120 Copynumber: 2.7 Consensus size: 120
56022379 TTATTGTATG
* * *
56022389 ATTGCACATACGTTCCCCTATTTGTACTTCGGTGCCCCTGATTGCACATACGTGCCCCTATTTGT
1 ATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGT
* *
56022454 ACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTTGTA-TTTCGATACCCATA
66 ACTTCGGTACCCCTGATTGCACATATATGCCCCTGTTTGTACTTT-GATACCCATA
* * *
56022509 ATTGCACATACGTGCCCCTATTTGTACTTTGATAACCCC-GATTGTACATACGTGCCCCTGTTTG
1 ATTGCACATACGTGCCCCTATTTGTACTTCGAT-ACCCCTGATTGCACATACGTGCCCCTATTTG
* * *
56022573 TACTTCGGTACCCCTGATTGTACATATATGCCCCTGTTTGTACTTTGGTACCCCTA
65 TACTTCGGTACCCCTGATTGCACATATATGCCCCTGTTTGTACTTTGATACCCATA
* * * * * *
56022629 ATTGCACAAATGTGCCCCTGTTTGTACTTC-AGTA-CCTTGATTGCACATACGAGCCCCTATTTA
1 ATTGCACATACGTGCCCCTATTTGTACTTCGA-TACCCCTGATTGCACATACGTGCCCCTATTTG
* *
56022692 TACTTTGGTAACCCTGA
65 TACTTCGGTACCCCTGA
56022709 ATCAAATAGT
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
118 2 0.01
119 38 0.22
120 127 0.73
121 7 0.04
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (120 bp):
ATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGATTGCACATACGTGCCCCTATTTGT
ACTTCGGTACCCCTGATTGCACATATATGCCCCTGTTTGTACTTTGATACCCATA
Found at i:56022626 original size:20 final size:20
Alignment explanation
Indices: 56022443--56022627 Score: 72
Period size: 20 Copynumber: 9.2 Consensus size: 20
56022433 CACATACGTG
*
56022443 CCCCTATTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * *
56022463 CCCCTGATTGCACATAT-GTG
1 CCCCTGTTTGTAC-TTTGGTA
*
56022483 CCCCTGTTTGTA-TTTCGATA
1 CCCCTGTTTGTACTTT-GGTA
* ** * * ** *
56022503 CCCATAATTGCACATACGTG
1 CCCCTGTTTGTACTTTGGTA
* *
56022523 CCCCTATTTGTACTTTGATAA
1 CCCCTGTTTGTACTTTGGT-A
* * ** *
56022544 CCCC-GATTGTACATACGTG
1 CCCCTGTTTGTACTTTGGTA
*
56022563 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * *
56022583 CCCCTGATTGTACATAT-ATG
1 CCCCTGTTTGTAC-TTTGGTA
56022603 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
56022623 CCCCT
1 CCCCT
56022628 AATTGCACAA
Statistics
Matches: 109, Mismatches: 48, Indels: 16
0.63 0.28 0.09
Matches are distributed among these distances:
18 2 0.02
19 6 0.06
20 93 0.85
21 8 0.07
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:56026448 original size:40 final size:40
Alignment explanation
Indices: 56026404--56026575 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
56026394 GGACTAAGAT
*
56026404 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
56026444 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
56026484 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
56026524 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
56026563 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56026576 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:56026489 original size:80 final size:79
Alignment explanation
Indices: 56026404--56026575 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
56026394 GGACTAAGAT
*
56026404 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
56026468 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
56026484 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
56026549 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
56026563 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56026576 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56026593 original size:79 final size:80
Alignment explanation
Indices: 56026431--56026608 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
56026421 AGATACAAAT
* * * *
56026431 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56026496 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
56026511 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56026575 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56026590 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56026609 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56033791 original size:40 final size:40
Alignment explanation
Indices: 56033747--56033918 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
56033737 GGACTAAGAT
*
56033747 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
*
56033787 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
56033827 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
56033867 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
56033906 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56033919 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.29
40 81 0.69
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:56033936 original size:79 final size:80
Alignment explanation
Indices: 56033774--56033951 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
56033764 AGATACAAAT
* * * *
56033774 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56033839 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
56033854 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56033918 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56033933 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56033952 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56036090 original size:18 final size:19
Alignment explanation
Indices: 56036060--56036097 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
56036050 ATACTGAATC
56036060 ATCATCGAATCATTTTTGA
1 ATCATCGAATCATTTTTGA
56036079 ATCATC-AATCATTTTTGA
1 ATCATCGAATCATTTTTGA
56036097 A
1 A
56036098 CATATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATCGAATCATTTTTGA
Found at i:56040419 original size:27 final size:27
Alignment explanation
Indices: 56040389--56040805 Score: 358
Period size: 27 Copynumber: 15.6 Consensus size: 27
56040379 TAATAAAGAG
*
56040389 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56040416 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
56040442 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
56040469 AAATTACCAAAATACACTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
56040495 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
56040522 AAATTACCAAAATACCCTCGA-TTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56040548 AAATTA-TCGAAATACCCTTGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
56040574 AAATTGCTGAAATACCCTCAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
56040601 AAATTACCGAAATACCGTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56040627 AAATTA-TCAAAATGCCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56040654 AAATTA-TCGAAATACCCTCAATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
56040681 AAATTA--GCACAATACCCTCGATTTGTA
1 AAATTACTG-A-AATACCCTCGATTTGTA
** * *
56040708 AAATTACCAAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56040735 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
* * *
56040762 AAATTACTGAAACACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
* *
56040789 AAATGACTGACATACCC
1 AAATTACTGAAATACCC
56040806 CTGTACGGTA
Statistics
Matches: 319, Mismatches: 55, Indels: 32
0.79 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 107 0.34
27 209 0.66
28 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:56040468 original size:53 final size:53
Alignment explanation
Indices: 56040389--56040779 Score: 405
Period size: 53 Copynumber: 7.3 Consensus size: 53
56040379 TAATAAAGAG
* * *
56040389 AAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTGTA
* * *
56040442 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACACTCGATTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTGTA
* *
56040495 AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTGTA
* * * * * *
56040548 AAATTA-TCGAAATACCCTTGA-TTGTGAAATT-GCTGAAATACCCTCAATTTTTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATC-AAAATACCCTCGA-TTGTA
* * * * *
56040601 AAATTACCGAAATACCGTC-AATTGTGAAATTATCAAAATGCCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGA-TTGTA
* * * *
56040654 AAATTA-TCGAAATACCCTCAATTTGTGAAATTAGCACAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGA-TTGTA
** * * * * *
56040708 AAATTACCAAAACACCCCCGATTTGTAAAATTATCGAAATACCCTTGTAGTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCG-ATTGTA
*
56040762 AAATTACTGAAACACCCT
1 AAATTACTGAAATACCCT
56040780 TGTAGTGTAA
Statistics
Matches: 288, Mismatches: 40, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.00
52 22 0.08
53 178 0.62
54 86 0.30
55 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGATTGTA
Found at i:56040650 original size:132 final size:132
Alignment explanation
Indices: 56040389--56040750 Score: 469
Period size: 132 Copynumber: 2.7 Consensus size: 132
56040379 TAATAAAGAG
*
56040389 AAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTGAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTGAAA
* * * *
56040454 TACCCTCGATTTGTAAAATTACCAAAATACACTCGATTGTGAAATTACTGAAATACCCTTGATTT
66 TACCCTCGATTTGTAAAATTACCGAAATAC-CTCAATTGTGAAATTACTAAAATACCCTCGATTT
56040519 GTA
130 GTA
* * * *
56040522 AAATTACCAAAATACCCTCGA-TTGTAAAATTATCGAAATACCCTTGATTGTGAAATTGCTGAAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTGAAA
* * *
56040586 TACCCTCAATTTTTAAAATTACCGAAATACCGTCAATTGTGAAATTA-TCAAAATGCCCTCGATT
66 TACCCTCGATTTGTAAAATTACCGAAATACC-TCAATTGTGAAATTACT-AAAATACCCTCGATT
56040650 TGTA
129 TGTA
* * * * **
56040654 AAATTATCGAAATACCCTCAATTTGTGAAATTAGC-ACAATACCCTCGATTTGTAAAATTACCAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGA-AATACCCTCGA-TTGTGAAATTACTGA
* * *
56040718 AACACCCCCGATTTGTAAAATTATCGAAATACC
64 AATACCCTCGATTTGTAAAATTACCGAAATACC
56040751 CTTGTAGTGT
Statistics
Matches: 197, Mismatches: 27, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
131 2 0.01
132 117 0.59
133 39 0.20
134 39 0.20
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (132 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTGAAA
TACCCTCGATTTGTAAAATTACCGAAATACCTCAATTGTGAAATTACTAAAATACCCTCGATTTG
TA
Found at i:56040810 original size:27 final size:27
Alignment explanation
Indices: 56040743--56040821 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
56040733 TAAAATTATC
*
56040743 GAAATACCCTTGTAGTGTAAAATTACT
1 GAAATACCCTTGTAGTGTAAAATGACT
*
56040770 GAAACACCCTTGTAGTGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
* *
56040797 GACATACCCCTGTACG-GTAAAATGA
1 GAAATACCCTTGTA-GTGTAAAATGA
56040822 TTGTTTTGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACT
Found at i:56055972 original size:47 final size:45
Alignment explanation
Indices: 56055869--56055994 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 45
56055859 GTGTTACACT
56055869 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA-CTCAATAC
* *
56055915 TGATGCCATGTCCCAGACATGGTCTTACACT-GTCTCTCA-T-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCACTCAA--T-AC
56055963 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
56055995 ACACCAATGA
Statistics
Matches: 70, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
45 2 0.03
46 16 0.23
47 31 0.44
48 21 0.30
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCACTCAATAC
Found at i:56059126 original size:22 final size:22
Alignment explanation
Indices: 56059101--56059148 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
56059091 ACCATTCGAA
*
56059101 CTTGACAACCTTTTGTAACAAC
1 CTTGACAACCATTTGTAACAAC
* * *
56059123 CTTGTCATCCATTTGTAACAGC
1 CTTGACAACCATTTGTAACAAC
56059145 CTTG
1 CTTG
56059149 TCACCGAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (22 bp):
CTTGACAACCATTTGTAACAAC
Found at i:56063390 original size:47 final size:46
Alignment explanation
Indices: 56063321--56063728 Score: 238
Period size: 47 Copynumber: 8.7 Consensus size: 46
56063311 GTGTAATGCC
*
56063321 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCATCAAGTCG
* * *
56063368 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAGAATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC--CATC-AAGTCG
* * * *
56063417 ACGCCATGCCCCAGACATGGTCTTACATTAGCTCTCACAT-ATTCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-CATCA--AGT--CG
* * *
56063467 ATGCCATGT-CCAGACATGGTCTTACATTGACGC-CTCTAT-ATGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-A-GCTCTCCATCAAGT--CG
* * * * * *
56063514 ATGCCATGTCCCAAACTTGGTCTTACACT-GACACAT-C-TCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTC-TCCATC-AAGTCG
* *
56063560 ATG-TATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTCAAGCTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCA--TCAAG-TCG
* *
56063606 AT-ACATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--CATCAA-GTCG
* * *
56063652 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATGATGTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATCAAGT--C-G
*
56063700 ATG-CATGTCCCAGACAT-GTCTTGCACTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG
56063729 TGCACAAATG
Statistics
Matches: 287, Mismatches: 40, Indels: 69
0.72 0.10 0.17
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 11 0.04
45 17 0.06
46 62 0.22
47 77 0.27
48 44 0.15
49 58 0.20
50 14 0.05
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCATCAAGTCG
Found at i:56063614 original size:46 final size:46
Alignment explanation
Indices: 56063564--56063728 Score: 183
Period size: 46 Copynumber: 3.5 Consensus size: 46
56063554 TAGCCAATGT
56063564 ATGTCCCAGACATGTCTTACACTAGCT-TACATCTCAAGCTCGATAC
1 ATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGCTCGATAC
* *
56063610 ATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC-CGATGCC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA-GCTCGAT-AC
* * *** *
56063657 ATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCT-GATGC
1 ATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGCTCGATAC
*
56063704 ATGTCCCAGACATGTCTTGCACTAG
1 ATGTCCCAGACATGTCTTACACTAG
56063729 TGCACAAATG
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
46 48 0.47
47 31 0.30
48 22 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGCTCGATAC
Found at i:56070818 original size:42 final size:43
Alignment explanation
Indices: 56070710--56070823 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
56070700 AGCTCGTATA
* * *
56070710 ATGCCAAC-GTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * * *
56070753 ATGCCACTATTCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAAACATGGTCTTACACGAAATCAAATATCG
*
56070795 ATGCTGA-TGTCCCAAACATGGTCTTACAC
1 ATGC-CACTGTCCCAAACATGGTCTTACAC
56070824 ATAAACCTCA
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAAACATGGTCTTACACGAAATCAAATATCG
Found at i:56079450 original size:28 final size:28
Alignment explanation
Indices: 56079410--56079469 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
56079400 GAAGAGAGGT
* *
56079410 GAGGGATTTTTACATGAGGATTTTGGAA
1 GAGGGATTTTTACACGAGGAATTTGGAA
*
56079438 GAGGGATTTTTACACGAGGAATTTGGAG
1 GAGGGATTTTTACACGAGGAATTTGGAA
56079466 GAGG
1 GAGG
56079470 ATTCAGGGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.05, G:0.37, T:0.30
Consensus pattern (28 bp):
GAGGGATTTTTACACGAGGAATTTGGAA
Found at i:56082638 original size:27 final size:26
Alignment explanation
Indices: 56082580--56082687 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
56082570 TGGCTGCCAA
* *
56082580 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
56082606 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
56082634 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
*
56082661 ATCAGATAATTGTGGC-GTAGCCACCAG
1 AACAGATAA-TGTGGCAG-AGCCACCAG
56082688 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
26 3 0.04
27 54 0.73
28 17 0.23
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:56082670 original size:54 final size:54
Alignment explanation
Indices: 56082580--56082687 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
56082570 TGGCTGCCAA
*
56082580 AACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGC-GTAGCCACCAG
* *
56082634 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCGTAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCACCAG
56082688 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 30 0.61
55 18 0.37
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCACCAG
Found at i:56088832 original size:13 final size:13
Alignment explanation
Indices: 56088814--56088841 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56088804 TTATAGACAG
56088814 CTTAATAAGGTGA
1 CTTAATAAGGTGA
56088827 CTTAATAAGGTGA
1 CTTAATAAGGTGA
56088840 CT
1 CT
56088842 ATAAAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (13 bp):
CTTAATAAGGTGA
Found at i:56093858 original size:19 final size:19
Alignment explanation
Indices: 56093819--56093858 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
56093809 AAGTAGTCGT
*
56093819 AAAATAAAATAAAAGTAAA
1 AAAATAAAATAAAAATAAA
56093838 AAAATAAAATAATAAATAAA
1 AAAATAAAATAA-AAATAAA
56093858 A
1 A
56093859 GTTTTTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAAATAAAAATAAA
Found at i:56103619 original size:16 final size:16
Alignment explanation
Indices: 56103598--56103643 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
56103588 TTCCCTGATG
56103598 GTATAATTCATGATTT
1 GTATAATTCATGATTT
*
56103614 GTAT-A---ATGATAT
1 GTATAATTCATGATTT
56103626 GTATAATTCATGATTT
1 GTATAATTCATGATTT
56103642 GT
1 GT
56103644 TCGCTATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
12 10 0.42
13 1 0.04
15 1 0.04
16 12 0.50
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (16 bp):
GTATAATTCATGATTT
Found at i:56109313 original size:15 final size:15
Alignment explanation
Indices: 56109281--56109309 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56109271 ATTTTCTATG
56109281 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56109296 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56109310 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56112044 original size:72 final size:72
Alignment explanation
Indices: 56111963--56112129 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 72
56111953 TATGTAATTT
* *
56111963 GGGTCTAGGTACTGACTTTGTGTATAAACTCGTGAGTAACTCATTGAGT-GAGCA-TATCATGCT
1 GGGTCTAGGTACTGACTTTGTGTATAAACTCGTGAGTAACTCAATGAGTGGA-CATTA-CATGAT
56112026 AATGCTTTA
64 AATGCTTTA
* * *
56112035 GGGTCTAGGTCCTGACTTTGTGTATAAACTCGTGAGTAGCTTAATGAGTGGACATTACATGATAA
1 GGGTCTAGGTACTGACTTTGTGTATAAACTCGTGAGTAACTCAATGAGTGGACATTACATGATAA
*
56112100 TGCTTTG
66 TGCTTTA
* *
56112107 GGGTC-GGGTGCTGACTTTGTGTA
1 GGGTCTAGGTACTGACTTTGTGTA
56112130 CAGATCTGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 16 0.19
72 65 0.76
73 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (72 bp):
GGGTCTAGGTACTGACTTTGTGTATAAACTCGTGAGTAACTCAATGAGTGGACATTACATGATAA
TGCTTTA
Found at i:56114288 original size:16 final size:16
Alignment explanation
Indices: 56114267--56114297 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56114257 AAGTTAATTG
*
56114267 ATATATGTTGTAAATC
1 ATATATGATGTAAATC
56114283 ATATATGATGTAAAT
1 ATATATGATGTAAAT
56114298 GAAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (16 bp):
ATATATGATGTAAATC
Found at i:56133355 original size:383 final size:383
Alignment explanation
Indices: 56132648--56133411 Score: 1510
Period size: 383 Copynumber: 2.0 Consensus size: 383
56132638 GGAAATTTAA
56132648 TTTCAGCCCTGATTCTTTTGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGCAACATCAAA
1 TTTCAGCCCTGATTCTTTTGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGCAACATCAAA
56132713 TTCTCACTCTAACACATAGTTATGAACAATAGGTATTTTTACCGATTATGCCATTTTGCTAGTTT
66 TTCTCACTCTAACACATAGTTATGAACAATAGGTATTTTTACCGATTATGCCATTTTGCTAGTTT
56132778 TCGCTAAAAATCACTTAGAAAAGATCGTTCTCCTAACTTCAAACATTCATATTCTACCACCAAAC
131 TCGCTAAAAATCACTTAGAAAAGATCGTTCTCCTAACTTCAAACATTCATATTCTACCACCAAAC
56132843 ATCAAAATACATCCATATCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAAATAATGG
196 ATCAAAATACATCCATATCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAAATAATGG
56132908 TAGAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATATAAAGAACATTAAAAATGGGGCTTGA
261 TAGAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATATAAAGAACATTAAAAATGGGGCTTGA
56132973 ATGCACTTACTATTGAGCTTGAAAGCTTGAAACAAACCCTAGCTATGGAGAACATGTT
326 ATGCACTTACTATTGAGCTTGAAAGCTTGAAACAAACCCTAGCTATGGAGAACATGTT
*
56133031 TTTCAGCCCTTATTCTTTTGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGCAACATCAAA
1 TTTCAGCCCTGATTCTTTTGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGCAACATCAAA
56133096 TTCTCACTCTAACACATAGTTATGAACAATAGGTATTTTTACCGATTATGCCATTTTGCTAGTTT
66 TTCTCACTCTAACACATAGTTATGAACAATAGGTATTTTTACCGATTATGCCATTTTGCTAGTTT
56133161 TCGCTAAAAATCACTTAGAAAAGATCGTTCTCCTAACTTCAAACATTCATATTCTACCACCAAAC
131 TCGCTAAAAATCACTTAGAAAAGATCGTTCTCCTAACTTCAAACATTCATATTCTACCACCAAAC
56133226 ATCAAAATACATCCATATCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAAATAATGG
196 ATCAAAATACATCCATATCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAAATAATGG
*
56133291 TAGAAATAGGTAGACCGAGCTACGAGGATTTTAAAAATATAAAGAACATTAAAAATGGGGCTTGA
261 TAGAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATATAAAGAACATTAAAAATGGGGCTTGA
56133356 ATGCACTTACTATTGAGCTTGAAAGCTTGAAACAAACCCTAGCTATGGAGAACATG
326 ATGCACTTACTATTGAGCTTGAAAGCTTGAAACAAACCCTAGCTATGGAGAACATG
56133412 CAAGTTTCGG
Statistics
Matches: 379, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
383 379 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (383 bp):
TTTCAGCCCTGATTCTTTTGTTTTATGACATGCTGATCATTTTTCCCTTCTATGGCAACATCAAA
TTCTCACTCTAACACATAGTTATGAACAATAGGTATTTTTACCGATTATGCCATTTTGCTAGTTT
TCGCTAAAAATCACTTAGAAAAGATCGTTCTCCTAACTTCAAACATTCATATTCTACCACCAAAC
ATCAAAATACATCCATATCATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAAATAATGG
TAGAAATAGGTAGACCGAGCTACGAGGATTTCAAAAATATAAAGAACATTAAAAATGGGGCTTGA
ATGCACTTACTATTGAGCTTGAAAGCTTGAAACAAACCCTAGCTATGGAGAACATGTT
Found at i:56135844 original size:13 final size:13
Alignment explanation
Indices: 56135826--56135851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56135816 AACTGAGCCG
56135826 TTACAACTCTCCC
1 TTACAACTCTCCC
56135839 TTACAACTCTCCC
1 TTACAACTCTCCC
56135852 CCGTTAGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (13 bp):
TTACAACTCTCCC
Found at i:56141840 original size:38 final size:38
Alignment explanation
Indices: 56141784--56141863 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
56141774 GATGTGCATT
* *
56141784 CGGGTTAAATCCCGCAGGCTTCGTGTTGGAATTATATC
1 CGGGATAAATCCCGCAGGCTTCGTGCTGGAATTATATC
* * *
56141822 CGGGATAAATCCCGCAGGCTTGGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCTTCGTGCTGGAATTATATC
56141860 CGGG
1 CGGG
56141864 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCTTCGTGCTGGAATTATATC
Found at i:56141909 original size:43 final size:43
Alignment explanation
Indices: 56141835--56142023 Score: 292
Period size: 43 Copynumber: 4.4 Consensus size: 43
56141825 GATAAATCCC
* * *
56141835 GCAGGCTTGGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
56141876 GTAGGCTTAGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
56141919 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
56141962 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
56142005 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
56142024 AATGATATGT
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
41 14 0.10
42 2 0.01
43 119 0.88
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:56147385 original size:38 final size:38
Alignment explanation
Indices: 56147329--56147408 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
56147319 GATGTGTATT
* * * *
56147329 CGGGTTAAATCCCGCAGGCTTCGTGTTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
56147367 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
56147405 CGGG
1 CGGG
56147409 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:56147455 original size:43 final size:43
Alignment explanation
Indices: 56147380--56147568 Score: 292
Period size: 43 Copynumber: 4.4 Consensus size: 43
56147370 GATAAATCCC
* * *
56147380 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
56147421 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
56147464 GCAGGCTTAGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
56147507 GCAGGCTTCGTCCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
56147550 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
56147569 AATGATATGT
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.01
43 118 0.87
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:56147952 original size:45 final size:42
Alignment explanation
Indices: 56147885--56147992 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
56147875 TTGACTTGAT
* * *
56147885 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
**
56147930 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
56147972 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
56147993 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:56152274 original size:37 final size:37
Alignment explanation
Indices: 56152224--56152376 Score: 236
Period size: 37 Copynumber: 4.1 Consensus size: 37
56152214 TTATTACAAA
* * * *
56152224 GTCTTACCCGGACATAATCTCCACACG-ATGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGTA-GTCATCGG
* *
56152261 GTCTTACCCGGACAAAATCCCCACACGTAGTCATTGG
1 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
56152298 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
56152335 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
56152372 GTCTT
1 GTCTT
56152377 TAGAGCTCGG
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
37 108 0.99
38 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
Found at i:56152573 original size:47 final size:47
Alignment explanation
Indices: 56152495--56152954 Score: 742
Period size: 47 Copynumber: 9.7 Consensus size: 47
56152485 CCCTTCGGGA
* * ** * * *
56152495 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56152542 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56152589 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56152636 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56152683 CTTATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56152730 CTTATCACATAAATACACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56152777 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56152824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56152871 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56152920 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
56152955 AGAATCCTAA
Statistics
Matches: 390, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 343 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56171726 original size:18 final size:18
Alignment explanation
Indices: 56171703--56171745 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
56171693 TAACTCATCA
56171703 CCAAGTTCTTTAAGCAAC
1 CCAAGTTCTTTAAGCAAC
56171721 CCAAGTTCTTTAAGCAAC
1 CCAAGTTCTTTAAGCAAC
56171739 CCAAGTT
1 CCAAGTT
56171746 AAAAGTTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (18 bp):
CCAAGTTCTTTAAGCAAC
Found at i:56172865 original size:39 final size:40
Alignment explanation
Indices: 56172810--56172983 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 40
56172800 TTGATACCCT
* * * *
56172810 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
56172850 GGCTAA-ACCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
56172889 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAACCG
* * * *
56172929 GGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTA-CTATAACCG
56172968 GGCTAA-ACTCCGAAGG
1 GGCTAAGAC-CCGAAGG
56172984 TACTTGGTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 48 0.40
40 70 0.59
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:56172964 original size:40 final size:40
Alignment explanation
Indices: 56172810--56172950 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
56172800 TTGATACCCT
* * *
56172810 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCG
*
56172850 GGCTAA-ACCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
56172889 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
56172929 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
56172951 AGCTAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 33 0.36
40 59 0.64
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:56172983 original size:79 final size:78
Alignment explanation
Indices: 56172810--56172983 Score: 192
Period size: 79 Copynumber: 2.2 Consensus size: 78
56172800 TTGATACCCT
* * * *
56172810 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACCCGAAGGCATTTGTGCG
1 GGCTAACT-CCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAACCCGAAGGCATTTGAGCG
56172875 AGTTACTATAACCG
65 AGTTACTATAACCG
* * *
56172889 GGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAACTCC-GAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAA-ACCCGAAGGCATTTGAG
* *
56172953 CTAG-TAGCTATATCC-
63 CGAGTTA-CTATAACCG
56172968 GGCTAAACTCCGAAGG
1 GGCT-AACTCCGAAGG
56172984 TACTTGGTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.05
79 48 0.59
80 30 0.37
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
GGCTAACTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAACCCGAAGGCATTTGAGCGA
GTTACTATAACCG
Found at i:56180584 original size:24 final size:24
Alignment explanation
Indices: 56180539--56180647 Score: 60
Period size: 25 Copynumber: 4.4 Consensus size: 24
56180529 AGATAGTCAT
* *
56180539 ATATCGGGAAGTTCAAGTGAGCCA
1 ATATCGGGAAGCTCAAGAGAGCCA
** *
56180563 ATATCGGGAAGCTCCGGAGAGCTA
1 ATATCGGGAAGCTCAAGAGAGCCA
* ** *
56180587 TTAATCAAGAAGCTCACA-AGAGCAA
1 AT-ATCGGGAAGCTCA-AGAGAGCCA
*
56180612 ATCAAT-GGGAAGCTCACGAAGAGCCA
1 AT--ATCGGGAAGCTCAAG-AGAGCCA
56180638 TATATCGGGA
1 -ATATCGGGA
56180648 CACTCATAAG
Statistics
Matches: 62, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
24 20 0.32
25 27 0.44
26 13 0.21
27 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (24 bp):
ATATCGGGAAGCTCAAGAGAGCCA
Found at i:56182697 original size:49 final size:50
Alignment explanation
Indices: 56182634--56182799 Score: 164
Period size: 49 Copynumber: 3.4 Consensus size: 50
56182624 TAAGTCGATC
56182634 CCCAGACAGGTCTTACACTGA-CTTACATA-CATCGAGGCCGATGCCATGT
1 CCCAGACAGGTCTTACACTGAGCTTACATATC-TCGAGGCCGATGCCATGT
* * * * *
56182683 CCCGGATAGGTCTTACACT-AGCTTGCATATCTTGAGGCTGATGCCATGT
1 CCCAGACAGGTCTTACACTGAGCTTACATATCTCGAGGCCGATGCCATGT
* * * * * *
56182732 TCCAGACAGGTCTTTCACTG-GCTCTCACTTATCT--ATGTCGATCCCATGT
1 CCCAGACAGGTCTTACACTGAGCT-T-ACATATCTCGAGGCCGATGCCATGT
56182781 CCCAGACAGGTCTTACACT
1 CCCAGACAGGTCTTACACT
56182800 TACACACACA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
48 1 0.01
49 86 0.91
50 2 0.02
51 6 0.06
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (50 bp):
CCCAGACAGGTCTTACACTGAGCTTACATATCTCGAGGCCGATGCCATGT
Found at i:56202305 original size:40 final size:40
Alignment explanation
Indices: 56202205--56202469 Score: 252
Period size: 40 Copynumber: 6.7 Consensus size: 40
56202195 GCTCCTCGTT
* * * *
56202205 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
56202245 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56202284 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56202324 CAAAGGCCTTCGGGGCTTAACTCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* *
56202364 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* ** * * * *
56202404 AAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56202445 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56202470 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
39 39 0.20
40 140 0.73
41 14 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Done.